Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 3137677
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 24
Found at i:350400 original size:130 final size:128
Alignment explanation
Indices: 350189--350463 Score: 324
Period size: 130 Copynumber: 2.1 Consensus size: 128
350179 TTTTCATCTG
* * * ** *
350189 GGGGATACTTCAA-TCCTGGTTTCATTTCCAAAACATCAATTTTTCATCGGGGATACTCTAACCC
1 GGGGATACTCCAACTCCTGATTTCATTTCCAAAACACCAATTTTTCATAAGGGATACTCCAACCC
* * * **
350253 CGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT-ACCAATTTTCCACAATA
66 CGTTATTTCCAAAGGGATACTCCAACCCCGACCTTATTTCT-AAATCACCAATTTTCCACAATA
*
350316 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTTTCACAATAAGGGATACTCCAA
1 GGGGATACTCCAACTCCTGATTTCATTTCCAAAACACCAATTTTT--C-ATAAGGGATACTCCAA
* * * * *
350380 CCCCGTTATTTCCAAAGGGATACTTCAACCCCGACCTTATTTCTAAATCATCGATTTTTCATAAT
63 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGACCTTATTTCTAAATCACCAATTTTCCACAAT
*
350445 C
128 A
350446 GGGGATACTCCAAC-CCTG
1 GGGGATACTCCAACTCCTG
350464 TTATTTTCGA
Statistics
Matches: 124, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
127 36 0.29
128 3 0.02
129 7 0.06
130 78 0.63
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (128 bp):
GGGGATACTCCAACTCCTGATTTCATTTCCAAAACACCAATTTTTCATAAGGGATACTCCAACCC
CGTTATTTCCAAAGGGATACTCCAACCCCGACCTTATTTCTAAATCACCAATTTTCCACAATA
Found at i:350603 original size:158 final size:158
Alignment explanation
Indices: 350315--350623 Score: 424
Period size: 158 Copynumber: 2.0 Consensus size: 158
350305 TTTCCACAAT
* *
350315 AGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATAAGGGATACTCCAA
1 AGGGGATACTCCAACACCGATTTCATTTCCAAAACACCAATTTTTCACAATAAGGGATACTCCAA
* *
350380 CCCCGTTATTTCCAAAGGGATACTTCAACCCCGACCTTATTTCTAAATCATCGATTTTTCATAAT
66 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGACCTTATTTCTAAATCATCGATTTTCCATAAT
350445 CGGGGATACTCCAACCCTGTTATTTTCG
131 CGGGGATACTCCAACCCTGTTATTTTCG
* * ** * *
350473 AGGGGATACTCCAACACCGATTTCATTTTCAAAATACTGATTTTT-ATAATCAGGGATACTCCAA
1 AGGGGATACTCCAACACCGATTTCATTTCCAAAACACCAATTTTTCACAATAAGGGATACTCCAA
* * * * ** *
350537 CCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTTATTTCTGGAAT-ATCGATTTTCCATA
66 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGA-CCTTATTTCT-AAATCATCGATTTTCCATA
*
350601 ATCGGGGATACTCTAACCCTGTT
129 ATCGGGGATACTCCAACCCTGTT
350624 GTTATCTCCA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
157 46 0.35
158 82 0.63
159 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (158 bp):
AGGGGATACTCCAACACCGATTTCATTTCCAAAACACCAATTTTTCACAATAAGGGATACTCCAA
CCCCGTTATTTCCAAAGGGATACTCCAACCCCGACCTTATTTCTAAATCATCGATTTTCCATAAT
CGGGGATACTCCAACCCTGTTATTTTCG
Found at i:356935 original size:60 final size:61
Alignment explanation
Indices: 356783--357411 Score: 783
Period size: 61 Copynumber: 10.5 Consensus size: 61
356773 TAGCCCTTCC
* * * *
356783 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGC-GCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
*
356844 AGCCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* **
356905 AGTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCACC-TCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
*
356964 AGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* *
357026 AGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* ** * * *
357086 AGTCCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCTACACAAGTGGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * **
357147 AGTCCTTAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT-T
* *
357210 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-TTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * *
357270 CAGTCCTTAAAGAGTAGGA--CC----CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* *
357326 AGTCCTCAAAGAGTAGGA------TACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* *
357381 AGTCGTCAAAGAGCAAGACG-CTCTTTCCTTT
1 AGTCCTCAAAGAGCAGGACGCCT-TTTCCTTT
357412 CACCCTTTAG
Statistics
Matches: 503, Mismatches: 47, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
55 92 0.18
56 3 0.01
59 26 0.05
60 135 0.27
61 141 0.28
62 53 0.11
63 53 0.11
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
Found at i:357326 original size:55 final size:56
Alignment explanation
Indices: 356777--357395 Score: 516
Period size: 60 Copynumber: 10.4 Consensus size: 56
356767 CTTTTTTAGC
* * * *
356777 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGC-
1 CCTTTCAGTCCTCAAAGAGCAGGA--CC---TCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
356838 GCTTTTAGCCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CC---TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
356899 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CC-TC-CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
356959 CC-TCCAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CC-----TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
357021 CCTTT-AGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGAC--C---TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
357081 -CTTTTAGTCCTCAAAGAGCAAGACATCTTTTCCTTTTAAAGCCTACACAAGTGGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGAC--C---TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
357141 CCCTTT-AGTCCTTAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTCAGTCCTCAAAGAGCAGGA--CC---TCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
357202 TTTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 -CCTTTC-AGTCCTCAAAGAGCAGGA--CC---TCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
357265 TTTTTCAGTCCTTAAAGAGTAGGACC-CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
357320 CCTTTCAGTCCTCAAAGAGTAGGA--TACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACCT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
357375 CCTTTTAGTCGTCAAAGAGCA
1 CCTTTCAGTCCTCAAAGAGCA
357396 AGACGCTCTT
Statistics
Matches: 499, Mismatches: 41, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
55 94 0.19
59 32 0.06
60 132 0.26
61 126 0.25
62 58 0.12
63 57 0.11
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (56 bp):
CCTTTCAGTCCTCAAAGAGCAGGACCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:357498 original size:55 final size:55
Alignment explanation
Indices: 357415--357550 Score: 170
Period size: 55 Copynumber: 2.5 Consensus size: 55
357405 TTCCTTTCAC
* *
357415 CCTTT-AGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCGCA-AAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAA-TTGGTGGCA
* * * *
357469 CCTTTCAGTCCTCAAGGAGCATGATGCCTTTTAAAGCCCACACAAATTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCA
*
357524 -CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CCTTTC-AGTCCTCAAAGAGCAGGACGC
357551 TCTCTCCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
54 9 0.13
55 57 0.83
56 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAATTGGTGGCA
Found at i:357550 original size:149 final size:148
Alignment explanation
Indices: 357271--357693 Score: 578
Period size: 149 Copynumber: 2.8 Consensus size: 148
357261 GGCATTTTTC
* * *
357271 AGTCCTTAAAGAGTAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * *
357336 GAGTAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCGTCAAAGAGCAAGACG
66 GAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAAGACG
*
357401 CTCTTTCCTTTCACCCTTT
130 CTCTCTCCTTTCACCCTTT
* * * *
357420 AGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCGCAAAAGTTGGTGGCACCTTTCAGTCCTCAAG
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * * *
357485 GAGCATGATGCCTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
66 GAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTAGTCCTCAAAGAGCAAGACG
*
357550 CTCTCTCCTTTCACCTTTT
130 CTCTCTCCTTTCACCCTTT
* * * *
357569 TGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACC-TTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
357633 GAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAA
66 GAGCAGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-AGTCCTCAAA
357694 TAGTAGGATG
Statistics
Matches: 239, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
148 24 0.10
149 173 0.72
153 1 0.00
154 41 0.17
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (148 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAAGACGC
TCTCTCCTTTCACCCTTT
Found at i:357565 original size:94 final size:93
Alignment explanation
Indices: 357467--357653 Score: 270
Period size: 94 Copynumber: 2.0 Consensus size: 93
357457 AAGTTGGTGG
* * *
357467 CACCTTTCAGTCCTCAAGGAGCATGATGCCTTTTAAAGCCCACACAAATTGGTGGCA-CTTCCTA
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAACTGGTGGCACCTT-C-A
357531 GTCCTCAAAGAGCAGGACG-CTCTCTCCTTT
64 GTCCTCAAAGAGCAGGACGCCT-TCTCCTTT
** *
357561 CACCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
1 CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAACTGGTGGCACCTTCAGT
*
357626 CCTCAAAGAGCAGGATGCCTTCTCCTTT
66 CCTCAAAGAGCAGGACGCCTTCTCCTTT
357654 TAAAGCCCAC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
93 27 0.32
94 54 0.64
95 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
CACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAACTGGTGGCACCTTCAGT
CCTCAAAGAGCAGGACGCCTTCTCCTTT
Found at i:357661 original size:60 final size:61
Alignment explanation
Indices: 357570--357822 Score: 283
Period size: 61 Copynumber: 4.3 Consensus size: 61
357560 TCACCTTTTT
*
357570 GTCCTCAAAGAGCAGGATG-----CCTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTTCA
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCA
*
357624 GTCCTCAAAGAGCAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCCTT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCA
* * * *
