Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 160 of 199
Found at i:46853593 original size:23 final size:22
Alignment explanation
Indices: 46853551--46853593 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
46853541 AATTTTTATA
*
46853551 TTTTTATTTTAGGAATTTAATT
1 TTTTTATTTTAGGAAATTAATT
46853573 TTTTTACTTTTCA-GAAATTAA
1 TTTTTA-TTTT-AGGAAATTAA
46853594 GTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.33
23 11 0.61
24 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTTATTTTAGGAAATTAATT
Found at i:46855829 original size:9 final size:10
Alignment explanation
Indices: 46855817--46855854 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
46855807 ATGTTTTAGC
46855817 AATT-TTATT
1 AATTATTATT
46855826 AATTATTATT
1 AATTATTATT
46855836 -ATTATTATT
1 AATTATTATT
46855845 -ATTATTATT
1 AATTATTATT
46855854 A
1 A
46855855 TCATCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 22 0.81
10 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTATTATT
Found at i:46855835 original size:3 final size:3
Alignment explanation
Indices: 46855821--46855855 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
46855811 TTTAGCAATT
46855821 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46855856 CATCATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:46856550 original size:110 final size:110
Alignment explanation
Indices: 46856357--46856751 Score: 591
Period size: 110 Copynumber: 3.6 Consensus size: 110
46856347 AATATTTAGC
* * * *
46856357 CGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTAGGTATTGATTTTTCTCGTTCAACCAAAT
1 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
46856422 GGCTTAATATCCTTTTAAAAATTTTCAAAATATGGCAATGTTTTA
66 GGCTTAATATCCTTTTAAAAATTTTCAAAATATGGCAATGTTTTA
46856467 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
1 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
46856532 GGCTTAATATCCTTTTAAAAATTTTCAAAATATGGCAATGTTTTA
66 GGCTTAATATCCTTTTAAAAATTTTCAAAATATGGCAATGTTTTA
*
46856577 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACTAAAT
1 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
* * * * *
46856642 GGCTTAATATCTTTTTTTAAAAAAAATTT-AAAATAAGACAATGTTTTG
66 GGCTTAATATC--CTTTT--AAAAATTTTCAAAATATGGCAATGTTTTA
* * * * *
46856690 CGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTCTCGTTTAACCAAAT
1 CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
46856752 TGCCAAATAT
Statistics
Matches: 265, Mismatches: 16, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
110 197 0.74
112 28 0.11
113 32 0.12
114 8 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (110 bp):
CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
GGCTTAATATCCTTTTAAAAATTTTCAAAATATGGCAATGTTTTA
Found at i:46858783 original size:10 final size:10
Alignment explanation
Indices: 46858768--46858792 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46858758 TTTGTCACAT
46858768 ATTTTAGTCC
1 ATTTTAGTCC
46858778 ATTTTAGTCC
1 ATTTTAGTCC
46858788 ATTTT
1 ATTTT
46858793 TGTAACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (10 bp):
ATTTTAGTCC
Found at i:46863601 original size:21 final size:22
Alignment explanation
Indices: 46863575--46863616 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
46863565 TTTAATTTTC
* *
46863575 ATATAATATAAATTT-CATAAT
1 ATATAAAATAAATTATCATAAT
46863596 ATATAAAATAAATTATCATAA
1 ATATAAAATAAATTATCATAA
46863617 ACTTGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAAATAAATTATCATAAT
Found at i:46868963 original size:7 final size:7
Alignment explanation
Indices: 46868951--46868984 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
46868941 TCCTAAAATA
46868951 AATTATT
1 AATTATT
46868958 AATTATT
1 AATTATT
46868965 AATTA-T
1 AATTATT
*
46868971 AATTAAT
1 AATTATT
46868978 AATTATT
1 AATTATT
46868985 TAGTCTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTATT
Found at i:46870127 original size:9 final size:10
Alignment explanation
Indices: 46870088--46870186 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 10
46870078 GTTAAACCTG
*
46870088 AATATTTATT
1 AATAATTATT
*
46870098 AATAATAATT
1 AATAATTATT
46870108 --T-ATTATT
1 AATAATTATT
46870115 -ATAATTA-T
1 AATAATTATT
46870123 AATAATTATT
1 AATAATTATT
*
46870133 TATAATTATT
1 AATAATTATT
46870143 AATAAAATGT-TT
1 AAT--AAT-TATT
*
46870155 ATTAA-TATGT
1 AATAATTAT-T
46870165 AAATAATTATAT
1 -AATAATTAT-T
46870177 AATAATTATT
1 AATAATTATT
46870187 CTATAACAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
7 5 0.07
8 4 0.06
9 12 0.17
10 24 0.34
11 13 0.19
12 11 0.16
13 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATAATTATT
Found at i:46870127 original size:22 final size:19
Alignment explanation
Indices: 46870090--46870147 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
46870080 TAAACCTGAA
* *
46870090 TATTTATTAATAATAATTTAT
1 TATTTA-TAATTATAA-TAAT
46870111 TA-TTATAATTATAATAAT
1 TATTTATAATTATAATAAT
46870129 TATTTATAATTATTAATAA
1 TATTTATAATTA-TAATAA
46870148 AATGTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 5 0.15
19 17 0.52
20 9 0.27
21 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTATAATTATAATAAT
Found at i:46870241 original size:14 final size:14
Alignment explanation
Indices: 46870222--46870248 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46870212 GTCTTATCAT
46870222 AAATTTTATTAATA
1 AAATTTTATTAATA
46870236 AAATTTTATTAAT
1 AAATTTTATTAAT
46870249 GTTAACCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTTTATTAATA
Found at i:46872716 original size:9 final size:10
Alignment explanation
Indices: 46872677--46872775 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 10
46872667 TTTAAACCTG
*
46872677 AATATTTATT
1 AATAATTATT
*
46872687 AATAATAATT
1 AATAATTATT
46872697 --T-ATTATT
1 AATAATTATT
46872704 -ATAATTA-T
1 AATAATTATT
46872712 AATAATTATT
1 AATAATTATT
*
46872722 TATAATTATT
1 AATAATTATT
46872732 AATAAAATGT-TT
1 AAT--AAT-TATT
*
46872744 ATTAA-TATGT
1 AATAATTAT-T
46872754 AAATAATTATAT
1 -AATAATTAT-T
46872766 AATAATTATT
1 AATAATTATT
46872776 CTATAATAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
7 5 0.07
8 4 0.06
9 12 0.17
10 24 0.34
11 13 0.19
12 11 0.16
13 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATAATTATT
Found at i:46872716 original size:22 final size:19
Alignment explanation
Indices: 46872679--46872736 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
46872669 TAAACCTGAA
* *
46872679 TATTTATTAATAATAATTTAT
1 TATTTA-TAATTATAA-TAAT
46872700 TA-TTATAATTATAATAAT
1 TATTTATAATTATAATAAT
46872718 TATTTATAATTATTAATAA
1 TATTTATAATTA-TAATAA
46872737 AATGTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 5 0.15
19 17 0.52
20 9 0.27
21 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTATAATTATAATAAT
Found at i:46872830 original size:14 final size:14
Alignment explanation
Indices: 46872811--46872837 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46872801 GTCTTATCAT
46872811 AAATTTTATTAATA
1 AAATTTTATTAATA
46872825 AAATTTTATTAAT
1 AAATTTTATTAAT
46872838 GTTAACCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTTTATTAATA
Found at i:46886310 original size:8 final size:9
Alignment explanation
Indices: 46886286--46886321 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
46886276 ATCATCTATG
*
46886286 ATAAAAAATT
1 ATAAAAAA-C
46886296 ATAAAAAAC
1 ATAAAAAAC
46886305 ATAAAAAAC
1 ATAAAAAAC
46886314 ATAAAAAA
1 ATAAAAAA
46886322 GTTGATAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (9 bp):
ATAAAAAAC
Found at i:46892112 original size:3 final size:3
Alignment explanation
Indices: 46892106--46892139 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46892096 TTTTTTAAAT
46892106 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
46892140 ATATTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:46893535 original size:11 final size:12
Alignment explanation
Indices: 46893510--46893536 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46893500 GTTGTTTGGA
46893510 TTTTACCTTATT
1 TTTTACCTTATT
46893522 TTTTACCTTATT
1 TTTTACCTTATT
46893534 TTT
1 TTT
46893537 GTAATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTACCTTATT
Found at i:46897221 original size:25 final size:25
Alignment explanation
Indices: 46897187--46897241 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 25
46897177 ATAGATTATA
46897187 AAAAATAATTA-TATATAAATAAAAT
1 AAAAATAATTACTATATAAA-AAAAT
46897212 AAAAATAATTACCTTATATAAAAAAAT
1 AAAAATAATTA-C-TATATAAAAAAAT
46897239 AAA
1 AAA
46897242 TATGCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 11 0.41
27 8 0.30
28 8 0.30
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATAATTACTATATAAAAAAAT
Found at i:46898994 original size:44 final size:44
Alignment explanation
Indices: 46898946--46899130 Score: 123
Period size: 44 Copynumber: 4.2 Consensus size: 44
46898936 TATCTTGGAA
*
46898946 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
46898990 AGATAAGA-TCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-GCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
46899034 AGACAAGGCTT-G--ATGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCCAT--CTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
46899078 AGATAAGATTCGCCATCTTCGATCTGCTCCAGTACTGCTTAAGG
1 AGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
46899122 AGATAAGAT
1 AGATAAGAT
46899131 CTATAATATT
Statistics
Matches: 102, Mismatches: 25, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
42 7 0.07
43 9 0.09
44 75 0.74
45 4 0.04
46 7 0.07
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:46899052 original size:132 final size:132
Alignment explanation
Indices: 46898855--46899526 Score: 1065
Period size: 132 Copynumber: 5.1 Consensus size: 132
46898845 TGCGACTTCG
* * * * *
46898855 GGGAGATAAGATTTGTAATCTTCAATCTTCTCCACTGCTGCTCAGGGAGACAAGGCATGGTGGCT
1 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
* *
46898920 TTAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
66 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
46898985 TA
131 TA
* *
46898987 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGATGGCT
1 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
* *
46899052 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCAGTACTGCT
66 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
46899117 TA
131 TA
* * * * *
46899119 AGGAGATAAGATCTATAATATTTAACCTTCTTCGTTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