357685 GTCCTCAAATAGTAGGATG-CTTTCTTTTTGCAAAGCCCACATAAGTTGGTGGCAC-CTTCCA
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTT-CAAAGCCCACACAAGTTGGTGGCACTCTT-CA
* * * * * * *
357746 GTCCTCAAAGGGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGACACTTTTCA
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCA
*
357807 GTCCTCAAAAAGCAGG
1 GTCCTCAAAGAGCAGG
357823 GCACACTTTC
Statistics
Matches: 168, Mismatches: 19, Indels: 17
0.82 0.09 0.08
Matches are distributed among these distances:
54 19 0.11
59 6 0.04
60 34 0.20
61 99 0.59
62 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTCA
Found at i:357782 original size:122 final size:121
Alignment explanation
Indices: 357595--357815 Score: 345
Period size: 122 Copynumber: 1.8 Consensus size: 121
357585 GATGCCTTTT
*
357595 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
*
357660 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAATAGTAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGGTGACACTTTTCAGTCCTCAAATAGTAGGATGCTTTCTTTTTGC
* * * * *
357716 AAAGCCCACATAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGTAGGACGCCTT-TTCTTTTCAAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAA
*
357780 GCCCACACGAGTTGGTGACACTTTTCAGTCCTCAAA
64 GCCCACACAAGTTGGTGACACTTTTCAGTCCTCAAA
357816 AAGCAGGGCA
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
121 31 0.34
122 59 0.66
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
CCACACAAGTTGGTGACACTTTTCAGTCCTCAAATAGTAGGATGCTTTCTTTTTGC
Found at i:357907 original size:42 final size:42
Alignment explanation
Indices: 357808--357935 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
357798 CACTTTTCAG
* * * *
357808 TCCTCAAAAAGCAGGGCACACTTT-CTTCCCTTCTTTTCTCTTTTG
1 TCCTCAAAGAGCAGGACACACTTTATTTCCC-T-TTTTC-C-TTTA
* *
357853 TCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTCCTTTA
1 TCCTCAAAGAGCAGGACACACTTTATTTCCCTTTTTCCTTTA
* * * *
357895 TCCTCAGAGAGCAGGACATATTTTGTTTCCCTTTTTCCTTT
1 TCCTCAAAGAGCAGGACACACTTTATTTCCCTTTTTCCTTT
357936 GACCTCGAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 38 0.54
43 1 0.01
44 5 0.07
45 22 0.31
46 4 0.06
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.41
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACACACTTTATTTCCCTTTTTCCTTTA
Found at i:358771 original size:20 final size:20
Alignment explanation
Indices: 358746--358905 Score: 86
Period size: 20 Copynumber: 7.8 Consensus size: 20
358736 CTGCCAAGGA
358746 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
358766 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
*
358781 --TGTATCGATACATTGTTC
1 AATGTATCGATACATTATTC
*
358799 ATTGTATCGATACATCTAGGAAGTTTACC
1 AATGTATCGATACAT-T----A--TT--C
358828 TAGATGTATCGATACATT-TTGC
1 -A-ATGTATCGATACATTATT-C
* * *
358850 ATTGTATTGATACATTACTC
1 AATGTATCGATACATTATTC
*
358870 ATTGTATCGATACATT-TTAC
1 AATGTATCGATACATTATT-C
358890 AATGTATCGATACATT
1 AATGTATCGATACATT
358906 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 10, Indels: 40
0.69 0.06 0.25
Matches are distributed among these distances:
13 11 0.10
16 1 0.01
17 2 0.02
19 1 0.01
20 71 0.65
21 3 0.03
22 1 0.01
23 2 0.02
27 2 0.02
29 1 0.01
30 2 0.02
31 13 0.12
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:358786 original size:13 final size:13
Alignment explanation
Indices: 358768--358796 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
358758 CATTATTCAA
358768 TGTATCGATACAT
1 TGTATCGATACAT
358781 TGTATCGATACAT
1 TGTATCGATACAT
358794 TGT
1 TGT
358797 TCATTGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:358790 original size:33 final size:33
Alignment explanation
Indices: 358748--358813 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
358738 GCCAAGGAAA
358748 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
* *
358781 TGTATCGATACATTGTTCATTGTATCGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
358814 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:364815 original size:51 final size:50
Alignment explanation
Indices: 364702--364870 Score: 128
Period size: 51 Copynumber: 3.3 Consensus size: 50
364692 TCAATTTTTC
* * * * * * * **
364702 ATCGGGGATACTCCAGCCCCGATTTTATTTCTAAAACACCAATTCTCCACA
1 ATCGGGGATACTCCAACTCCGATTTCATCTCCAAAACACAAATTTTTTA-A
* * *
364753 A-CCGGGATACTCTAA-TCTCGGTTTCATCTCCAAAACATCAAATTTTCTT-A
1 ATCGGGGATACTCCAACTC-CGATTTCATCTCCAAAACA-CAAATTTT-TTAA
* * *
364803 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTTACA
1 ATCGGGGATACTCCAACTCCGATTTCATCTCCAAAACACAAATTTTTTA-A
*
364854 ATTGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
364871 CCTGTTATTT
Statistics
Matches: 92, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
49 3 0.03
50 35 0.38
51 52 0.57
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
ATCGGGGATACTCCAACTCCGATTTCATCTCCAAAACACAAATTTTTTAA
Found at i:364927 original size:79 final size:79
Alignment explanation
Indices: 364809--364981 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 79
364799 CTTAATCGGG
* * **
364809 GATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTTACAATTGGGGATACTCCAACCCT
1 GATACTCAAACCCCGATTTTATTTCCAAAACACCAATTTTTTACAATCAGGGATACTCCAACCCT
*
364874 GTTATTTTTGAGGA
66 GTTATTTCTGAGGA
* * * * *
364888 GATGCTCAAACCCCGATTTTAGTTT-CAAAATACCGATTTTTTATAATCAGGGATACTCTAACCC
1 GATACTCAAACCCCGATTTTA-TTTCCAAAACACCAATTTTTTACAATCAGGGATACTCCAACCC
*
364952 TGTTATTTCTGAGGG
65 TGTTATTTCTGAGGA
*
364967 GATACTCCAACCCCG
1 GATACTCAAACCCCG
364982 GTTTATATCT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 77 0.96
80 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GATACTCAAACCCCGATTTTATTTCCAAAACACCAATTTTTTACAATCAGGGATACTCCAACCCT
GTTATTTCTGAGGA
Found at i:365029 original size:78 final size:79
Alignment explanation
Indices: 364809--365029 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 79
364799 CTTAATCGGG
* * * * * * * **
364809 GATACTCCAACTCCGATTTTA-TTTCCAAAACACCAATTTTTTACAATTGGGGATACTCCAACCC
1 GATACTCAAACCCCGATTTTAGTCT-CAAAATACCGATTTTTCATAATCAGGGATACTCCAACCC
*
364873 TGTTATTTTTGAGGA
65 TGTTATTTCTGAGGA
* * * *
364888 GATGCTCAAACCCCGATTTTAGTTTCAAAATACCGATTTTTTATAATCAGGGATACTCTAACCCT
1 GATACTCAAACCCCGATTTTAGTCTCAAAATACCGATTTTTCATAATCAGGGATACTCCAACCCT
*
364953 GTTATTTCTGAGGG
66 GTTATTTCTGAGGA
* * ** *
364967 GATACTCCAACCCCGGTTTATA-TCT-AAAATATTGATTTTTCATAATC-GGGTGTACTCCAACC
1 GATACTCAAACCCCGATTT-TAGTCTCAAAATACCGATTTTTCATAATCAGGG-ATACTCCAACC
365029 C
64 C
365030 CATTAGGTCA
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 29 0.24
79 82 0.69
80 5 0.04
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GATACTCAAACCCCGATTTTAGTCTCAAAATACCGATTTTTCATAATCAGGGATACTCCAACCCT
GTTATTTCTGAGGA
Found at i:365178 original size:51 final size:50
Alignment explanation
Indices: 365071--365187 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 50
365061 TATTTCTGAG
*
365071 GGGATACTCCAACCCCGATTTTATTTCTAAAATACAAAATTTTCACAATC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACAAAATTTTCACAATC
* * * *
365121 GAGGATACTCTAACTCCGATTTTATTT-TCAAAACAC-CAATTTTCTATAATC
1 G-GGATACTCCAACCCCGATTTTATTTCT-AAAACACAAAATTTTC-ACAATC
365172 AGGGATACTCCAACCC
1 -GGGATACTCCAACCC
365188 TATTATTTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 9 0.16
51 46 0.82
52 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACAAAATTTTCACAATC
Found at i:365293 original size:78 final size:78
Alignment explanation
Indices: 365123--365338 Score: 276
Period size: 78 Copynumber: 2.7 Consensus size: 78
365113 TCACAATCGA
* *
365123 GGATACTCTAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCC
1 GGATACTCCAAC-CCGATTTTACTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCC
365188 TATTATTTCCGAGG
65 TATTATTTCCGAGG
* * * *
365202 AGATACTCCAACCCTGATTTTAGTTTCAAAATACCAATTTTCTATAATTAGGGA-ACTCCAACCC
1 GGATACTCCAACCC-GATTTTACTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCC
*
365266 TATTATTTTCGAGG
65 TATTATTTCCGAGG
* **
365280 GGATACTCCAACCCCGATTTTACTTCCAAAACACTGATTTT-TCATAATC-GAGGATACTC
1 GGATACTCCAA-CCCGATTTTACTTTCAAAACACCAATTTTCT-ATAATCAG-GGATACTC
365339 TAGCCCCGTT
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
77 2 0.02
78 64 0.54
79 53 0.45
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCGATTTTACTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCT
ATTATTTCCGAGG
Found at i:371682 original size:60 final size:61
Alignment explanation
Indices: 371496--372448 Score: 1148
Period size: 60 Copynumber: 15.5 Consensus size: 61
371486 CCTCTTTTAG
* *
371496 CCCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTT-AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
371560 -CCTTCAGTCCTCAAAGAGCAAGACGCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGC--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
371622 -CCTTTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
371682 CCCTTTAGTCTTCAAAGAGCAGGACGTCTTCTCC-TTTAAAGCTCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*** ** * *
371742 CCCTCCGGTCCTCAAAGAGCAGGACGTTTTTTTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACG----CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
371807 CCCTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
371868 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACACGAGTTGGTGGCT
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
371928 CCCTCTAGTCCTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
371989 CCCTTTAGTCCTCAAAGAGCAGGGCACCTTCTCC-TTCAAAGCCCACACGAGTTAGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** ** * *
372049 CCCTCAAGTCCTCAAAGAGCAGGACGATTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
*
372112 CCCTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
372173 CCCTTTAGTCCTCAAAGAGCAGGGCGCCTTCT-CTTTCAAAGCCCACACGAGTTGGTTGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
372233 CCCTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGC-CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * * *
372296 CCCTCCAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGATGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
372357 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCC-TTCAAAGCCCACACAAGTTCGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
372417 -CCTCTTAGTCCTCAAAGAGCAGAACGCACTTT
1 CCCT-TTAGTCCTCAAAGAGCAGGACGC-CTTT
372449 ATTTTCCTCT
Statistics
Matches: 768, Mismatches: 104, Indels: 37
0.84 0.11 0.04
Matches are distributed among these distances:
59 2 0.00
60 265 0.35
61 252 0.33
62 99 0.13
63 98 0.13
64 6 0.01
65 46 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (61 bp):
CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:371964 original size:121 final size:121
Alignment explanation
Indices: 371496--372443 Score: 1143
Period size: 121 Copynumber: 7.7 Consensus size: 121
371486 CCTCTTTTAG
* * *
371496 CCCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CCCTTT-AGTCCTCAAAGAGCAGGACGCC--TTTTC-CTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
371561 CTTC-AGTCCTCAAAGAGCAAGACGCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
62 CCTCTAGTCCTCAAAGAGCAGGACGC--TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
371622 -CCTTTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCT
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCACCCT
* * * * *
371686 TTAGTCTTCAAAGAGCAGGACG-TCTTCTCC-TTTAAAGCTCACACGAGTTGGTGGCA
65 CTAGTCCTCAAAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*** ** *
371742 CCCTCCGGTCCTCAAAGAGCAGGACGTTTTTTTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACG----CCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCA
*
371807 CCCTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
61 CCCTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
371868 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACGAGTTGGTGGCTCCCTC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTC
* * *
371933 TAGTCCTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCA
66 TAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
371989 CCCTTTAGTCCTCAAAGAGCAGGGCACCTTCTCCTTCAAAGCCCACACGAGTTAGTGGCACCCTC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTC
* * * *
372054 AAGTCCTCAAAGAGCAGGACGATTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
66 TAGTCCTCAAAGAGCAGGACG-CTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
372112 CCCTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCT
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCACCCT
* * * * * * *
372177 TTAGTCCTCAAAGAGCAGGGCGCCTTCT-CTTTCAAAGCCCACACGAGTTGGTTGCA
65 CTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
372233 CCCTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 CCCTTTAGTCCTCAAAGAGCAGGACGC--CTTTTC-CTTCAAAGCCCACACAAGTTGGTGGCACC
* * * * *
372298 CTCCAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGATGGCA
63 CTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
372357 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTCAAAGCCCACACAAGTTCGTGGCA-CCTC
1 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTC
*
372421 TTAGTCCTCAAAGAGCAGAACGC
66 -TAGTCCTCAAAGAGCAGGACGC
372444 ACTTTATTTT
Statistics
Matches: 712, Mismatches: 92, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
120 29 0.04
121 274 0.38
122 58 0.08
123 128 0.18
124 111 0.16
125 65 0.09
126 47 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (121 bp):
CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTC
TAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:372146 original size:184 final size:182
Alignment explanation
Indices: 371503--372438 Score: 1234
Period size: 184 Copynumber: 5.1 Consensus size: 182
371493 TAGCCCTTTC
* * * *
371503 AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAG
1 AGTCCTCAAAGAGCAGGA--CGTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAG
* *
371567 TCCTCAAAGAGCAAGACGCTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTC
64 TCCTCAAAGAGCAGGACGC--TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTC
* * *
371631 CTCAAAGAGCAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
127 CTCAAAGAGCAGGACGCCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCACCCTCT
* * * * * *
371688 AGTCTTCAAAGAGCAGGACGTCTTCTCCTTT-AAAGCTCACACGAGTTGGTGGCACCCTCCGGTC
1 AGTCCTCAAAGAGCAGGACGTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTC
* * * *
371752 CTCAAAGAGCAGGACGTTTTTTTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCACCCTCTAGTC
66 CTCAAAGAGCAGGACG----CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTC
* *
371817 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
127 CTCAAAGAGCAGGACGCCTTTTCC-TTCAAAGCCCACACAAGTTGGTGGCACCCTCT
** * * * *
371874 AGTCCTCAAAGAGCAGGACGCCTTCTC-CTTCAAAGCCCACACGAGTTGGTGGCTCCCTCTAGTC
1 AGTCCTCAAAGAGCAGGACGTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTC
* * *
371938 CTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCCTTTAGTCCTCA
66 CTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCA
* * * * * *
372003 AAGAGCAGGGCACCTTCTCCTTCAAAGCCCACACGAGTTAGTGGCACCCTCA
131 AAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCT
*
372055 AGTCCTCAAAGAGCAGGACGATTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAG
1 AGTCCTCAAAGAGCAGGACG--TTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAG
*
372120 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCT
64 TCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCT
* * * * * *
372185 CAAAGAGCAGGGCGCCTTCTCTTTCAAAGCCCACACGAGTTGGTTGCACCCTCC
129 CAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCT
*
372239 AGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAG
1 AGTCCTCAAAGAGCAGG--ACGTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAG
* * * * *
372304 TCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCATACAAGTTGATGGCACCTTTTAGTCCT
64 TCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCT
* *
372369 CAAAGAGCAGGATGCCTTTTCCTTCAAAGCCCACACAAGTTCGTGGCA-CCTCTT
129 CAAAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTC-T
372423 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
372439 AACGCACTTT
Statistics
Matches: 672, Mismatches: 66, Indels: 27
0.88 0.09 0.04
Matches are distributed among these distances:
181 47 0.07
182 82 0.12
183 39 0.06
184 320 0.48
185 50 0.07
186 134 0.20
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (182 bp):
AGTCCTCAAAGAGCAGGACGTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTC
CTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCA
AAGAGCAGGACGCCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTCT
Found at i:372691 original size:58 final size:55
Alignment explanation
Indices: 372506--372733 Score: 249
Period size: 58 Copynumber: 4.0 Consensus size: 55
372496 CCTTATTTTC
* **
372506 CCTTTTAAAGCCCACACAAATTAATGGCACTTTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTTTAGTCCTCAAAGAGCAGGATG
** * *
372562 CCTTTTCTTTCTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGATG
1 -C----CTTT-TAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATG
* *
372623 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA---TTTTTTAGTCCTCAAAGAGCAGGATG
* ***
372681 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGA
372734 CGCTCTCTCC
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
55 43 0.30
56 4 0.03
57 1 0.01
58 49 0.34
60 1 0.01
61 26 0.18
62 21 0.14
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATG
Found at i:372725 original size:113 final size:114
Alignment explanation
Indices: 372506--372733 Score: 302
Period size: 113 Copynumber: 2.0 Consensus size: 114
372496 CCTTATTTTC
* *
372506 CCTTTTAAAGCCCACACAAATTAATGGCACTTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTT
1 CCTTTCAAAGCCCACACAAATTAATGGCACTTTTTTAGTCCTCAAAGAGCAGGACGCC---TCTT
* *
372571 TCTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGATG
63 TCTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG
* ** *
372623 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTTTAGTCCTCAAAGAGCAGGACG-C-CTTT
1 CCTTTCAAAGCCCACACAAATTAATGGCA--CTTTTTTAGTCCTCAAAGAGCAGGACGCCTCTTT
372686 -TAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGA
64 CTAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGA
372734 CGCTCTCTCC
Statistics
Matches: 100, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
112 3 0.03
113 42 0.42
114 4 0.04
117 25 0.25
118 1 0.01
119 25 0.25
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (114 bp):
CCTTTCAAAGCCCACACAAATTAATGGCACTTTTTTAGTCCTCAAAGAGCAGGACGCCTCTTTCT
AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG
Found at i:372825 original size:61 final size:62
Alignment explanation
Indices: 372749--373079 Score: 418
Period size: 61 Copynumber: 5.4 Consensus size: 62
372739 TCTCCTTTTG
* * *
372749 CCTTTTAATCCTCAAAGAGTAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
372811 -CTTTTAGTCCTCAAAGAGTAGGACAC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
** * *
372872 CCTTCCAGTCCTCAAAGAGCAGGACGC-CTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
372933 CCTTTTAGTCCTAAAAAAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
** * * ** * *
372995 CCTTCCAATCCTCAAAGAGCAGTATGC-CTTTTCTTTTCAAAGCCCCCACGAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACACTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
373056 CTTTTTAGCCCTCAAAGAGCAGGA
1 CCTTTTAGTCCTCAAAGAGCAGGA
373080 TGCCCTTTCC
Statistics
Matches: 231, Mismatches: 35, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
61 157 0.68
62 74 0.32
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (62 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:372976 original size:123 final size:123