1 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
*
46899184 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGCCTTCGATCTGCTCCACTACTGCT
66 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
46899249 TA
131 TA
* *
46899251 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGTTCAGGGAGACAAGGCTTGGTGGTT
1 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
* * *
46899316 TAAATCTGCTTCCTACTATTTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCT
66 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
46899381 TA
131 TA
* * *
46899383 GGGAGATAAGATCTATAATCTTCAACATTCTCCGCTACTGCTCAGGGAGACAAAGCTTGGTGGCT
1 GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
* * * **
46899448 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTAGATCTGCTCCACTGCAACT
66 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC-
46899513 TTA
130 TTA
46899516 GGGAGATAAGA
1 GGGAGATAAGA
46899527 CTACTAGTTA
Statistics
Matches: 498, Mismatches: 41, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
132 484 0.97
133 14 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
GGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
TA
Found at i:46899405 original size:44 final size:44
Alignment explanation
Indices: 46899226--46899432 Score: 111
Period size: 44 Copynumber: 4.7 Consensus size: 44
46899216 GATTCGCCGC
*
46899226 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAAT
* * * * * * **
46899270 CTTCAACCTTCTCCGCTGCTG-TTCAGGGAGACAAG-GCT-TGGT
1 CTTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTATAAT
* * * ** * * ***
46899312 GGTTTAAATCTGCTTC-CTACTATTTTGGAAAGATAAGAT-TCACCGT
1 --CTTCAATCTGCTCCACTACTGCTTAGG-GAGATAAGATCT-ATAAT
*
46899358 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAAT
* * *
46899402 CTTCAA-CATTCTCCGCTACTGCTCAGGGAGA
1 CTTCAATC-TGCTCCACTACTGCTTAGGGAGA
46899433 CAAAGCTTGG
Statistics
Matches: 115, Mismatches: 37, Indels: 22
0.66 0.21 0.13
Matches are distributed among these distances:
42 2 0.02
43 11 0.10
44 90 0.78
45 10 0.09
46 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAAT
Found at i:46911600 original size:25 final size:25
Alignment explanation
Indices: 46911566--46911620 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 25
46911556 ATAGATTATA
46911566 AAAAATAATTA-TATATAAATAAAAT
1 AAAAATAATTACTATATAAA-AAAAT
46911591 AAAAATAATTACCTTATATAAAAAAAT
1 AAAAATAATTA-C-TATATAAAAAAAT
46911618 AAA
1 AAA
46911621 TATGCGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 11 0.41
27 8 0.30
28 8 0.30
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATAATTACTATATAAAAAAAT
Found at i:46917503 original size:42 final size:42
Alignment explanation
Indices: 46917364--46917509 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
46917354 GTTTCTCGGT
* * * *
46917364 GGAATCAGTACTTAGCAACCACC-TTATATTCAGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
* *
46917405 GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG
* * ***
46917447 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTTAG
1 -GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
46917490 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
46917510 CCTCGAGGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
40 2 0.02
41 20 0.23
42 32 0.36
43 29 0.33
44 5 0.06
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
Found at i:46917519 original size:26 final size:26
Alignment explanation
Indices: 46917490--46917564 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
46917480 AATAATTTAG
*
46917490 GGAATCAGCACTTAGCAACCCCTCGA
1 GGAATCTGCACTTAGCAACCCCTCGA
* *
46917516 GGAATCTGCACCTAGCAACCCCTCGG
1 GGAATCTGCACTTAGCAACCCCTCGA
46917542 GGAATCTGCACTTAGCAACCCCT
1 GGAATCTGCACTTAGCAACCCCT
46917565 ATTTGATCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.27, C:0.36, G:0.20, T:0.17
Consensus pattern (26 bp):
GGAATCTGCACTTAGCAACCCCTCGA
Found at i:46917598 original size:41 final size:41
Alignment explanation
Indices: 46917541--46917729 Score: 279
Period size: 41 Copynumber: 4.6 Consensus size: 41
46917531 CAACCCCTCG
* *
46917541 GGGAATCTGCACTTAGCAACCCCTATTTGATCAGTGATTTA
1 GGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCA
*
46917582 GGGAATCTGCACTTAGCAACCCCTCTTTGATCAGTGATTCA
1 GGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCA
**
46917623 GGGAATCTATACTTAGCAACCCCTTTTTGATCAGTGATTCA
1 GGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCA
* * * *
46917664 AGGAATCTGCACTTAACAACACCTTTTTGATCAGTGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCA
* *
46917705 GGGAATATGCACTTAGCAATCCCTT
1 GGGAATCTGCACTTAGCAACCCCTT
46917730 ACATTCAATG
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (41 bp):
GGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCA
Found at i:46918094 original size:30 final size:29
Alignment explanation
Indices: 46918059--46918119 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
46918049 CCTTGACTCG
46918059 AACTTTGACAAAATTACAACTTTT-CCCGTA
1 AACTTTGACAAAATTAC-ACTTTTGCCC-TA
* * *
46918089 AACTTTTACATATTTACACTTTTGCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCTA
46918118 AA
1 AA
46918120 GCTCAGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTGACAAAATTACACTTTTGCCCTA
Found at i:46933263 original size:19 final size:20
Alignment explanation
Indices: 46933239--46933285 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
46933229 TGTGAAAATC
*
46933239 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
46933258 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
46933278 -AATGCAAA
1 TAATGCAAA
46933286 AAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:46935322 original size:26 final size:26
Alignment explanation
Indices: 46935241--46935323 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
46935231 AAACAATTCA
* *
46935241 AAAATAAATAATATGC-AA-CAAATAT
1 AAAATAAATAACATACAAAGCAAAT-T
* *
46935266 AAAAAAAATAACGTACAAAGCAAATT
1 AAAATAAATAACATACAAAGCAAATT
* *
46935292 GAAATAAATAACATA-AAAGACAATTT
1 AAAATAAATAACATACAAAG-CAAATT
46935318 AAAATA
1 AAAATA
46935324 GTATATAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
25 16 0.35
26 25 0.54
27 5 0.11
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (26 bp):
AAAATAAATAACATACAAAGCAAATT
Found at i:46936374 original size:20 final size:21
Alignment explanation
Indices: 46936335--46936374 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
46936325 TTTCTACTGT
* *
46936335 TTTGCACTGTTTTGCTTCTAC
1 TTTGCACTGTTTGGCCTCTAC
46936356 TTTGCA-TGTTTGGCCTCTA
1 TTTGCACTGTTTGGCCTCTA
46936375 TTTATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTGCACTGTTTGGCCTCTAC
Found at i:46938902 original size:21 final size:21
Alignment explanation
Indices: 46938878--46938941 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
46938868 TTTTCATTTG
46938878 ATAGTATTTTAAAATTTATAA
1 ATAGTATTTTAAAATTTATAA
* *
46938899 ATAGT-TTCTTAGAGTTTATAA
1 ATAGTATT-TTAAAATTTATAA
*
46938920 ATAAAATATTTTCAAAATTTAT
1 AT--AGTATTTT-AAAATTTAT
46938942 GGTTAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.06
21 18 0.55
23 4 0.12
24 9 0.27
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (21 bp):
ATAGTATTTTAAAATTTATAA
Found at i:46941136 original size:29 final size:29
Alignment explanation
Indices: 46941094--46941194 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
46941084 CATGAAATTG
46941094 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46941123 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
46941152 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46941180 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
46941195 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:46949071 original size:29 final size:29
Alignment explanation
Indices: 46949027--46949127 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
46949017 CATGAAATTG
*
46949027 GCACTAAGTGTACGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46949056 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
46949085 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
46949113 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
46949128 ACTTACTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 19 0.30
29 45 0.70
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:46960158 original size:24 final size:24
Alignment explanation
Indices: 46960122--46960171 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
46960112 ATAAGATGCT
*
46960122 GACCTTTCCATTGCA-ATCCTTTTC
1 GACCTTTCCATTG-ATATCATTTTC
**
46960146 GACCTTTTTATTGATATCATTTTC
1 GACCTTTCCATTGATATCATTTTC
46960170 GA
1 GA
46960172 ATAACATCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (24 bp):
GACCTTTCCATTGATATCATTTTC
Found at i:46960250 original size:33 final size:33
Alignment explanation
Indices: 46960190--46960252 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
46960180 CTTTTCAACC
* *
46960190 TTTTCATTCGATGTCCTTTTTAGATAACATTTT
1 TTTTCATTCGATATCCTTTTGAGATAACATTTT
*
46960223 TTTTCATTTGATATCCTTTTCGA-ATAACAT
1 TTTTCATTCGATATCCTTTT-GAGATAACAT
46960253 CATTTTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (33 bp):
TTTTCATTCGATATCCTTTTGAGATAACATTTT
Found at i:46974527 original size:44 final size:44
Alignment explanation
Indices: 46974477--46974683 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 44
46974467 TCATAGTGAA
*
46974477 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGTTACAAG
* * * ** *
46974521 TCTTATCTCTCTGAAGTTGTAATGGAGCAGACTAAAGACATCAAA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGTTA-CAAG
* * * * * * *
46974566 TCTTATTTTCCTGAA-TTACAGTGGAACAAATTAAAGCTACAAATTATGGTGG
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGTTAC--A--A-----G
* *
46974618 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
1 -TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGTTACAAG
46974663 TCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
46974684 GCAGAGCAGA
Statistics
Matches: 125, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.01
44 71 0.57
45 17 0.14
47 1 0.01
50 1 0.01
52 1 0.01
53 13 0.10
54 20 0.16
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGTTACAAG
Found at i:46974684 original size:44 final size:44
Alignment explanation
Indices: 46974619--46974836 Score: 150
Period size: 44 Copynumber: 4.7 Consensus size: 44
46974609 TTATGGTGGA
*
46974619 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAG
** * *
46974663 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGACAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCA-C-AAG
* ** * * *
46974708 TCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-C--------ACAAG
** * * *
46974762 TCTTATCTTGCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAG
* * *
46974806 CCTTATCTCCTTGAAGTTGCAGTGAAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46974837 CTAAAACCAC
Statistics
Matches: 130, Mismatches: 31, Indels: 26
0.70 0.17 0.14
Matches are distributed among these distances:
44 63 0.48
45 30 0.23
46 2 0.02
47 1 0.01
52 1 0.01
53 2 0.02
54 30 0.23
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAG
Found at i:46974811 original size:143 final size:142
Alignment explanation
Indices: 46974475--46974841 Score: 466
Period size: 143 Copynumber: 2.6 Consensus size: 142
46974465 CATCATAGTG
* *
46974475 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAGTCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* *** * *
46974540 TAATGGAGCAGACTAAAGACATCAAATCTTATTTTCCTGAATTACAGTGGAACAAATTAAAGCTA
66 CAGCAGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGAATTACAGTGGAACAAATTAAAGCTA
***
46974605 CAAATTATGGTG
131 CAAATTATGACA
*
46974617 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * ** * *
46974682 CAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
66 CAGCAGAGCAGACTAAAGACAGCAAATCTTATTTCCCT-GAATTACAGTGGAACAAATTAAAGCT
46974747 ACAAATTATGACA
130 ACAAATTATGACA
** * ** * * *
46974760 AATCTTATCTTGCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
*
46974825 CAG-TGAAGCAGACTAAA
66 CAGCAG-AGCAGACTAAA
46974842 ACCACAAGTC
Statistics
Matches: 194, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
142 93 0.48
143 101 0.52
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
CAGCAGAGCAGACTAAAGACAGCAAATCTTATTTCCCTGAATTACAGTGGAACAAATTAAAGCTA
CAAATTATGACA
Found at i:46976465 original size:15 final size:15
Alignment explanation
Indices: 46976445--46976484 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
46976435 CTTACTTAAA
46976445 TATTTTATATACATT
1 TATTTTATATACATT
*
46976460 TATTTTATCATCCATT
1 TATTTTAT-ATACATT
46976476 TA-TTTATAT
1 TATTTTATAT
46976485 CCTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATATACATT
Found at i:46976477 original size:16 final size:16
Alignment explanation
Indices: 46976445--46976485 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
46976435 CTTACTTAAA
46976445 TATTTTAT-ATACATT
1 TATTTTATCATACATT
*
46976460 TATTTTATCATCCATT
1 TATTTTATCATACATT
46976476 TATTTATATC
1 TATTT-TATC
46976486 CTTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
17 4 0.17
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTATCATACATT
Found at i:46976645 original size:22 final size:22
Alignment explanation
Indices: 46976600--46976646 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
46976590 TTGTTCACTA
*
46976600 TTAGTTTTTTTATTTTTATATT
1 TTAGTTTTTTTATTATTATATT
*
46976622 TTAGTTTTTTTACTTATTATTTT
1 TTAGTTTTTTTA-TTATTATATT
46976645 TT
1 TT
46976647 TATTAGCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (22 bp):
TTAGTTTTTTTATTATTATATT
Found at i:46978000 original size:16 final size:16
Alignment explanation
Indices: 46977969--46978005 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46977959 ATATGAAGAA
46977969 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
46977985 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
46978001 TATTA
1 TATTA
46978006 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:46980900 original size:23 final size:23
Alignment explanation
Indices: 46980874--46980922 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
46980864 GAAATCTAAA
46980874 AAAATCAAATC-TCTAAGATTTAC
1 AAAATCAAATCTTCTAAGA-TTAC
46980897 AAAATCAAATCTTCTAAGATTAC
1 AAAATCAAATCTTCTAAGATTAC
46980920 AAA
1 AAA
46980923 TCCTCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAATCAAATCTTCTAAGATTAC
Found at i:46983142 original size:11 final size:11
Alignment explanation
Indices: 46983126--46983155 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46983116 CTAGGAACCT
46983126 ATGTGAAAACA
1 ATGTGAAAACA
*
46983137 ATGTGAAAACT
1 ATGTGAAAACA
46983148 ATGTGAAA
1 ATGTGAAA
46983156 TTGTGACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (11 bp):
ATGTGAAAACA
Found at i:46993575 original size:50 final size:50
Alignment explanation
Indices: 46993448--46993694 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 50
46993438 AATAATAACA
* * ** * * *
46993448 TGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
46993497 TGCCAATGTCATATCCCAGAAATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** *
46993547 TGCTC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
46993597 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
46993653 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46993695 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.23
50 80 0.49
51 1 0.01
53 2 0.01
56 41 0.25
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:46999921 original size:50 final size:49
Alignment explanation
Indices: 46999856--46999988 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 49
46999846 CAATGCCATA
* **
46999856 TCCCAGAAATGGTCTTACATGGGAGTTCTCATATCGGTGCTC-CTGACATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC-CAC-GACATG
* ** * *
46999906 TCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC-ACGACATG
*
46999956 TCCCAAACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATA
46999989 ATCTCAATGA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 66 0.97
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCACGACATG
Found at i:47003904 original size:84 final size:84
Alignment explanation
Indices: 47003800--47004010 Score: 377
Period size: 84 Copynumber: 2.5 Consensus size: 84
47003790 CAAAGGATCC
*
47003800 CGGTGGAATCAGCACTTAGCAATCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
47003865 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
47003884 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
* *
47003949 CCTTTCACAATTAGGGATA
66 CCTTTCACAATCAAGGATA
* *
47003968 CGGTGAAATCAGCACTTAGCAACCACCTTATAATTAATGATAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
47004011 CGGTTCACGT
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 122 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:47003919 original size:42 final size:42
Alignment explanation
Indices: 47003759--47004010 Score: 269
Period size: 42 Copynumber: 6.0 Consensus size: 42
47003749 CGTTACACGA
* * ** *
47003759 TGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCCCGG
1 TGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGAT-ACGG
* *
47003803 TGGAATCAGCACTTAGCAATCACCTTATAATCAATGATACGG
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* *
47003845 -GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 TGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGATACGG
*
47003887 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* * * *
47003929 -GGAATCAGCACATAGCAACC-CCTTTCACAATTAGGGATACGG
1 TGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGATACGG
* * *
47003971 TGAAATCAGCACTTAGCAACCACCTTATAATTAATGATAC
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATAC
47004011 CGGTTCACGT
Statistics
Matches: 176, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
40 4 0.02
41 41 0.23
42 54 0.31
43 46 0.26
44 31 0.18
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
TGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
Found at i:47004136 original size:50 final size:49
Alignment explanation
Indices: 47004010--47004157 Score: 181
Period size: 50 Copynumber: 3.0 Consensus size: 49
47004000 ATTAATGATA
* * *
47004010 CCGGTTCACGTAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-C-CATC-ATT
** * *
47004062 -CGGTATGCATAGTAGCCTGTACATAGTACTACACATGTGACCTATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATT
*
47004111 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
47004158 CTTTCACTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
49 7 0.09
50 40 0.49
51 35 0.43
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCATT
Found at i:47006774 original size:33 final size:33
Alignment explanation
Indices: 47006736--47006802 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
47006726 CAACAAATTC
*
47006736 AATTAATGGCTCCAACAAACCCTTCAAGAAATA
1 AATTAATGGCTCCAACAAACCCTCCAAGAAATA
47006769 AATTAATGGCTCCAACAAACCCTCCAAGAAATA
1 AATTAATGGCTCCAACAAACCCTCCAAGAAATA
47006802 A
1 A
47006803 TCCTTGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.19
Consensus pattern (33 bp):
AATTAATGGCTCCAACAAACCCTCCAAGAAATA
Found at i:47014577 original size:25 final size:25
Alignment explanation
Indices: 47014543--47014612 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
47014533 ACTAAAAGTG
*
47014543 CTATAGATAGTATATACTGAAACCA
1 CTATAGATAGTATATACTGAAAACA
*
47014568 CTATAGATAG-ACTATACTAAAAACA
1 CTATAGATAGTA-TATACTGAAAACA
* *
47014593 CT-CAGATTAGTATACACTGA
1 CTATAGA-TAGTATATACTGA
47014613 TACTGTGGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
24 4 0.11
25 32 0.86
26 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (25 bp):
CTATAGATAGTATATACTGAAAACA
Found at i:47018234 original size:24 final size:24
Alignment explanation
Indices: 47018197--47018251 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
47018187 CCTAAATAAT
**
47018197 TTAAAATACTTAAAAAATTAAAA-A
1 TTAAAATAAATAAAAAA-TAAAATA
*
47018221 TTAAAATAAATAAATAATAAAATA
1 TTAAAATAAATAAAAAATAAAATA
*
47018245 ATAAAAT
1 TTAAAAT
47018252 CTAATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAATAAATAAAAAATAAAATA
Found at i:47020711 original size:10 final size:10
Alignment explanation
Indices: 47020698--47020750 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
47020688 AATATTTAAT
47020698 ATTTAATATA
1 ATTTAATATA
47020708 ATTTAATATA
1 ATTTAATATA
*
47020718 ATGATAA-ATGA
1 AT-TTAATAT-A
47020729 TATTTAA-ATA
1 -ATTTAATATA
47020739 ATTTAATATA
1 ATTTAATATA
47020749 AT
1 AT
47020751 GATATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.16
10 20 0.54
11 9 0.24
12 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (10 bp):
ATTTAATATA
Found at i:47020718 original size:32 final size:31
Alignment explanation
Indices: 47020649--47020759 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 31
47020639 TTTGTAAAAT
* *
47020649 TAATGATATATAAAATATTTTTAAAAAATTAAATA
1 TAATGATATAT--AATA--TTTAAATAATTTAATA
* *
47020684 TAATAATATTTAATATTTAATATAATTTAATA