Alignment explanation
Indices: 372755--373079 Score: 490
Period size: 123 Copynumber: 2.6 Consensus size: 123
372745 TTTGCCTTTT
* * * *
372755 AATCCTCAAAGAGTAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CTTTTAGT
1 AATCCTCAAAGAGCAGGACGC-CTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCACCTTTTAGT
*
372819 CCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACACCTTCC
65 CCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACACCTTCC
*
372878 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCACCTTTTAGTC
1 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCACCTTTTAGTC
* * * * *
372943 CTAAAAAAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCC
66 CTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACACCTTCC
* * * * *
373001 AATCCTCAAAGAGCAGTATGCCTTTTCTTTTCAAAGCCCCCACGAGTTGATGGCACTTTTTAGCC
1 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCACCTTTTAGTC
373066 CTCAAAGAGCAGGA
66 CTCAAAGAGCAGGA
373080 TGCCCTTTCC
Statistics
Matches: 182, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
122 32 0.18
123 150 0.82
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (123 bp):
AATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCACCTTTTAGTC
CTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACACCTTCC
Found at i:373071 original size:184 final size:184
Alignment explanation
Indices: 372749--373088 Score: 466
Period size: 184 Copynumber: 1.8 Consensus size: 184
372739 TCTCCTTTTG
* * *
372749 CCTTTTAATCCTCAAAGAGTAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 CCTTTTAATCCTAAAAAAGCAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
** * * *
372814 TTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGCGACACCTTCCA
66 CCAATCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGACGACACCTTCCA
* *
372879 GTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCA
131 GCCCTCAAAGAGCAGGACGCCCTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCA
* *
372933 CCTTTTAGTCCTAAAAAAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTTTAATCCTAAAAAAGCAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CT
* ** * * * * **
372998 TCCAATCCTCAAAGAGCAGTATGCC-TTTTCTTTTCAAAGCCCCCACGAGTTGATGGCACTTTTT
65 TCCAATCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGACGACACCTTCC
*
373062 AGCCCTCAAAGAGCAGGATGCCCTTTC
130 AGCCCTCAAAGAGCAGGACGCCCTTTC
373089 CATTTCTCCT
Statistics
Matches: 133, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
184 113 0.85
185 20 0.15
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (184 bp):
CCTTTTAATCCTAAAAAAGCAGGACACTGTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
CCAATCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGACGACACCTTCCA
GCCCTCAAAGAGCAGGACGCCCTTTCTTTTCAAAGCCCCCACGAGTTGGTGGCA
Found at i:373904 original size:20 final size:20
Alignment explanation
Indices: 373875--373968 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
373865 TTTACCCAGA
* *
373875 TGTATTGATACATTTTGCAT
1 TGTATCGATACATTTTACAT
*
373895 TGTATCGATACATTGTACAT
1 TGTATCGATACATTTTACAT
*
373915 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTACAT
*
373935 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTACAT
373955 TGTATCGATACATT
1 TGTATCGATACATT
373969 CAGACATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.02
20 64 0.97
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTACAT
Found at i:373936 original size:40 final size:40
Alignment explanation
Indices: 373874--373969 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
373864 GTTTACCCAG
* *
373874 ATGTATTGATACATTTTGCATTGTATCGATACATTGTACA
1 ATGTATCGATACATTCTGCATTGTATCGATACATTGTACA
* *
373914 TTGTATCGATACATTGCT-CATTGTATCGATACATTTTACA
1 ATGTATCGATACATT-CTGCATTGTATCGATACATTGTACA
373954 ATGTATCGATACATTC
1 ATGTATCGATACATTC
373970 AGACATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.02
40 48 0.96
41 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTCTGCATTGTATCGATACATTGTACA
Found at i:376498 original size:79 final size:78
Alignment explanation
Indices: 376364--376590 Score: 230
Period size: 79 Copynumber: 2.9 Consensus size: 78
376354 CTTAATCGAG
* * * * *
376364 GATACTCCAACTCTGATTTTATTTCCAAAACACTAATTTTTCACAAT-TGGAGATACTCCAACCC
1 GATACTCCAACCCTGATTTTATTT-CAAAATACTGATTTTTCATAATCAGG-GATACTCCAACCC
376428 TGTTATTTCC-GAGGA
64 TGTTA-TTCCTGAGGA
*
376443 GATACTCCAACCCCGATTTTAGTTTCAAAATACTGA-TTTTCTATAATCAGGGATACTCCAA-CC
1 GATACTCCAACCCTGATTTTA-TTTCAAAATACTGATTTTTC-ATAATCAGGGATACTCCAACCC
* *
376506 TCATTATTCCTGAGGG
64 T-GTTATTCCTGAGGA
* * * *
376522 GATACTCCAATCCTGGTTTTATATCTAAAATATTGATTTTTCATAATCGAGGG-TACTCCAACCC
1 GATACTCCAACCCTGATTTTATTTC-AAAATACTGATTTTTCATAATC-AGGGATACTCCAACCC
*
376586 CGTTA
64 TGTTA
376591 GGTCATCGGG
Statistics
Matches: 124, Mismatches: 15, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
78 15 0.12
79 93 0.75
80 16 0.13
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCCTGATTTTATTTCAAAATACTGATTTTTCATAATCAGGGATACTCCAACCCTG
TTATTCCTGAGGA
Found at i:376692 original size:51 final size:51
Alignment explanation
Indices: 376628--376741 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
376618 ATTTTCGAGG
*
376628 GGATACTCCAACTCCAATTTTATTTCTAAAATACA-AAATTTTC-ACAATCGA
1 GGATACTCCAACTCCAATTTTATTT-TAAAA-ACACAAATTTTCTACAATCAA
* * * * *
376679 GGATACTCTAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAA
1 GGATACTCCAACTCCAATTTTATTTTAAAAACACAAATTTTCTACAATCAA
376730 GGATACTCCAAC
1 GGATACTCCAAC
376742 CCTATTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 3 0.06
50 11 0.20
51 40 0.74
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACTCCAATTTTATTTTAAAAACACAAATTTTCTACAATCAA
Found at i:376777 original size:79 final size:79
Alignment explanation
Indices: 376680--376897 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
376670 CACAATCGAG
* * **
376680 GATACTCTAA-CTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAAGGATACTCCAACCC
1 GATACTCCAACCT-CGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACCC
376744 TATTATTTTCAAGAA
65 TATTATTTTCAAGAA
* * * *
376759 GATACTCCAACCTCGATTTTAGTTTCAAAATACCGATTTTCTATAATTGGGGATACTCCAACCCT
1 GATACTCCAACCTCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACCCT
* * **
376824 GTTATTTTCGAGGG
66 ATTATTTTCAAGAA
* * *
376838 GATACCCCAACCCCGATTTTACTTTCAAAACA-CAGATTTTCCATAATCGGGGATACTCCA
1 GATACTCCAACCTCGATTTTACTTTCAAAACACCA-ATTTTCTATAATCGGGGATACTCCA
376898 GCCCCGTTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.01
79 116 0.97
80 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCTCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACCCT
ATTATTTTCAAGAA
Found at i:379078 original size:66 final size:66
Alignment explanation
Indices: 379000--379313 Score: 159
Period size: 66 Copynumber: 4.8 Consensus size: 66
378990 TTAGGATAGG
* * ** *
379000 ATCTAAGACGAAAAGAAGTTGACCAAGGCAAAACCATTGCGTCAACTAA-AAGGCGATCAAGGCG
1 ATCTAAGTCGAAAAGAAGTTAACCAAGGCAAAACCATCACGTCAACTAATAA-GCGACCAAGGCG
379064 AA
65 AA
* * * * * * *
379066 ATCTAAGTCGAAAGGAGGTTAACTAGGGTAAAACTATCACGTCAACTAATAAGTGACCAAGGCGA
1 ATCTAAGTCGAAAAGAAGTTAACCAAGGCAAAACCATCACGTCAACTAATAAGCGACCAAGGCGA
379131 A
66 A
* ** * * * * * * * * * *
379132 ACCTAAGTCGAATGGAGGATGA-C-AGAACGAAACAATCACGTCAACTAATAGGTGACCAGGGTG
1 ATCTAAGTCGAAAAGAAGTTAACCAAG-GCAAAACCATCACGTCAACTAATAAGCGACCAAGGCG
379195 AA
65 AA
* * * * * * * * * * * *
379197 ACCTAAGTCCAAATGAGGTTGA-CTAGGTTAAAACCATCACGTCAACTAATAGGTGACGAGGGCT
1 ATCTAAGTCGAAAAGAAGTTAACCAAGG-CAAAACCATCACGTCAACTAATAAGCGACCAAGGCG
*
379261 TA
65 AA
* * * * * ** *
379263 ACCTAAATCGAAAAGAGGTTGACCACGGTGAAACCATCACATCAACTAATA
1 ATCTAAGTCGAAAAGAAGTTAACCAAGGCAAAACCATCACGTCAACTAATA
379314 GGTGATTAGG
Statistics
Matches: 199, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
64 1 0.01
65 51 0.26
66 142 0.71
67 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (66 bp):
ATCTAAGTCGAAAAGAAGTTAACCAAGGCAAAACCATCACGTCAACTAATAAGCGACCAAGGCGA
A
Found at i:379198 original size:65 final size:66
Alignment explanation
Indices: 379039--379268 Score: 203
Period size: 66 Copynumber: 3.5 Consensus size: 66
379029 AAAACCATTG
* * * * * * * * * *** *
379039 CGTCAACTAAAAGGCGATCAAGGCGAAATCTAAGTCGAAAGGAGGTTAACTAGGGTAAAACTATC
1 CGTCAACTAATAGGTGACCAGGGCGAAACCTAAGTCCAAATGAGGATGACTAGAACAAAACAATC
379104 A
66 A
* * * *
379105 CGTCAACTAATAAGTGACCAAGGCGAAACCTAAGT-CGAATGGAGGATGAC-AGAACGAAACAAT
1 CGTCAACTAATAGGTGACCAGGGCGAAACCTAAGTCCAAAT-GAGGATGACTAGAACAAAACAAT
379168 CA
65 CA
* * *** *
379170 CGTCAACTAATAGGTGACCAGGGTGAAACCTAAGTCCAAATGAGGTTGACTAGGTTAAAACCATC
1 CGTCAACTAATAGGTGACCAGGGCGAAACCTAAGTCCAAATGAGGATGACTAGAACAAAACAATC
379235 A
66 A
* **
379236 CGTCAACTAATAGGTGACGAGGGCTTAACCTAA
1 CGTCAACTAATAGGTGACCAGGGCGAAACCTAA
379269 ATCGAAAAGA
Statistics
Matches: 132, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
65 52 0.39
66 80 0.61
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (66 bp):
CGTCAACTAATAGGTGACCAGGGCGAAACCTAAGTCCAAATGAGGATGACTAGAACAAAACAATC
A
Found at i:379274 original size:131 final size:132
Alignment explanation
Indices: 379039--379318 Score: 321
Period size: 131 Copynumber: 2.1 Consensus size: 132
379029 AAAACCATTG
* * * * * *
379039 CGTCAACTAAAAGGCGATCAAGGCGAAATCTAAGTCGAAAGGAGGTTAACTAGGGTAAAACTATC
1 CGTCAACTAATAGGTGACCAAGGCGAAACCTAAGTCCAAAGGAGGTTAACTAGGGTAAAACCATC
* **
379104 ACGTCAACTAATAAGTGACCAAGGCGAAACCTAAGTCGAATGGAGGATGA-CA-GAACGAAACAA
66 ACGTCAACTAATAAGTGACCAAGGCGAAACCTAAATCGAAAAGAGGATGACCACG-ACGAAACAA
379167 TCA
130 TCA
* * * * *
379170 CGTCAACTAATAGGTGACCAGGGTGAAACCTAAGTCCAAATGAGGTTGACTAGGTTAAAACCATC
1 CGTCAACTAATAGGTGACCAAGGCGAAACCTAAGTCCAAAGGAGGTTAACTAGGGTAAAACCATC
* * * ** * ** *
379235 ACGTCAACTAATAGGTGACGAGGGCTTAACCTAAATCGAAAAGAGGTTGACCACGGTGAAACCAT