1 TAATGATATATAATATTTAA-ATAATTTAATA
* *
47020716 TAATGATAAATGATATTTAAATAATTTAATA
1 TAATGATATATAATATTTAAATAATTTAATA
47020747 TAATGATATATAA
1 TAATGATATATAA
47020760 AATATAATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
31 27 0.42
32 25 0.38
33 4 0.06
35 9 0.14
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (31 bp):
TAATGATATATAATATTTAAATAATTTAATA
Found at i:47020770 original size:26 final size:24
Alignment explanation
Indices: 47020712--47020770 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
47020702 AATATAATTT
* *
47020712 AATATAA-TGATAAATGATATTTA
1 AATATAATTAATAAATGATATTAA
*
47020735 AATA-ATTTAATATAATGATATATAA
1 AATATAATTAATA-AATGATAT-TAA
47020760 AATATAATTAA
1 AATATAATTAA
47020771 GCTAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 8 0.29
25 6 0.21
26 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
AATATAATTAATAAATGATATTAA
Found at i:47031980 original size:17 final size:17
Alignment explanation
Indices: 47031948--47031979 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47031938 ACTCACAACT
47031948 AAAATTAAAAATAAAAG
1 AAAATTAAAAATAAAAG
47031965 AAAA-TAAAAATAAAA
1 AAAATTAAAAATAAAA
47031980 AATAAGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATTAAAAATAAAAG
Found at i:47037278 original size:25 final size:25
Alignment explanation
Indices: 47037244--47037304 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
47037234 ACAAATGTGC
* *
47037244 TAATCTGAGAGCATTAACGTACCAA
1 TAATCAGAGAGCACTAACGTACCAA
* * * *
47037269 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAACGTACCAA
47037294 TAATCAGAGAG
1 TAATCAGAGAG
47037305 GGCACTAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTACCAA
Found at i:47038375 original size:5 final size:5
Alignment explanation
Indices: 47038363--47038420 Score: 109
Period size: 5 Copynumber: 11.8 Consensus size: 5
47038353 AAAAGTTAAG
47038363 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
47038412 TATAT TATA
1 TATAT TATA
47038421 AAAGAAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 49 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:47039434 original size:22 final size:22
Alignment explanation
Indices: 47039408--47039522 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
47039398 CTCTTTGATA
* *
47039408 TTTAGCATGTCGGTGCTCTCTG
1 TTTAGCATATCAGTGCTCTCTG
* * *
47039430 TTTAGGACATCTGTGCTCTCTG
1 TTTAGCATATCAGTGCTCTCTG
* *
47039452 ATATTTAGCATGTCAATGCTCTCTG
1 ---TTTAGCATATCAGTGCTCTCTG
* * *
47039477 TTTAGCACATCTGTGCTCTCTA
1 TTTAGCATATCAGTGCTCTCTG
*
47039499 TATAGCACT-TCAGTGCTCTCTG
1 TTTAGCA-TATCAGTGCTCTCTG
47039521 TT
1 TT
47039523 CATTAGTGCA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
22 53 0.76
25 17 0.24
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (22 bp):
TTTAGCATATCAGTGCTCTCTG
Found at i:47039472 original size:47 final size:47
Alignment explanation
Indices: 47039397--47039522 Score: 179
Period size: 47 Copynumber: 2.7 Consensus size: 47
47039387 ACTCTAGCGC
* * *
47039397 GCTCTTTGATATTTAGCATGTCGGTGCTCTCTGTTTAGGACATCTGT
1 GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
*
47039444 GCTCTCTGATATTTAGCATGTCAATGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
47039491 GCTCTCT-ATA--TAGCACT-TCAGTGCTCTCTGTT
1 GCTCTCTGATATTTAGCA-TGTCAGTGCTCTCTGTT
47039523 CATTAGTGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 19 0.26
45 1 0.01
46 3 0.04
47 50 0.68
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (47 bp):
GCTCTCTGATATTTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
Found at i:47041553 original size:18 final size:19
Alignment explanation
Indices: 47041502--47041555 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 19
47041492 TTTACCTATT
* *
47041502 AAATTCTTTTAAAATCACA
1 AAATTCTTCTAAATTCACA
*
47041521 AAATTC-ACT-AATTCA-A
1 AAATTCTTCTAAATTCACA
47041537 AAATTCTTCTAAATTCACA
1 AAATTCTTCTAAATTCACA
47041556 CTTGACCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 7 0.25
19 7 0.25
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTCTTCTAAATTCACA
Found at i:47043302 original size:18 final size:18
Alignment explanation
Indices: 47043265--47043303 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47043255 ATTGTTTCTC
* *
47043265 AAAAAAACTTTTGGATAA
1 AAAAAAACTTTTGAACAA
47043283 AAAAAAACTTTTGAACAA
1 AAAAAAACTTTTGAACAA
47043301 AAA
1 AAA
47043304 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAAACTTTTGAACAA
Found at i:47043427 original size:17 final size:17
Alignment explanation
Indices: 47043396--47043442 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
47043386 TAAAATCATC
*
47043396 TTATTT-AATAATATTT
1 TTATTTCAAAAATATTT
47043412 TTATTTCAAAAATATTT
1 TTATTTCAAAAATATTT
*
47043429 TTATCTCAAAAATA
1 TTATTTCAAAAATA
47043443 CATTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTTCAAAAATATTT
Found at i:47043448 original size:18 final size:17
Alignment explanation
Indices: 47043405--47043449 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
47043395 CTTATTTAAT
* *
47043405 AATATTTTTATTTCAAA
1 AATAATTTTATCTCAAA
*
47043422 AATATTTTTATCTCAAA
1 AATAATTTTATCTCAAA
47043439 AATACATTTTA
1 AATA-ATTTTA
47043450 AAAAGAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATAATTTTATCTCAAA
Found at i:47047458 original size:30 final size:30
Alignment explanation
Indices: 47047412--47047535 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
47047402 TTTTATTATG
*
47047412 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
47047443 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
47047473 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
47047503 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
47047533 CCA
1 CCA
47047536 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:47047467 original size:15 final size:15
Alignment explanation
Indices: 47047422--47047529 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
47047412 CCAATATCTC
47047422 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47047437 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47047452 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47047467 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47047482 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
47047497 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
47047512 GATACCCATATCTTT
1 GATACCCATATCTTT
47047527 GAT
1 GAT
47047530 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:47052150 original size:30 final size:30
Alignment explanation
Indices: 47052104--47052197 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
47052094 TTTTATTATG
*
47052104 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
47052135 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
47052165 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
47052195 CCA
1 CCA
47052198 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:47052159 original size:15 final size:15
Alignment explanation
Indices: 47052114--47052191 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
47052104 CCAATATCTC
47052114 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47052129 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47052144 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
47052159 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
47052174 GATACCCATATCTTT
1 GATACCCATATCTTT
47052189 GAT
1 GAT
47052192 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:47052954 original size:27 final size:27
Alignment explanation
Indices: 47052912--47052967 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
47052902 GCAGCAGTGG
* *
47052912 CGCCCCTCGCGGTCCCTCCGCATGTGA
1 CGCCCCTCGCGCTCCCTCCGCACGTGA
*
47052939 CGCCCCTCGCTCTCCCTCCGCACGTGA
1 CGCCCCTCGCGCTCCCTCCGCACGTGA
47052966 CG
1 CG
47052968 AGCCCTCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.07, C:0.52, G:0.23, T:0.18
Consensus pattern (27 bp):
CGCCCCTCGCGCTCCCTCCGCACGTGA
Found at i:47056733 original size:12 final size:12
Alignment explanation
Indices: 47056718--47056742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47056708 AATTTTTTTT
47056718 TATAATTTTAAA
1 TATAATTTTAAA
47056730 TATAATTTTAAA
1 TATAATTTTAAA
47056742 T
1 T
47056743 TTTTATGAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAATTTTAAA
Found at i:47058923 original size:31 final size:31
Alignment explanation
Indices: 47058885--47058947 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
47058875 AATAACATAT
47058885 AATATATCAATAGTGCGTTGTATCTTATGGC
1 AATATATCAATAGTGCGTTGTATCTTATGGC
47058916 AATATATCAATAGTGCGTTGTATCTTATGGC
1 AATATATCAATAGTGCGTTGTATCTTATGGC
47058947 A
1 A
47058948 TGCCAACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (31 bp):
AATATATCAATAGTGCGTTGTATCTTATGGC
Found at i:47060315 original size:12 final size:10
Alignment explanation
Indices: 47060282--47060331 Score: 66
Period size: 10 Copynumber: 4.8 Consensus size: 10
47060272 TTCAATTTTT
47060282 AAATATTAAA
1 AAATATTAAA
47060292 AAATATTAAA
1 AAATATTAAA
47060302 AAATATTAATAA
1 AAATATT-A-AA
47060314 AAATATTAATA
1 AAATATTAA-A
47060325 AAA-ATTA
1 AAATATTA
47060332 TTTCTTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 22 0.59
11 6 0.16
12 9 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATATTAAA
Found at i:47060316 original size:13 final size:13
Alignment explanation
Indices: 47060298--47060333 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
47060288 TAAAAAATAT
47060298 TAAAAAATATTAA
1 TAAAAAATATTAA
47060311 T-AAAAATATTAA
1 TAAAAAATATTAA
*
47060323 TAAAAATTATT
1 TAAAAAATATT
47060334 TCTTGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAAATATTAA
Found at i:47060318 original size:22 final size:22
Alignment explanation
Indices: 47060282--47060331 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
47060272 TTCAATTTTT
47060282 AAATATT-AAAAAATATTAA-A
1 AAATATTAAAAAAATATTAATA
47060302 AAATATTAATAAAAATATTAATA
1 AAATATTAA-AAAAATATTAATA
47060325 AAA-ATTA
1 AAATATTA
47060332 TTTCTTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 15 0.56
23 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATATTAAAAAAATATTAATA
Found at i:47060467 original size:7 final size:7
Alignment explanation
Indices: 47060455--47060489 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
47060445 AATAGTTATA
47060455 AAAAATT
1 AAAAATT
47060462 AAAAATT
1 AAAAATT
47060469 AAAAATT
1 AAAAATT
47060476 AAAAATT
1 AAAAATT
47060483 AAAAATT
1 AAAAATT
47060490 TCAAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:47062038 original size:3 final size:3
Alignment explanation
Indices: 47062030--47062091 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
47062020 GTATTATCAT
* *
47062030 TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -TA TTA CTG TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
47062075 CTTA TCA TTA TTA TTA T
1 -TTA TTA TTA TTA TTA T
47062092 GTGATAGCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 3 0.06
3 39 0.81
4 6 0.12
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:47062156 original size:16 final size:17
Alignment explanation
Indices: 47062129--47062164 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
47062119 TTTTCTAACC
47062129 TATTTAATATATATAAA
1 TATTTAATATATATAAA
47062146 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
47062162 TAT
1 TAT
47062165 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:47062255 original size:26 final size:26
Alignment explanation
Indices: 47062197--47062256 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
47062187 ATATGTATAT
* *
47062197 ATATTTATATATATATAGTTTCTTTT
1 ATATTTATATATATATAGTTTATTTC
*
47062223 ATATTTATATATATATTATTTTATTTC
1 ATATTTATATATATA-TAGTTTATTTC
47062250 AT-TTTAT
1 ATATTTAT
47062257 TTTTTATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
ATATTTATATATATATAGTTTATTTC
Found at i:47064351 original size:8 final size:8
Alignment explanation
Indices: 47064306--47064344 Score: 60
Period size: 8 Copynumber: 4.6 Consensus size: 8
47064296 TTTGAGTAAA
47064306 AAAAAGATG
1 AAAAA-ATG
47064315 AAAAAAATG
1 -AAAAAATG
47064324 AAAAAATG
1 AAAAAATG
47064332 AAAAAATG
1 AAAAAATG
47064340 AAAAA
1 AAAAA
47064345 GTAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 21 0.72
9 3 0.10
10 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:47064351 original size:16 final size:16
Alignment explanation
Indices: 47064315--47064351 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47064305 AAAAAAGATG
47064315 AAAAAAATGAAAAAAT
1 AAAAAAATGAAAAAAT
* *
47064331 GAAAAAATGAAAAAGT
1 AAAAAAATGAAAAAAT
47064347 AAAAA
1 AAAAA
47064352 TGGAGAGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAAATGAAAAAAT
Found at i:47065626 original size:45 final size:45
Alignment explanation
Indices: 47065545--47065638 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
47065535 CAGATCAATG
* * *
47065545 AAGACATCAAATCTTGCTTTCCTGTACTGACTGTGAAGCAGATCA
1 AAGACAACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCA
* * * *
47065590 AAGACAACAGATCTTGCCTTCCTG-CCTTGACAGTGAAGCATATCG
1 AAGACAACAAATCTTGCCTTCCTGTAC-TGACAGTGAAGCAGATCA
47065635 AAGA
1 AAGA
47065639 TACAAGCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
AAGACAACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCA
Found at i:47066053 original size:44 final size:44
Alignment explanation
Indices: 47065815--47066515 Score: 375
Period size: 44 Copynumber: 16.0 Consensus size: 44
47065805 TCGTGTCAGG
* * * * *
47065815 TCTTATCTCCCTGAGATTACAATGGAACAGACCAAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTA-GT-A-A
* **
47065861 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
* * ** * * *
47065905 TCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA-ATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCT--AGTAA
* * * * * *
47065949 TCTTATATCTCT-AAAGTTACAGTAGAGTAGATC-ATG-TCAG--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCT-AGTAA
47065990 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
* * * * * * *
47066034 TCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACCA-AAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTA-A
** **
47066078 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
* * * * * *
47066122 TCCTATCTCCCTGATATTACAGTGGAGC-GAATTAAAACCAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAG-A-TCAAAGCTAGTAA
* * * ** * *
47066166 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCTAGTAA
* * * * * * *
47066207 TCTTATTTCCCTGAGATTATAGTGGAACAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTA-GT-A-A
* * **
47066253 TCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
* * * * * * *
47066297 TCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACCA-AAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTA-A
47066341 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
* * * ** * * * *
47066385 TCCTATCTCCTTGATATTACAGTGGAGTGGATTAAAACCAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TCAAAGCTAGTAA
* * * * ** *
47066429 TCTTATCTCTCTGA-AGTTGCAGTAGAGTAGATCGTA-CTAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCTAGTAA
*
47066470 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
47066514 TC
1 TC
47066516 CTGTGACACC
Statistics
Matches: 495, Mismatches: 128, Indels: 66
0.72 0.19 0.10
Matches are distributed among these distances:
41 82 0.17
42 19 0.04
43 16 0.03
44 293 0.59
45 20 0.04
46 63 0.13
47 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAA
Found at i:47066097 original size:88 final size:88
Alignment explanation
Indices: 47065987--47066497 Score: 579
Period size: 88 Copynumber: 5.9 Consensus size: 88
47065977 AGATCATGTC
* *
47065987 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAATCCTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
47066052 ACAGTGGAGCGGATTAAAACCAA
66 ACAGTGGAGCGGATTAAAACCAA
* *
47066075 AGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
*
47066140 ACAGTGGAGCGAATTAAAACCAA
66 ACAGTGGAGCGGATTAAAACCAA
* * * * * * * * *
47066163 GGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG--GTCTTATTTCCCTGAGAT
1 AGATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATAT
* * * ** ****
47066224 TATAGTGGAACAGACCGAAGAATTTC
65 TACAGTGGAGCGGA-TTAA-AACCAA
* ** *
47066250 AGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
47066315 ACAGTGGAGCGGATTAAAACCAA
66 ACAGTGGAGCGGATTAAAACCAA
* * *
47066338 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAATCCTATCTCCTTGATATT
1 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
*
47066403 ACAGTGGAGTGGATTAAAACCAA
66 ACAGTGGAGCGGATTAAAACCAA
* * * * * * * *
47066426 GGATCTTATCTCTCTGA-AGTTGCAGTAGAGTAGATCGTA-CTAG--GTCTTATCTCCCTGAGAT
1 AGATCTTATCTCCCTGAGA-TTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATAT
47066487 TACAGTGGAGC
65 TACAGTGGAGC
47066498 AGATCGAAGC
Statistics
Matches: 349, Mismatches: 66, Indels: 19
0.80 0.15 0.04
Matches are distributed among these distances:
85 48 0.14
86 2 0.01
87 40 0.11
88 232 0.66
89 2 0.01
90 25 0.07
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (88 bp):
AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
ACAGTGGAGCGGATTAAAACCAA
Found at i:47066293 original size:263 final size:263
Alignment explanation
Indices: 47065985--47066506 Score: 875
Period size: 263 Copynumber: 2.0 Consensus size: 263
47065975 GTAGATCATG
* *
47065985 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATCAAAGCTAGTAATCCTATCTCCCTGATA
**
47066050 TTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAG
66 TTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAG
47066115 CTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGA
131 CTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGA
* *
47066180 AGTTACAGTAGAGTAGATCGCA-TCAGGTCTTATTTCCCTGAGATTATAGTGGAACAGACCGAAG
196 AGTTACAGTAGAGTAGATCGCACT-AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG
47066244 AATT
260 AATT
**
47066248 TCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATA
1 TCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATCAAAGCTAGTAATCCTATCTCCCTGATA
**
47066313 TTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG
66 TTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAG
* * *
47066378 CTAGTAATCCTATCTCCTTGATATTACAGTGGAGTGGATTAAAACCAAGGATCTTATCTCTCTGA
131 CTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGA
* * * *
47066443 AGTTGCAGTAGAGTAGATCGTACTAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
196 AGTTACAGTAGAGTAGATCGCACTAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG
47066507 CTAGTAATCC
Statistics
Matches: 241, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
263 240 1.00
264 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (263 bp):
TCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATCAAAGCTAGTAATCCTATCTCCCTGATA
TTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAG
CTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAACCAAGGATCTTATCTCTCTGA
AGTTACAGTAGAGTAGATCGCACTAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
ATT
Found at i:47066500 original size:392 final size:392
Alignment explanation
Indices: 47065769--47066517 Score: 1001
Period size: 392 Copynumber: 1.9 Consensus size: 392
47065759 TGATTGAAGA
**
47065769 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAGGTCTTATCTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
*
47065834 CAATGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
66 CAATGGAACAGACCAAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
* * * *
47065899 TAGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATATCTCTAAA
131 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATATCCCTAAA
* * * * * *
47065964 GTTACAGTAGAGTAGATCATGTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCT
196 GTTACAGTAGAGCAGATCAAGTCAGATCCTATCTCCCTGAGATTACAGTGGAGCAGATAAAACCA
* *
47066029 AGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAAGATCTTATCTCCCTGAGA
261 AGTAATCCTATCTCCCTGATATTACAGTAGAGCAGATTAAAACCAAAGATCTTATCTCCCTGAGA
*
47066094 TTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAA
326 TTACAGCAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAA
47066159 CC
391 CC
* *
47066161 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATTTCCCTGAGATTA
1 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
* * *
47066226 TAGTGGAACAGACCGAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
66 CAATGGAACAGACCAAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
* * *
47066291 TAGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAA-GATCTTATCTCCCT-G
131 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA-CAAAGGATCTTATATCCCTAA
* * * **
47066354 AGATTACAGTGGAGCAGATCAAAG-CTAGTAATCCTATCTCCTTGATATTACAGTGGAGTGGATT
195 AG-TTACAGTAGAGCAGATC-AAGTC-AG--ATCCTATCTCCCTGAGATTACAGTGGAGCAGA-T
* * * * * *** * *
47066418 AAAACCAAG-GATCTTATCTCTCTGA-AGTTGCAGTAGAGTAGA-TCGTA-C-TAGGTCTTATCT