66 ACGTCAACTAATAAGTGACCAAGGCGAAACCTAAATCGAAAAGAGGATGACCACGACGAAACAAT
379300 CA
131 CA
*
379302 CATCAACTAATAGGTGA
1 CGTCAACTAATAGGTGA
379319 TTAGGGCAAA
Statistics
Matches: 123, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
131 95 0.77
132 27 0.22
133 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (132 bp):
CGTCAACTAATAGGTGACCAAGGCGAAACCTAAGTCCAAAGGAGGTTAACTAGGGTAAAACCATC
ACGTCAACTAATAAGTGACCAAGGCGAAACCTAAATCGAAAAGAGGATGACCACGACGAAACAAT
CA
Found at i:379314 original size:66 final size:66
Alignment explanation
Indices: 379096--379841 Score: 260
Period size: 65 Copynumber: 11.6 Consensus size: 66
379086 AACTAGGGTA
* * * * * * ** * ***
379096 AAACTATCACGTCAACTAATAAGTGACCAAGGCGAAACCTAAGTCGAATGGAGGATGA-CAGAAC
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGTT
379160 G
66 G
* * * *
379161 AAACAATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAGTCCAAATGAGGTTGACTAGGTT
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGTT
*
379226 A
66 G
* * *
379227 AAACCATCACGTCAACTAATAGGTGACGAGGGCT-TAACCTAAATCGAAAAGAGGTTGACCACGG
1 AAACCATCACGTCAACTAATAGGTGACCAGGG-TGAAACCTAAATCCAAAAGAGGTTGACCA-GG
379291 -TG
64 TTG
* ** ** ** ** *
379293 AAACCATCACATCAACTAATAGGTGATTAGGGCAAAACCTAGGT-CAAAAGGAAATTGACCAGGG
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAA-GAGGTTGACCAGGT
379357 TG
65 TG
* * * * * * * *
379359 CAACCATCAGGTCAAC-AGA-GGGTAACCAGGGTG--------A--GAAAA-A-GTTAACAAGGG
1 AAACCATCACGTCAACTA-ATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGT
*
379410 TA
65 TG
* * * * * * * * *
379412 AAAGCATCACCTCAACAAA-GGGTGACCA-AGTGAAGCCCAAGTCGAAAAGAGGTTGACCAAGG-
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACC-AGGT
*
379474 CG
65 TG
* * * * ** * * *
379476 AAAACATCACATCAACTAGTAGGTGACTAGGGCAAAACCTAAGT-CAAGAAGATGTTTACCAAGG
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAA-AAGAGGTTGACC-AGG
*
379540 -CG
64 TTG
* * * ***** * ** ** *
379542 AAACTATCACTTCAAC-AAAAGGTGACCAAAACAAAACCTAAGTTAAAAAGAAATTGACCAGGGT
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGTT
379606 G
66 G
* * * * * ** * * *
379607 AAATCATCACGTTAAC-AAAAGGTGA-TAGGGTGAAACCTAAGTTGAAAAGAAGTTGATCAGGGT
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGTT
379670 G
66 G
* * * * * * *
379671 AAACCATCACATCGAC-AA-AGGGTGACCAAGGTGAAACCTAAGTCGAGAAGAAGTTGACCAAGG
1 AAACCATCACGTCAACTAATA-GGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACC-AGG
**
379734 -CA
64 TTG
* * * * * *
379736 AAACCATCACGTCAAC-AA-AGGGTGACCAAGGTGAAACGTAAGTCAAAAAGAAGTTGACCAGGG
1 AAACCATCACGTCAACTAATA-GGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGT
*
379799 CG
65 TG
* * *
379801 AAACCATCACGTCAAC-AAAAAGTGACTAGGGTGAAACCTAA
1 AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAA
379842 GTCGAAAGGA
Statistics
Matches: 531, Mismatches: 119, Indels: 62
0.75 0.17 0.09
Matches are distributed among these distances:
52 3 0.01
53 30 0.06
54 2 0.00
56 4 0.01
62 5 0.01
63 2 0.00
64 75 0.14
65 247 0.47
66 160 0.30
67 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.16
Consensus pattern (66 bp):
AAACCATCACGTCAACTAATAGGTGACCAGGGTGAAACCTAAATCCAAAAGAGGTTGACCAGGTT
G
Found at i:379616 original size:65 final size:65
Alignment explanation
Indices: 379416--379854 Score: 405
Period size: 65 Copynumber: 6.8 Consensus size: 65
379406 AGGGTAAAAG
* * * * * * * *
379416 CATCACCTCAACAAAGGGTGACCAA-GTGAAGCCCAAGTCGAAAAGAGGTTGACCAAGGCGAAAA
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
* ** * * ** * * * *
379480 CATCACATCAACTAGTAGGTGACTAGGGCAAAACCTAAGTCAAGAAGATGTTTACCAAGGCGAAA
1 CATCACGTCAAC-AAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAA
379545 C
65 C
* * **** * * * *
379546 TATCACTTCAACAAAAGGTGACCAAAACAAAACCTAAGTTAAAAAGAAATTGACCAGGGTGAAAT
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
* * * ** * *
379611 CATCACGTTAACAAAAGGTGA-TAGGGTGAAACCTAAGTTGAAAAGAAGTTGATCAGGGTGAAAC
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
* * * * * * *
379675 CATCACATCGACAAAGGGTGACCAAGGTGAAACCTAAGTCGAGAAGAAGTTGACCAAGGCAAAAC
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
* *
379740 CATCACGTCAACAAAGGGTGACCAAGGTGAAACGTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
* * * * *
379805 CATCACGTCAACAAAAAGTGACTAGGGTGAAACCTAAGTCGAAAGGAAGT
1 CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGT
379855 CAAATAACAT
Statistics
Matches: 302, Mismatches: 70, Indels: 5
0.80 0.19 0.01
Matches are distributed among these distances:
64 61 0.20
65 201 0.67
66 40 0.13
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (65 bp):
CATCACGTCAACAAAAGGTGACCAAGGTGAAACCTAAGTCAAAAAGAAGTTGACCAGGGCGAAAC
Found at i:379669 original size:32 final size:31
Alignment explanation
Indices: 379575--379675 Score: 98
Period size: 32 Copynumber: 3.2 Consensus size: 31
379565 GACCAAAACA
* *
379575 AAACCTAAGTTAAAAAGAAATTGACCAGGGTG
1 AAACCTAAGTT-AAAAGAAGTTGATCAGGGTG
* * *
379607 AAATCATCACGTTAACAA-AAGGTGAT-AGGGTG
1 AAA-CCT-AAGTTAA-AAGAAGTTGATCAGGGTG
379639 AAACCTAAGTTGAAAAGAAGTTGATCAGGGTG
1 AAACCTAAGTT-AAAAGAAGTTGATCAGGGTG
379671 AAACC
1 AAACC
379676 ATCACATCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
30 6 0.11
31 11 0.20
32 23 0.42
33 9 0.16
34 6 0.11
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.20
Consensus pattern (31 bp):
AAACCTAAGTTAAAAGAAGTTGATCAGGGTG
Found at i:379689 original size:129 final size:130
Alignment explanation
Indices: 379450--379826 Score: 353
Period size: 129 Copynumber: 2.9 Consensus size: 130
379440 AGTGAAGCCC
* ** * ** * * **
379450 AAGTCGAAAAGAGGTTGACCAAGGCGAAAA-CATCACATCAACTAGTAGGTGACTAGGGCAAAAC
1 AAGTCAAAAAGAAATTGACCAAGGC-AAAACCATCACGTCAAC-AAAAGGTGACCAAGGTGAAAC
* * * * * *
379514 CTAAGTCAAGAAGATGTTTACCAAGGCGAAACTATCACTTCAACAAAAGGTGACCAAAACAAAAC
64 CTAAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCACATCAACAAAAGGTGACCAAAACAAAAC
379579 CT
129 CT
* * ** * * * *
379581 AAGTTAAAAAGAAATTGACCAGGGTGAAATCATCACGTTAACAAAAGGTGA-TAGGGTGAAACCT
1 AAGTCAAAAAGAAATTGACCAAGGCAAAACCATCACGTCAACAAAAGGTGACCAAGGTGAAACCT
** * * * * ****
379645 AAGTTGAAAAGAAGTTGATCAGGGTGAAACCATCACATCGACAAAGGGTGACCAAGGTGAAACCT
66 AAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCACATCAACAAAAGGTGACCAAAACAAAACCT
* * * * *
379710 AAGTCGAGAAGAAGTTGACCAAGGCAAAACCATCACGTCAACAAAGGGTGACCAAGGTGAAACGT
1 AAGTCAAAAAGAAATTGACCAAGGCAAAACCATCACGTCAACAAAAGGTGACCAAGGTGAAACCT
* *
379775 AAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCACGTCAACAAAAAGTGAC
66 AAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCACATCAACAAAAGGTGAC
379827 TAGGGTGAAA
Statistics
Matches: 194, Mismatches: 50, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
129 101 0.52
130 64 0.33
131 29 0.15
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (130 bp):
AAGTCAAAAAGAAATTGACCAAGGCAAAACCATCACGTCAACAAAAGGTGACCAAGGTGAAACCT
AAGTCAAAAAGAAGTTGACCAGGGCGAAACCATCACATCAACAAAAGGTGACCAAAACAAAACCT
Found at i:379915 original size:34 final size:34
Alignment explanation
Indices: 379863--379929 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
379853 GTCAAATAAC
379863 ATTTAACACTTAATCAATTAACAGAATGAGTAAA
1 ATTTAACACTTAATCAATTAACAGAATGAGTAAA
* * *
379897 ATTTGACATTTAATCAATTAACAGGATGAGTAA
1 ATTTAACACTTAATCAATTAACAGAATGAGTAA
379930 CTTACCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (34 bp):
ATTTAACACTTAATCAATTAACAGAATGAGTAAA
Found at i:380676 original size:75 final size:76
Alignment explanation
Indices: 380395--380678 Score: 260
Period size: 76 Copynumber: 3.8 Consensus size: 76
380385 AAACACAATG
* ** * * * * *
380395 GGGAATAGGTA-TTTCTAAAAATTTTTATCAACAGTCGAAACAAATTAATGACAGGCTGAAGAA-
1 GGGAATATGTAGTTTCT-AAAATTTTTATCAACAACCAAAACAAACTAATAATAAGCTGAAGAAT
*
380458 AAAGAACATGAT-
65 AAA-AACATCATA
* ** * * *
380470 GAGGAATATAT-GATTTCTAAAATTTCCATCGACAACCAAAACAAGCTAATAATAACCTGAAGAA
1 G-GGAATATGTAG-TTTCTAAAATTTTTATCAACAACCAAAACAAACTAATAATAAGCTGAAGAA
* *
380534 TAACAACATGATA
64 TAAAAACATCATA
380547 GGGAATATGTAGTTTCTAAAATTTTTATCAACAACCAAAACAAACTAATAATAAGCTGAAG-ATG
1 GGGAATATGTAGTTTCTAAAATTTTTATCAACAACCAAAACAAACTAATAATAAGCTGAAGAAT-
380611 AAAAACATCATA
65 AAAAACATCATA
* * * *
380623 TGGAATATGTTGTTTGTACAA-TTTTA-CTAACAACCAAAACAAACTGAA-AATAAGCT
1 GGGAATATGTAGTTTCTAAAATTTTTATC-AACAACCAAAACAAACT-AATAATAAGCT
380679 AGAGGACAAC
Statistics
Matches: 173, Mismatches: 27, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
74 1 0.01
75 33 0.19
76 130 0.75
77 9 0.05
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (76 bp):
GGGAATATGTAGTTTCTAAAATTTTTATCAACAACCAAAACAAACTAATAATAAGCTGAAGAATA
AAAACATCATA
Found at i:382092 original size:110 final size:111
Alignment explanation
Indices: 381858--382127 Score: 269
Period size: 110 Copynumber: 2.4 Consensus size: 111
381848 GGTTGACTCA
* * ** * * **
381858 AAAATTTTGAAAGCTAATAGGATGCATGACCTATTTTCTTAGGTACGAATGGATCAGGTTGCATA
1 AAAATTTT-AAAACTAATAGGATACATGACCTATTTTAGTAGGCACGAATAGATCAGGTCACATA
* * *
381923 AAATATGAAATTTTTTGAAAATCAGACAAATTTGATGCCGTTCTCTT
65 AAATATGAAATTTTTTGAAAATCAGACAAATTTAATGCCATTCTCTC
* * * *
381970 AAAACTTTAAAACTAATAGGATATATGCCCTA-TTTAGTAGGCACGAATAGATCAGGTCATATAA
1 AAAATTTTAAAACTAATAGGATACATGACCTATTTTAGTAGGCACGAATAGATCAGGTCACATAA
* ** * *
382034 AATATG-ATTTTTTTTTAAATCAGACAAATTTAATGGCATTGTCTC
66 AATATGAAATTTTTTGAAAATCAGACAAATTTAATGCCATTCTCTC
* * **
382079 AAAATTTTCAAAACTGATAAGAT-CATG-CCTCATTTTCTTAGGCACGAAT
1 AAAATTTT-AAAACTAATAGGATACATGACCT-ATTTTAGTAGGCACGAAT
382128 GGATTAGCTT
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
108 3 0.02
109 42 0.33
110 57 0.44
111 20 0.16
112 7 0.05
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (111 bp):
AAAATTTTAAAACTAATAGGATACATGACCTATTTTAGTAGGCACGAATAGATCAGGTCACATAA
AATATGAAATTTTTTGAAAATCAGACAAATTTAATGCCATTCTCTC