254 AAAACCAAGTAATCCTATCTCCCTGATA-TTACAGTAGAGCAGATTAAAACCAAAGATCTTATCT
**
47066478 CCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCT
318 CCCTGAGATTACAGCAGAGCAGATCGAAGCTAGTAATCCT
47066518 GTGACACCCT
Statistics
Matches: 308, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
391 2 0.01
392 237 0.77
393 8 0.03
394 3 0.01
395 51 0.17
396 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (392 bp):
AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTA
CAATGGAACAGACCAAAGAATTTCAGATCTTATCGCCCTGAGATTACAGCGGAGCAGATTGAAGC
TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATATCCCTAAA
GTTACAGTAGAGCAGATCAAGTCAGATCCTATCTCCCTGAGATTACAGTGGAGCAGATAAAACCA
AGTAATCCTATCTCCCTGATATTACAGTAGAGCAGATTAAAACCAAAGATCTTATCTCCCTGAGA
TTACAGCAGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTACAGTGGAGCGAATTAAAA
CC
Found at i:47069060 original size:47 final size:47
Alignment explanation
Indices: 47068988--47069449 Score: 712
Period size: 47 Copynumber: 9.7 Consensus size: 47
47068978 ATGATAGTAT
47068988 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
47069035 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47069082 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
47069131 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47069178 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
47069227 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
47069274 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
47069321 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
47069368 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
47069415 ACGTGATGGATGTGAAAATGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47069450 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 285 0.74
49 101 0.26
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:47069111 original size:96 final size:96
Alignment explanation
Indices: 47068988--47069449 Score: 738
Period size: 96 Copynumber: 4.9 Consensus size: 96
47068978 ATGATAGTAT
47068988 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47069051 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
47069082 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47069147 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
47069178 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47069243 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
*
47069274 ATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47069337 AGTGTATATATGTGATGAGGCCTAATGGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
47069368 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47069431 AATGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
47069450 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 149 0.43
96 200 0.57
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:47069158 original size:143 final size:141
Alignment explanation
Indices: 47068988--47069449 Score: 712
Period size: 143 Copynumber: 3.2 Consensus size: 141
47068978 ATGATAGTAT
47068988 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47069051 AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGAT
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
47069116 AAGGCCTAATGGCCG
127 AAGGCCTAATGGCCG
* *
47069131 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
47069196 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
47069261 GGCCTAATAGCCG
129 GGCCTAATGGCCG
*
47069274 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
47069339 TGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
47069404 CCGAGTGGCCA
131 CCTAATGGCCG
* * * *
47069415 ACGTGATGGATGTGAAAATGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47069450 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
141 97 0.33
143 142 0.48
145 56 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:47071705 original size:166 final size:160
Alignment explanation
Indices: 47071434--47071915 Score: 646
Period size: 166 Copynumber: 3.0 Consensus size: 160
47071424 TCGAATGATG
** * * *
47071434 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAGTTCCGAAGAGCA
** * * * * *
47071496 TTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCTGGGC
64 TTCATGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGC
47071561 TAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
128 TAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
47071594 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCTTAGCCCGAAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAG---TT---CCGAAG
47071659 AGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
60 AGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCG
47071724 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
125 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
47071760 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
* * ** * * * * *
47071825 CGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGCGTTATATCCGGGCTAG
66 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAA
* *
47071890 GTCCCGAAGAGCAATCATGCTGGTGA
131 GTCCCGAAGAGCATTCATGCTAGTGA
47071916 CGTGTATTCG
Statistics
Matches: 289, Mismatches: 24, Indels: 18
0.87 0.07 0.05
Matches are distributed among these distances:
160 124 0.43
161 7 0.02
162 6 0.02
163 3 0.01
166 137 0.47
167 12 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (160 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAA
GTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:47071880 original size:40 final size:40
Alignment explanation
Indices: 47071434--47071915 Score: 612
Period size: 40 Copynumber: 11.9 Consensus size: 40
47071424 TCGAATGATG
** *
47071434 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
47071474 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
47071514 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47071554 TCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
47071594 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
47071634 TCCGGGCTAAGTCCTTAGCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAG----T--CCCGAAGAGCATTCATGCTAGTGATATA
47071680 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
47071720 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
47071760 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
47071800 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
47071840 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGCGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
47071880 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
47071916 CGTGTATTCG
Statistics
Matches: 398, Mismatches: 34, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.00
40 336 0.84
41 20 0.05
42 1 0.00
44 1 0.00
46 39 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:47072804 original size:4 final size:4
Alignment explanation
Indices: 47072795--47072822 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47072785 TATTTTTATT
47072795 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
47072823 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:47075186 original size:18 final size:18
Alignment explanation
Indices: 47075165--47075203 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47075155 GATTGAGAGT
* *
47075165 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
47075183 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
47075201 GAA
1 GAA
47075204 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:47076607 original size:4 final size:4
Alignment explanation
Indices: 47076598--47076625 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47076588 AAGTTTTATT
47076598 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
47076626 ATTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:47080278 original size:47 final size:47
Alignment explanation
Indices: 47080206--47080667 Score: 694
Period size: 47 Copynumber: 9.7 Consensus size: 47
47080196 ATGATAGTAT
47080206 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
47080253 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
47080300 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
47080349 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47080396 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
47080445 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
47080492 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
47080539 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
47080586 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
47080633 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47080668 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 283 0.74
49 98 0.26
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:47080329 original size:96 final size:96
Alignment explanation
Indices: 47080206--47080667 Score: 720
Period size: 96 Copynumber: 4.9 Consensus size: 96
47080196 ATGATAGTAT
47080206 ATGTGAT--ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47080269 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
47080300 ATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATATGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47080365 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
47080396 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47080461 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
*
47080492 ATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
47080555 AGTGTATATATGTGATGAGGCCTAATGGCCG
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
47080586 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47080649 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
47080668 TCCCGAAGGG
Statistics
Matches: 344, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
94 149 0.43
96 195 0.57
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:47082288 original size:44 final size:44
Alignment explanation
Indices: 47082225--47082779 Score: 289
Period size: 44 Copynumber: 12.8 Consensus size: 44
47082215 TTACAAATCC
* *
47082225 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
** * * * *
47082269 TATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* * *
47082313 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * * *** **
47082357 TATCTCTCTGA-AGTTACAATAGAGTAGA-TCGTACC--AGGCCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * * * *
47082398 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* * * *
47082442 TATCTCCCTGATATTATAGTGGAGCGGATTAAAACCAATGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * * *** *
47082486 TATCTCTCTGA-AGTTATAGTAGAGTAGA-TCGCACC--AGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* * * ****
47082527 TATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGA-T-TAAAACCAAAGATCT
** * * * *
47082573 TATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTA-ATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
* *
47082617 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACC-AAGAATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAG-ATCT
* * * *** *
47082661 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTACC--AGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCAAAGATCT
* ** * * * *
47082702 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTA-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA-AAGATCT
*
47082746 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAA
47082780 TAAAGGATTT
Statistics
Matches: 370, Mismatches: 116, Indels: 50
0.69 0.22 0.09
Matches are distributed among these distances:
41 73 0.20
42 9 0.02
43 15 0.04
44 239 0.65
45 5 0.01
46 29 0.08
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCAAAGATCT
Found at i:47082497 original size:129 final size:129
Alignment explanation
Indices: 47082267--47082559 Score: 487
Period size: 129 Copynumber: 2.3 Consensus size: 129
47082257 AACCAAAGAT
*
47082267 CTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
*
47082332 TGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGTACCAGGC
66 TGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCACCAGGC
* *
47082396 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTATAG
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
* * * *
47082461 TGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAGGT
66 TGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCACCAGGC
* * *
47082525 CTTATTTCCCTGAGATTACAGTGGAACAGACTGAA
1 CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA
47082560 AAATTTCAGA
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 152 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (129 bp):
CTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
TGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCACCAGGC
Found at i:47082600 original size:175 final size:175
Alignment explanation
Indices: 47082396--47082729 Score: 580
Period size: 175 Copynumber: 1.9 Consensus size: 175
47082386 CGTACCAGGC
* *
47082396 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTATAG
1 CTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
*
47082461 TGGAGCGGATTAAAACCAATG-ATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAGGT
66 TGGAGCGGATTAAAACCAA-GAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGT
* *
47082525 CTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTCAGAT
130 CTTATCTCCCTGAGATTACAGCGGAACAGACTGAAAAATTTCAGAT
*
47082571 CTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATATTACAG
1 CTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
*
47082636 TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCAGGTC
66 TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTC
*
47082701 TTATCTCCCTGAGATTACAGCGGAGCAGA
131 TTATCTCCCTGAGATTACAGCGGAACAGA
47082730 TCGAAGCTAG
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 1 0.01
175 149 0.99
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (175 bp):
CTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTACAG
TGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTC
TTATCTCCCTGAGATTACAGCGGAACAGACTGAAAAATTTCAGAT
Found at i:47082718 original size:85 final size:84
Alignment explanation
Indices: 47082442--47082726 Score: 286
Period size: 85 Copynumber: 3.3 Consensus size: 84
47082432 CTAGTAATCC
* * *
47082442 TATCTCCCTGATATTATAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAA-GATCTTATCTCTCTGAAGTTACAGTA
*
47082507 GAGTAGATCGCACCAGGTCT
65 GAGTAGATCGAACCAGGTCT
* * * * * *
47082527 TATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTC-AGATCTTATCTCCCTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGGAGCGGA-T-TAAAA--CCAAGATCTTATCTCTCTGAAG-TTAC
*** * * * *
47082590 AACGGAGCAGATTGAAGCTAGTAATCT
61 AGTAGAGTAGATCGAA-CCAG--GTCT
*
47082617 TATCTCCCTGATATTACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAG-ATCTTATCTCTCTGAAGTTACAGTA
*
47082682 GAGTAGATCGTACCAGGTCT
65 GAGTAGATCGAACCAGGTCT
*
47082702 TATCTCCCTGAGATTACAGCGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
47082727 AGATCGAAGC
Statistics
Matches: 155, Mismatches: 34, Indels: 22
0.73 0.16 0.10
Matches are distributed among these distances:
85 49 0.32
86 4 0.03
87 36 0.23
88 35 0.23
89 4 0.03
90 27 0.17
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGAACCAGGTCT
Found at i:47082725 original size:129 final size:129
Alignment explanation
Indices: 47082570--47082858 Score: 452
Period size: 129 Copynumber: 2.2 Consensus size: 129
47082560 AAATTTCAGA
* * * *
47082570 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
47082635 GTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCAGG
66 GTGGAGCGGATTAAAACAAAGAATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
47082699 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * * * *
47082764 GTGGAGCGGATTAAAATAAAGGATTTTATCTTTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
66 GTGGAGCGGATTAAAACAAAGAATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
* *
47082828 TCTTATCTCCCTGAGATTACAGTGGAACAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
47082859 CCGAGGGATT
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 146 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAACAAAGAATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
Found at i:47082816 original size:304 final size:304
Alignment explanation
Indices: 47082263--47082882 Score: 1024
Period size: 304 Copynumber: 2.0 Consensus size: 304
47082253 TTAAAACCAA
**
47082263 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
*
47082328 ACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGTACCA
66 ACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGTACCA
* *
47082393 GGCCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGATATTA
131 GGCCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * * * *
47082458 TAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCACCAG
196 CAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
* *
47082523 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAAAATTTC
261 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
* *
47082567 AGATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCTTATCTCCCTGATATT
1 AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
*
47082632 ACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTACCA
66 ACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGTACCA
*
47082697 GGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
131 GGCCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * * *
47082762 CAGTGGAGCGGATTAAAATAAAGGATTTTATCTTTCTGAAGTTACAGCAGAGTAGATCGCATCAG
196 CAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
***
47082827 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAGGGATTTC
261 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
*
47082871 AGATTTTATCTC
1 AGATCTTATCTC
47082883 TCTAACGTTG
Statistics
Matches: 292, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
304 292 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (304 bp):
AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGATATT
ACAGTGGAGCGGATTAAAACCAAGAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGTACCA
GGCCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAG
GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
Found at i:47084471 original size:20 final size:20
Alignment explanation
Indices: 47084413--47084473 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
47084403 GTTTTACGAG
*
47084413 TATATGTATATA-TA-TTTA
1 TATATATATATATTATTTTA
*
47084431 TATATATATATAGTTTCTTTTA
1 TATATATATATA--TTATTTTA
*
47084453 TATTTATATATATTATTTTA
1 TATATATATATATTATTTTA
47084473 T
1 T
47084474 TTCATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 11 0.31
20 8 0.23
21 1 0.03
22 15 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (20 bp):
TATATATATATATTATTTTA
Found at i:47084482 original size:24 final size:25
Alignment explanation
Indices: 47084426--47084483 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
47084416 ATGTATATAT
* *
47084426 ATTTATATATATATATAGTTTCTTTT
1 ATTT-TATATATATATAGTTTATTTC
*
47084452 ATATTTATATATAT-TATTTTATTTC
1 AT-TTTATATATATATAGTTTATTTC
47084477 ATTTTAT
1 ATTTTAT
47084484 TTTTTATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.18
25 10 0.36
26 11 0.39
27 2 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTATATATATATAGTTTATTTC
Found at i:47091259 original size:12 final size:12
Alignment explanation
Indices: 47091242--47091271 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47091232 GGGGAAAGTA
47091242 AAAAAAAACAAG
1 AAAAAAAACAAG
*
47091254 AAAAAAAAGAAG
1 AAAAAAAACAAG
47091266 AAAAAA
1 AAAAAA
47091272 GATGAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:47111908 original size:5 final size:5
Alignment explanation
Indices: 47111898--47111940 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
47111888 AAAACTCATA
47111898 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
47111941 CTAGTCTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:47112726 original size:18 final size:17
Alignment explanation
Indices: 47112703--47112737 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
47112693 TAATTAATAG
47112703 AATATTATTACTTATTAA
1 AATATTATTA-TTATTAA
47112721 AATATTATTATTATTAA
1 AATATTATTATTATTAA
47112738 TAAAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTATTATTATTAA
Found at i:47112743 original size:21 final size:21
Alignment explanation
Indices: 47112705--47112746 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47112695 ATTAATAGAA
*
47112705 TATTATTACTTATTAAAATAT
1 TATTATTACTTATAAAAATAT
47112726 TATTATTA-TTAATAAAAATAT
1 TATTATTACTT-ATAAAAATAT
47112747 CATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTATTACTTATAAAAATAT
Found at i:47118144 original size:17 final size:18
Alignment explanation
Indices: 47118103--47118145 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
47118093 CTTCTCACCT
47118103 TTTTTTCTATTTACTTTA