Found at i:383763 original size:16 final size:16
Alignment explanation
Indices: 383744--383774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
383734 ATTACAAAAT
*
383744 ATCTCTCCCTCTTTTC
1 ATCTCTCCCCCTTTTC
383760 ATCTCTCCCCCTTTT
1 ATCTCTCCCCCTTTT
383775 ACAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.48
Consensus pattern (16 bp):
ATCTCTCCCCCTTTTC
Found at i:389220 original size:12 final size:12
Alignment explanation
Indices: 389205--389234 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
389195 AAAAATCATC
389205 AAAAAAAATTTT
1 AAAAAAAATTTT
389217 AAAAAAAATTTT
1 AAAAAAAATTTT
389229 AAAAAA
1 AAAAAA
389235 TGTGAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAAAATTTT
Found at i:389766 original size:47 final size:47
Alignment explanation
Indices: 389711--389805 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
389701 CAAACAAAAT
389711 ACAAGGGGAGATAAAACATGCAATAAGCAACGTGCAAAGCAAGAAGA
1 ACAAGGGGAGATAAAACATGCAATAAGCAACGTGCAAAGCAAGAAGA
389758 ACAAGGGGAGATAAAACATGCAATAAGCAACGTGCAAAGCAAGAAGA
1 ACAAGGGGAGATAAAACATGCAATAAGCAACGTGCAAAGCAAGAAGA
389805 A
1 A
389806 ATGTGCAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.52, C:0.15, G:0.25, T:0.08
Consensus pattern (47 bp):
ACAAGGGGAGATAAAACATGCAATAAGCAACGTGCAAAGCAAGAAGA
Found at i:390124 original size:13 final size:13
Alignment explanation
Indices: 390106--390132 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
390096 GGAAGAACGG
390106 CAACACCAAGCAA
1 CAACACCAAGCAA
390119 CAACACCAAGCAA
1 CAACACCAAGCAA
390132 C
1 C
390133 CACATAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.41, G:0.07, T:0.00
Consensus pattern (13 bp):
CAACACCAAGCAA
Found at i:394447 original size:3 final size:3
Alignment explanation
Indices: 394439--394473 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
394429 TGAGTCAACT
* *
394439 TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
394474 TTTGATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:394474 original size:12 final size:12
Alignment explanation
Indices: 394437--394475 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
394427 TCTGAGTCAA
394437 CTTCATCATCAT
1 CTTCATCATCAT
* *
394449 CATCATCATTAT
1 CTTCATCATCAT
394461 CTTCATCATCAT
1 CTTCATCATCAT
394473 CTT
1 CTT
394476 TGATGGTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTCATCATCAT
Found at i:398568 original size:19 final size:18
Alignment explanation
Indices: 398544--398641 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
398534 TAGCTTACAT
398544 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
398563 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
398576 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
398595 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
*
398608 TGTATCGATAGAACACTTTA
1 TGTATCGATACAA-AC-TTA
398628 TGTATCGATACAAA
1 TGTATCGATACAAA
398642 TCATTGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
13 20 0.32
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.37
20 12 0.19
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:398580 original size:32 final size:32
Alignment explanation
Indices: 398539--398639 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
398529 GGCAGTAGCT
*
398539 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
398571 TACATTGTATCGATACAACACTTATGTATTGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
398603 TACATTGTATCGATAGAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
398636 TACA
1 TACA
398640 AATCATTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 50 0.78
33 14 0.22
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:398617 original size:13 final size:13
Alignment explanation
Indices: 398563--398587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
398553 ACAAAACTTA
398563 TGTATCGATACAT
1 TGTATCGATACAT
398576 TGTATCGATACA
1 TGTATCGATACA
398588 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:400731 original size:10 final size:10
Alignment explanation
Indices: 400709--400755 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
400699 CATTTCATGC
400709 TTTTTT-TCT
1 TTTTTTCTCT
*
400718 TTTTTTCTCA
1 TTTTTTCTCT
400728 TTTTTTCTCTT
1 TTTTTTCTC-T
400739 TCTTTTTCTCT
1 T-TTTTTCTCT
400750 TTTTTT
1 TTTTTT
400756 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 6 0.18
10 16 0.48
11 3 0.09
12 8 0.24
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:400734 original size:41 final size:40
Alignment explanation
Indices: 400689--400770 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 40
400679 CTATCTGCAC
*
400689 TTTTCTTTTTC-ATTTCATGCTTTTTTTCTT-TTTTTCTCATT
1 TTTTCTCTTTCTATTTC-T-CTTTTTTTCTTGTTTTTCT-ATT
* *
400730 TTTTCTCTTTCTTTTTCTCTTTTTTTTTTGTTTTTCTATT
1 TTTTCTCTTTCTATTTCTCTTTTTTTCTTGTTTTTCTATT
400770 T
1 T
400771 CATATTTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
40 14 0.39
41 18 0.50
42 4 0.11
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (40 bp):
TTTTCTCTTTCTATTTCTCTTTTTTTCTTGTTTTTCTATT
Found at i:400757 original size:12 final size:12
Alignment explanation
Indices: 400728--400757 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
400718 TTTTTTCTCA
400728 TTTTTTCTCTTT
1 TTTTTTCTCTTT
*
400740 CTTTTTCTCTTT
1 TTTTTTCTCTTT
400752 TTTTTT
1 TTTTTT
400758 TGTTTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:402558 original size:47 final size:47
Alignment explanation
Indices: 402488--402585 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
402478 AGTATTTAGG
* * *
402488 TTACGAACAATGATGTTCGTTCATCCTCGTTTGATACTTGAAAAAGA
1 TTACGAACAATGATGTTCATTCATCCTCATTTAATACTTGAAAAAGA
*
402535 TTACGAGCAATGATGTTCATTCATCCTCATTTAATACTTGAAAAAGA
1 TTACGAACAATGATGTTCATTCATCCTCATTTAATACTTGAAAAAGA
402582 TTAC
1 TTAC
402586 AACCTCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (47 bp):
TTACGAACAATGATGTTCATTCATCCTCATTTAATACTTGAAAAAGA
Found at i:404867 original size:157 final size:155
Alignment explanation
Indices: 404362--404854 Score: 534
Period size: 157 Copynumber: 3.1 Consensus size: 155
404352 TTCTTAAGGC
* * * *
404362 ATACCTTCGACGTGAAAGTATCCCGGTTACCCTAATA-GACCTTAAAACA--ACCATAAATGGAG
1 ATACCTTCGACGTGAAAGTATCCCGATAACCCTAA-AGGA-CTTAAAA-AGGATCATAAATGGAA
* * * * * *
404424 TAAACCTATCCTGAATA-CACACTTTTGGCATAAAAGTATCCCAGTGATAGCCTAAGACTC-AGT
63 TAAACCTATCCTAAATATC-CAC-ATTGGCAT-AAAGCATCCCAGTGACAACCTAGGACTCGA-T
* * *
404487 TGTAAAAAAATTACAAAAATGCCTCTT-TGGGC
124 TCTAAAAAAATTACAAAAATACC-CTTATGGGT
* * * * *
404519 ATACCTTCGACATGAAAGTATCCCGATAACCCTAAAGGACTTAAAAAGGATCACAAAAGGGATGA
1 ATACCTTCGACGTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAAGGATCATAAATGGAATAA
* *
404584 ACCT-TCCTAAATAGT-CACATTTGGCATTAAAGCATCCCAGTGACAAACTAGGACTTGATTCTA
66 ACCTATCCTAAATA-TCCACA-TTGGCA-TAAAGCATCCCAGTGACAACCTAGGACTCGATTCTA
*
404647 AAAAAATTACAAAAATACCCTTATAGGT
128 AAAAAATTACAAAAATACCCTTATGGGT
* *** *
404675 ATACCTTCGATGTGAAAGTATTTTGATAACTCTAAAGGACTTAAAAAGGATCATAAATGGAATAA
1 ATACCTTCGACGTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAAGGATCATAAATGGAATAA
* * *
404740 ACCTATCCTAAATATCCCACATTGGTATAGAAGCATCCCAGTGACAACCTAGGACTCGATTTTTA
66 ACCTATCCTAAATAT-CCACATTGGCATA-AAGCATCCCAGTGACAACCTAGGACTCGATTCTAA
**
404805 AAAAATTATGAAAATACCCTTATGGGT
129 AAAAATTACAAAAATACCCTTATGGGT
404832 ATACCTTCGACGTGAAAGTATCC
1 ATACCTTCGACGTGAAAGTATCC
404855 TGGTAATCCT
Statistics
Matches: 281, Mismatches: 42, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
155 4 0.01
156 134 0.48
157 139 0.49
158 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (155 bp):
ATACCTTCGACGTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAAGGATCATAAATGGAATAA
ACCTATCCTAAATATCCACATTGGCATAAAGCATCCCAGTGACAACCTAGGACTCGATTCTAAAA
AAATTACAAAAATACCCTTATGGGT
Found at i:407140 original size:154 final size:152
Alignment explanation
Indices: 406785--407191 Score: 527
Period size: 153 Copynumber: 2.7 Consensus size: 152
406775 GAAAAAAAAA
*
406785 CAAAACTCATAAAATAAATTGAATTTTCACAAACTGATTTAATATGAATTTAATAAA-AATATTT
1 CAAAACTCATAAAATAAATTGAATTTTCA-AAACTGATTTAATATGAA-TTAAAAAATAATATTT
** * * * * *
406849 GATTAATTTTAAAAAGTT-TAAACTGAGAAAAATTCAATTGAAAAAATTTACGGAGTAGCAAAAT
64 GAAGAATTTTAAAAA-TTATAAACTTAAAAAAATCCTATTGAAAAAATTTACGGAGTAGAAAAAT
* * * * *
406913 CCGTCTTTTAGTATCAGAACAATTC
128 CCGTATCTCAGTACCAGAAAAATTC
*
406938 CAAAACTCATAAAATAAATTAAAATTTTCAAAACTGATTTAATATGAATTAAAAAATAATATTTG
1 CAAAACTCATAAAATAAATT-GAATTTTCAAAACTGATTTAATATGAATTAAAAAATAATATTTG
*
407003 AAGAATTTTAAAAATTATAAACTTAAAAAAATCCTATTAGAAAAAA-TTATGGAGTA-AAAAACT
65 AAGAATTTTAAAAATTATAAACTTAAAAAAATCCTATT-GAAAAAATTTACGGAGTAGAAAAA-T
*
407066 CCGTATCTCGGTACCAAGAAAAATTC
128 CCGTATCTCAGTACC-AGAAAAATTC
* * *
407092 TAAAACTCATAAAATAATTTGAATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTG
1 CAAAACTCATAAAATAAATTGAA-TTTTCAAAACTGATTTAATATGAATTAAAAAATAATATTTG
*
407157 AAGAATTTTTAAAATTATAAACTT-AAAAAATCCTA
65 AAGAATTTTAAAAATTATAAACTTAAAAAAATCCTA
407192 AGGTGAATTT
Statistics
Matches: 226, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
152 13 0.06
153 108 0.48
154 105 0.46
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (152 bp):
CAAAACTCATAAAATAAATTGAATTTTCAAAACTGATTTAATATGAATTAAAAAATAATATTTGA
AGAATTTTAAAAATTATAAACTTAAAAAAATCCTATTGAAAAAATTTACGGAGTAGAAAAATCCG
TATCTCAGTACCAGAAAAATTC
Found at i:408655 original size:20 final size:20
Alignment explanation
Indices: 408630--408684 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
408620 GTTCGAAGCA
*
408630 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATTCATC
*
408650 ATGTATCGATAAAATTCATC
1 ATGTATCGATACAATTCATC
408670 ATGTATCGATACAAT
1 ATGTATCGATACAAT
408685 GTATAGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:408688 original size:13 final size:13
Alignment explanation