1 TTTTTTCTATTTACTTTA
**
47118121 -TACTTCTATTTA-TTTA
1 TTTTTTCTATTTACTTTA
47118137 TTTTTTCTA
1 TTTTTTCTA
47118146 ATTCACCGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTCTATTTACTTTA
Found at i:47118385 original size:7 final size:7
Alignment explanation
Indices: 47118373--47118403 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47118363 ATCTTCAAGA
47118373 TTCTCGC
1 TTCTCGC
47118380 TTCTCGC
1 TTCTCGC
47118387 TTCTCGC
1 TTCTCGC
47118394 TTCTCGC
1 TTCTCGC
47118401 TTC
1 TTC
47118404 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.42, G:0.13, T:0.45
Consensus pattern (7 bp):
TTCTCGC
Found at i:47121816 original size:20 final size:20
Alignment explanation
Indices: 47121793--47121831 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47121783 AAATATAAAA
47121793 ATGTGT-AATGATGTATATAT
1 ATGTGTGAAT-ATGTATATAT
*
47121813 ATGTGTGTATATGTATATA
1 ATGTGTGAATATGTATATA
47121832 AAAATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTGTGAATATGTATATAT
Found at i:47122054 original size:3 final size:3
Alignment explanation
Indices: 47122046--47122094 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
47122036 TGTACATAGC
*
47122046 AAT AAT AAT AAT AAT AA- AACT AATT AAT -TT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT
47122090 AAT AA
1 AAT AA
47122095 CGGGACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
2 5 0.13
3 29 0.74
4 5 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47123689 original size:128 final size:127
Alignment explanation
Indices: 47123536--47123869 Score: 510
Period size: 127 Copynumber: 2.6 Consensus size: 127
47123526 ATTGATATTT
* * *
47123536 ATCCACTCCACTGCAACTTCGGGGAGATAGGATTTATTTCTT-TCGTCTGCTCCACTACTGCTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCT-GTCTGCTCCACTACTGCCTA
* * * *
47123600 GGGAGGTAAGACTTGATG-GAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
65 GGGAGATAAGACTTGATGTG-ATCTGCTCCACTACAACTT-AGAGAGATAAGATCTATGGTTTTA
* *
47123664 ATCCACTCCACTGGAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTACTCCACTACTGCCTAG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGCCTAG
* * *
47123729 GGAGATAAGACTGGATGTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTATGGTTTTA
66 GGAGATAAGACTTGATGTGATCTGCTCCACTACAACTTAGAGAGATAAGATCTATGGTTTTA
*
47123791 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCATTACTGCCTAG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGCCTAG
47123856 GGAGATAAGACTTG
66 GGAGATAAGACTTG
47123870 TAATTTCCAA
Statistics
Matches: 188, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 97 0.52
128 89 0.47
129 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (127 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACTGCCTAG
GGAGATAAGACTTGATGTGATCTGCTCCACTACAACTTAGAGAGATAAGATCTATGGTTTTA
Found at i:47123818 original size:44 final size:44
Alignment explanation
Indices: 47123629--47123819 Score: 137
Period size: 44 Copynumber: 4.5 Consensus size: 44
47123619 AATCTGCTCT
* *
47123629 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCACTCC
* * ** *
47123673 ACTGGAACTTCAGGGAGATAGGAT-TGAT--TTCTTCTGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATCT-ATGGTT-TT-AATCCACTCC
* ** * * * * **
47123717 ACTACTGCCT-AGGGAGATAAGA-C--TGGATGTGATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCACTCC
* *
47123757 ACTACTACTT-AGGGAGATAAGATCTATGGTTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCACTCC
47123800 ACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATA
47123820 GGATTGATTT
Statistics
Matches: 110, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
40 28 0.25
41 2 0.02
42 3 0.03
43 34 0.31
44 43 0.39
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTAATCCACTCC
Found at i:47124107 original size:87 final size:87
Alignment explanation
Indices: 47123985--47124836 Score: 1272
Period size: 87 Copynumber: 9.8 Consensus size: 87
47123975 GCTAGTACTT
* * *
47123985 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCAATGGAGGCAATGCTTTGATTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
47124050 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
47124072 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACTGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* * *
47124137 CTATCTGCTTCGCTGTTAATGG
66 CGATCTGCTTCGCTGTTAACGC
**
47124159 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* * *
47124224 TGATCTGCTTCACTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * *
47124246 AGGGAGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACTGATGGAGGCAAGACTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
47124311 CGATCTGCTTCGCTGTTAACAC
66 CGATCTGCTTCGCTGTTAACGC
*
47124333 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATCGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* **
47124398 TGATCTGCTTCGCTGTTAATAC
66 CGATCTGCTTCGCTGTTAACGC
* * **
47124420 AGGGAGGCAAGATCTGATATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* *
47124485 CGATCTGCTTCACTCTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
47124507 AGGAAGGCAAGATCTGCTATCTTTAATCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* * *
47124572 CGATCTGCTTCACTGTTAATGT
66 CGATCTGCTTCGCTGTTAACGC
* *
47124594 AGGGAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
47124659 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * * *
47124681 AGGAAGGCAAAATCTGCTATCTTTAATCAGCTCCACTGCAACCAATGGAGGTAAGGTTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* *
47124746 TGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * *
47124768 AGGGAGACAAGATCTGCTATATTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
47124833 CGAT
66 CGAT
47124837 TTTCACTGAT
Statistics
Matches: 690, Mismatches: 75, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 690 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:47129653 original size:19 final size:20
Alignment explanation
Indices: 47129624--47129675 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
47129614 CACTTTATGA
* *
47129624 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
47129643 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
47129663 AAATG-AATGCAAA
1 AAATGTAATGCAAA
47129676 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:47131902 original size:3 final size:3
Alignment explanation
Indices: 47131894--47131957 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
47131884 TGCACATAGC
*
47131894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AACT AATT AAT -TT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT
47131939 AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
47131958 CGGGAATAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
2 5 0.09
3 44 0.81
4 5 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47136939 original size:14 final size:14
Alignment explanation
Indices: 47136920--47136948 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47136910 ATAAGAAGAA
47136920 AGCTCAACGAGAGG
1 AGCTCAACGAGAGG
47136934 AGCTCAACGAGAGG
1 AGCTCAACGAGAGG
47136948 A
1 A
47136949 AATACATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.34, T:0.07
Consensus pattern (14 bp):
AGCTCAACGAGAGG
Found at i:47138616 original size:33 final size:33
Alignment explanation
Indices: 47138579--47138642 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
47138569 AAAATTACTA
47138579 TGGAAAAGTGTTGTTCAAAATTTAAGTGTTTTG
1 TGGAAAAGTGTTGTTCAAAATTTAAGTGTTTTG
*
47138612 TGGAAAAGTGTTGTTTAAAATTTAAGTGTTT
1 TGGAAAAGTGTTGTTCAAAATTTAAGTGTTT
47138643 AGTATTGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (33 bp):
TGGAAAAGTGTTGTTCAAAATTTAAGTGTTTTG
Found at i:47138638 original size:18 final size:18
Alignment explanation
Indices: 47138584--47138641 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
47138574 TACTATGGAA
*
47138584 AAGTGTTGTTCAAAATTT
1 AAGTGTTGTTTAAAATTT
**
47138602 AAGTGTT-TTGTGGAA---
1 AAGTGTTGTT-TAAAATTT
47138617 AAGTGTTGTTTAAAATTT
1 AAGTGTTGTTTAAAATTT
47138635 AAGTGTT
1 AAGTGTT
47138642 TAGTATTGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (18 bp):
AAGTGTTGTTTAAAATTT
Found at i:47142156 original size:72 final size:72
Alignment explanation
Indices: 47141796--47142131 Score: 466
Period size: 72 Copynumber: 4.7 Consensus size: 72
47141786 TCACCTGTGA
** * * * *
47141796 ATAAATTTTATATCC-AAAATCAAATATAAACAACTATTGATAAAGCTA-ATTTAGTA-A-AAAT
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGA-TTA-CACATAAAT
47141857 AAGTAGAAC
64 AAGTAGAAC
* *
47141866 ATAAATTCAATATCCAAAAACCAAACATAAACAATTACTGATAAAACTAGATTA-AGCATAAATA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACA-CATAAATA
*
47141930 AGTAGACC
65 AGTAGAAC
* * * *
47141938 ATAAATTCAATATTCAAAAACCAAATATAAACAACTGTTGATAACACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
47142003 GTAGAAC
66 GTAGAAC
*
47142010 ATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAGATTACACATAAATAA
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
47142075 GTAGAAC
66 GTAGAAC
* *
47142082 ATAAATTCAATATCCAAAAACCAAACATAATCAACAATTGATAAAACTAG
1 ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
47142132 TTTAGCATTG
Statistics
Matches: 238, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
69 1 0.00
70 13 0.05
71 32 0.13
72 191 0.80
73 1 0.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
ATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAA
GTAGAAC
Found at i:47144851 original size:22 final size:22
Alignment explanation
Indices: 47144799--47144852 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
47144789 ATTGAATCAA
* *
47144799 AGAAAGGAAAATAAGCTTTTGG
1 AGAAAAGAAAATAAGCTTTTGC
* *
47144821 AGAAGAGAAAATGAGCTTTTGC
1 AGAAAAGAAAATAAGCTTTTGC
*
47144843 ATAAAAGAAA
1 AGAAAAGAAA
47144853 GCAGTCAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (22 bp):
AGAAAAGAAAATAAGCTTTTGC
Found at i:47148052 original size:23 final size:22
Alignment explanation
Indices: 47148024--47148120 Score: 97
Period size: 23 Copynumber: 4.2 Consensus size: 22
47148014 ACATTTATAG
*
47148024 AATACGTCACA-AACGCCAAACAG
1 AATACG-CACACAA-GCCAAACAA
47148047 AATACGCTACACAAGCCAAACAA
1 AATACGC-ACACAAGCCAAACAA
47148070 AATACGCCACACAAGCCAAACAA
1 AATACG-CACACAAGCCAAACAA
* * * *
47148093 AATATGCCTCACAAGGCAAACAG
1 AATACG-CACACAAGCCAAACAA
47148116 AATAC
1 AATAC
47148121 TCCACAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 61 0.94
24 3 0.05
ACGTcount: A:0.49, C:0.30, G:0.11, T:0.09
Consensus pattern (22 bp):
AATACGCACACAAGCCAAACAA
Done.