Indices: 408670--408700 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
408660 AAAATTCATC
*
408670 ATGTATCGATACA
1 ATGTATAGATACA
408683 ATGTATAGATACA
1 ATGTATAGATACA
408696 ATGTA
1 ATGTA
408701 CCATGTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATAGATACA
Found at i:408764 original size:13 final size:13
Alignment explanation
Indices: 408746--408772 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
408736 TGCCAGTGTC
408746 ATGTATCGATACA
1 ATGTATCGATACA
408759 ATGTATCGATACA
1 ATGTATCGATACA
408772 A
1 A
408773 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:411305 original size:13 final size:13
Alignment explanation
Indices: 411287--411312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
411277 ATAGTAATCC
411287 ATGTATCGATACA
1 ATGTATCGATACA
411300 ATGTATCGATACA
1 ATGTATCGATACA
411313 TTTAGGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:417514 original size:19 final size:19
Alignment explanation
Indices: 417470--417525 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
417460 CTGCCAGTTT
***
417470 CATGTATCGATACAATTTTC
1 CATGTATCGATACAA-TGAA
417490 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
417509 CATGTATCGATATAATG
1 CATGTATCGATACAATG
417526 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:418209 original size:20 final size:19
Alignment explanation
Indices: 418185--418259 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
418175 ACACACCAAG
*
418185 ATGTATCGATACATGCTGCC
1 ATGTATCGATACATG-TGCA
* *
418205 TTGTATCGATACATGTTCA
1 ATGTATCGATACATGTGCA
418224 ATGTATCGATACATG-GACAA
1 ATGTATCGATACATGTG-C-A
418244 ATTGTATCGATACATG
1 A-TGTATCGATACATG
418260 AAAATGGTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.36
20 16 0.34
21 14 0.30
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATGTGCA
Found at i:422622 original size:21 final size:19
Alignment explanation
Indices: 422576--422629 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
422566 CGTCGATACA
422576 TTGTATCGATACAACACTT
1 TTGTATCGATACAACACTT
* *
422595 ATGTATCGATACAATTACTAT
1 TTGTATCGATACAA-CACT-T
*
422616 TTGTATCAATACAA
1 TTGTATCGATACAA
422630 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACAACACTT
Found at i:423546 original size:101 final size:101
Alignment explanation
Indices: 423389--424481 Score: 1507
Period size: 101 Copynumber: 10.9 Consensus size: 101
423379 GAAGAATGCT
* ** **
423389 AATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGATGAAGGCGCCAATATGCTGATT
1 AATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
*
423454 CAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCC
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * *
423491 AATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGTTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
*
423556 AAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * *
423592 AATGTGCTGATTCAAAGCCAACGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
*
423657 AAGGCCACCGATATTGGACTTAAAGATGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
423693 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
**
423758 AAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCACC
66 AAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCC
** * * * *
423797 AATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTAATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
* * * *
423859 AAGGCCAGTGACATTAGACTTAAAGATGACAAAGGCGCC
66 AAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCC
* * * * *
423898 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
* *
423960 AAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGCGCC
66 AAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCC
* * * *
423999 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCACCAATACGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
424064 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * *
424100 AACGTGCTAATTCAAGGCCAGTGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
424165 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
424201 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
* *
424266 AAGGCTAGCGATATTGGACTTAAAGAAGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * *
424302 AATGTGTTGATTCAAGGCCAGCGACATTGGACTTCAAGATGATAAAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
424367 AAGGCCAGCGATATTGGACTT----A--AAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * *
424397 AATGTGCTGATTCAAGGCTAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
* *
424458 AAGGCTAGCGATATTGGGCTTAAA
66 AAGGCCAGCGATATTGGACTTAAA
424482 AGAAGATGCC
Statistics
Matches: 910, Mismatches: 72, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
91 40 0.04
92 2 0.00
93 1 0.00
94 2 0.00
95 39 0.04
97 1 0.00
101 712 0.78
102 25 0.03
104 88 0.10
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
Found at i:423776 original size:254 final size:254
Alignment explanation
Indices: 423273--424481 Score: 1563
Period size: 254 Copynumber: 4.8 Consensus size: 254
423263 ACGAGTGATA
* * * ** *
423273 AAAGG-ACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATAAGAAAAAGGATGTCA
1 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G---AAGG-TGCCA
* * ** * * ** * *
423337 ATGTGCTGATTCACGATCAGCGACATTCAGACTTGAAGATGA-GAAGAATGCTAATGTGCTGATT
60 ATGTGCTAATTCAAGGCCAGCGACATT-AGACTTAAAGATGACAAAG-GCGCCAATATGCTGATT
* ** * * *
423401 CAAGGCCAACGACATTGGGTTTTAAAGATGATGAAGGCGCCAATATGCTGATTCAAGGCCAGTGA
123 CAAGGCCAACGATATT-GGACTT-AA-A-GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
* * * *
423466 TATTGGACTTAAAGATG---AAGGTGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAA
184 CATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
423528 GATGAC
249 GATGAC
* * * *
423534 AAAGGCGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * * * * *
423599 TGATTCAAAGCCAACGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCA
66 TAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
*
423664 CCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
131 ACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
423729 AGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
196 AGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
423788 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
423853 TAATTCAAGGCCAGTGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
66 TAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
423918 ACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
131 ACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
*
423983 AGATGAAAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
196 AGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
*
424042 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAACGTGC
1 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
424107 TAATTCAAGGCCAGTGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
66 TAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
*
424172 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
131 ACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
*
424237 AGATGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGA--A-
196 AGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
* ** ** * * * *
424293 GAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTCAAGATGATAAAGGTGCCAATA
1 AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GATGAAGGTGCCAATG
* * * * *
424358 TGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGG
63 TGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGG
* * * * * * * * *
424414 CTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
128 CCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
424478 TAAA
193 TAAA
424482 AGAAGATGCC
Statistics
Matches: 869, Mismatches: 71, Indels: 33
0.89 0.07 0.03
Matches are distributed among these distances:
244 41 0.05
245 43 0.05
248 1 0.00
251 85 0.10
252 4 0.00
253 4 0.00
254 576 0.66
255 40 0.05
256 29 0.03
257 4 0.00
260 1 0.00
261 5 0.01
262 36 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (254 bp):
AAAGGCACCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
TAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
ACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
AGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC
Found at i:424115 original size:355 final size:350
Alignment explanation
Indices: 423335--424481 Score: 1674
Period size: 355 Copynumber: 3.2 Consensus size: 350
423325 AAAAGGATGT
* ** * * * * *
423335 CAATGTGCTGATTCACGATCAGCGACATTCAGACTTGAAGATGAGAAGAATGCTAATGTGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT--GAAG-GTGCCAATATGCTGAT
* ** ** *
423400 TCAAGGCCAACGACATTGGGTTTTAAAGATGATGAAGGCGCCAATATGCTGATTCAAGGCCAGTG
62 TCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCG
* *
423465 ATATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGA
126 ATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
423530 TGACAAAGGCGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAAT
191 TGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
* *
423595 GTGCTGATTCAAAGCCAACGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAG
256 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAG
*
423660 GCCACCGATATTGGACTTAAAGATGAAGGTGC
321 GCCAGCGATATTGGACTTAAAGATGAA-G-GC
*
423692 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATT
* * *
423757 CAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCACCAATACGCTGATTCAAGGCCAGCGAT
63 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGAT
* * *
423822 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCAGTGACATTAGACTTAAAGATG
128 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
423887 ACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGT
193 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGT
* *
423952 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGCGCCAATATGCTGATTCAAGGC
258 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGC
424017 CAGCGATATTGGACTTAAAGATGACAAAGGCAC
323 CAGCGATATTGGACTTAAAGATG---AAGG--C
** * ** *
424050 CAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAACGTGCTAATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
424115 GGCCAGTGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
424180 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
131 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
* * *
424245 AAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTGTT
196 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
*
424310 GATTCAAGGCCAGCGACATTGGACTTCAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
261 GATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
424375 CGATATTGGACTTAAAG--G--TGC
326 CGATATTGGACTTAAAGATGAAGGC
* * *
424396 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * *
424460 GGCTAGCGATATTGGGCTTAAA
66 GGCCAGCGACATTGGACTTAAA
424482 AGAAGATGCC
Statistics
Matches: 714, Mismatches: 68, Indels: 28
0.88 0.08 0.03
Matches are distributed among these distances:
345 37 0.05
346 36 0.05
348 1 0.00
353 1 0.00
354 1 0.00
355 528 0.74
356 38 0.05
357 30 0.04
358 42 0.06
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (350 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTGGACTTAAAGATGAAGGC
Found at i:424405 original size:43 final size:43
Alignment explanation
Indices: 424344--424481 Score: 186
Period size: 43 Copynumber: 3.1 Consensus size: 43
424334 TTCAAGATGA
*
424344 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
* * *
424387 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
*
424430 TAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCT
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
424478 TAAA
1 TAAA
424482 AGAAGATGCC
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
43 42 0.51
44 1 0.01
47 1 0.01
48 39 0.47
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
Found at i:424586 original size:27 final size:27
Alignment explanation
Indices: 424554--424607 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
424544 AGGAGAAAGT
424554 TGCCAC-AGAGTTGTGGACTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
424581 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
424608 AAAAGAGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:424647 original size:35 final size:33
Alignment explanation
Indices: 424574--424732 Score: 107
Period size: 34 Copynumber: 4.8 Consensus size: 33
424564 TTGTGGACTT
* *
424574 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAAG
* * *
424607 GAAAAGAGTGCCACGCAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGAAGTTGTGGAC-TTAAAAAG
* * *
424642 AAAAAGGTGCCATGGAGTCGTGGACTTAGAAAAG
1 AAAAAGGTGCCACGAAGTTGTGGACTTA-AAAAG
* * *
424676 --ATA--TGCCACTG-AGTTGTAGACTT-ACAAG
1 AAAAAGGTGCCAC-GAAGTTGTGGACTTAAAAAG
424704 AAAAAGGGATGCCACTG-AGTTGTGGACTT
1 AAAAA-GG-TGCCAC-GAAGTTGTGGACTT
424733 TGGAGAAAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
28 4 0.04
30 17 0.17
31 1 0.01
32 2 0.02
33 7 0.07
34 56 0.57
35 12 0.12
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACGAAGTTGTGGACTTAAAAAG
Found at i:424750 original size:31 final size:31
Alignment explanation
Indices: 424656--424824 Score: 159
Period size: 30 Copynumber: 5.5 Consensus size: 31
424646 AGGTGCCATG
424656 GAGTCGTGGAC-TT--AGAAAAGATATGCCACT
1 GAGTCGTGGACTTTGGAGAAAA-A-ATGCCACT
* * ***
424686 GAGTTGTAGACTTACAAGAAAAAGGGATGCCACT
1 GAGTCGTGGACTTTGGAGAAAAA---ATGCCACT
*
424720 GAGTTGTGGACTTTGGAGAAAAAATGCCACT
1 GAGTCGTGGACTTTGGAGAAAAAATGCCACT
* * *
424751 GAGTCATGGACTTTAG-GACAAAATGCCACT
1 GAGTCGTGGACTTTGGAGAAAAAATGCCACT
* *
424781 GAGTCGTGGGCTTTGG-GACAAAATGCCACT
1 GAGTCGTGGACTTTGGAGAAAAAATGCCACT
424811 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
424825 AAGAAGGTAT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
30 62 0.53
31 22 0.19
32 1 0.01
33 6 0.05
34 27 0.23
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (31 bp):
GAGTCGTGGACTTTGGAGAAAAAATGCCACT
Found at i:424776 original size:30 final size:30
Alignment explanation
Indices: 424712--424825 Score: 165
Period size: 30 Copynumber: 3.8 Consensus size: 30
424702 AGAAAAAGGG
* * *
424712 ATGCCACTGAGTTGTGGACTTTGGAGAAAAA
1 ATGCCACTGAGTCGTGGACTTTAG-GACAAA
*
424743 ATGCCACTGAGTCATGGACTTTAGGACAAA
1 ATGCCACTGAGTCGTGGACTTTAGGACAAA
* *
424773 ATGCCACTGAGTCGTGGGCTTTGGGACAAA
1 ATGCCACTGAGTCGTGGACTTTAGGACAAA
424803 ATGCCACTGAGTCGTGGACTTTA
1 ATGCCACTGAGTCGTGGACTTTA
424826 AGAAGGTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 53 0.72
31 21 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (30 bp):
ATGCCACTGAGTCGTGGACTTTAGGACAAA
Found at i:424821 original size:60 final size:61
Alignment explanation
Indices: 424712--424825 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 61
424702 AGAAAAAGGG
*
424712 ATGCCACTGAGTTGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTAGGACAAA
1 ATGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTAGGACAAA
* * *
424773 ATGCCACTGAGTCGTGGGCTTTGG-GACAAAATGCCACTGAGTCGTGGACTTTA
1 ATGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTA
424826 AGAAGGTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 27 0.55
61 22 0.45
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (61 bp):
ATGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTAGGACAAA
Found at i:425870 original size:11 final size:11
Alignment explanation
Indices: 425856--425880 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
425846 TTTTTCTCTC
425856 TTTTTTTTGTG
1 TTTTTTTTGTG
425867 TTTTTTTTGTG
1 TTTTTTTTGTG
425878 TTT
1 TTT
425881 GGAAAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:427477 original size:13 final size:13
Alignment explanation
Indices: 427459--427484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
427449 CATTTTTTTG
427459 TGTATCGATACAT
1 TGTATCGATACAT
427472 TGTATCGATACAT
1 TGTATCGATACAT
427485 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:429943 original size:51 final size:51
Alignment explanation
Indices: 429882--430127 Score: 280
Period size: 51 Copynumber: 4.8 Consensus size: 51
429872 TCCCGGTTTC
* ** * *
429882 ATTTCCAAAACA-TCAATTTCTCTTAATTGGGGATACTACAACTCCAATTTT
1 ATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAACTCCAATTTT
* ** * * *
429933 ATTTCTAAAACACCCA-TTTTCTATAATCGGGGAAATTCCAACTCCAATTTT
1 ATTTCCAAAACACTAATTTTTC-ACAATCGGGGATACTCCAACTCCAATTTT
* * *
429984 ATTTCCAAAACACTAATTTTTCACAATCGGGGATACTTCAACTCCGATTGT
1 ATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACTCCAATTTT
* *
430035 ATTTTCAAAACACTAATTTTTCACAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACTCCAATTTT
* ** *
430086 ATTTCCAAATCACCGACTTTTCACAATCGGGGATACTCCAAC
1 ATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
430128 CTCGTTATTT
Statistics
Matches: 166, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 4 0.02
51 157 0.95
52 5 0.03
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
ATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACTCCAATTTT
Found at i:430249 original size:130 final size:130
Alignment explanation
Indices: 430012--430258 Score: 311
Period size: 130 Copynumber: 1.9 Consensus size: 130
430002 TTTCACAATC
* * * * * * *
430012 GGGGATACTTCAACTCCGATTGTATTTTCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGACACTCCAACCCCGATTGTATTTTCAAAACACCAATTCTCCACAATCGAGGATACTCCAAC
* * *
430077 TCCGATTTTATTTCCAAATCACCGACTTTTCACAATCGGGGATACTCCAACCTCGTTATTTCCGA
66 CCCGACTTTATTTCCAAATCACCGACTTTTCACAATCAGGGATACTCCAACCTCGTTATTTCCGA
* *
430142 GGGGACACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTCTCCACAATCGAGGATACTCCAA
1 GGGGACACTCCAACCCCGATTGTATTTTC-AAAACACCAATTCTCCACAATCGAGGATACTCCAA
** *
430206 CCCCGACTTTATTTCCAAAAT-ATTGA-TTTCTCACAATCAGGGATACTTCAACC
65 CCCCGACTTTATTTCC-AAATCACCGACTTT-TCACAATCAGGGATACTCCAACC
430259 CCGGCCTTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
129 7 0.07
130 88 0.89
131 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (130 bp):
GGGGACACTCCAACCCCGATTGTATTTTCAAAACACCAATTCTCCACAATCGAGGATACTCCAAC
CCCGACTTTATTTCCAAATCACCGACTTTTCACAATCAGGGATACTCCAACCTCGTTATTTCCGA
Found at i:430279 original size:51 final size:51
Alignment explanation
Indices: 430148--430289 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
430138 CCGAGGGGAC
** ** *
430148 ACTCCAACCCCGATTTTATTTCTAAAATA-CCAATTCTCCACAATCGAGGAT
1 ACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCT-CACAATCGAGGAT
* *
430199 ACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATC-AGGGAT
1 ACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCGA-GGAT
* *
430250 ACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCA
1 ACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCTCA
430290 TAATTGGGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.01
51 74 0.93
52 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (51 bp):
ACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCGAGGAT
Found at i:430329 original size:130 final size:130
Alignment explanation
Indices: 430195--430500 Score: 309
Period size: 130 Copynumber: 2.3 Consensus size: 130
430185 CCACAATCGA
* *
430195 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACTTCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAATATT-ATTTCTCACAATCAGGGACACTTCAACCC
* * * * *
430260 CGGCCTTATTTCTAAAAT-ATTGATTTCTCATAATTGGGGATGCTCCTACCCCATTA-TTTTC-A
65 CGGCCTTATTTCT-AAATGATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTTCGA
430322 CGG
129 -GG
* * ** ** * * *
430325 GGATATTCCAATCATGATTTTACTTTTGAAACAT-CTATTT-TCTATAATCGGGGACACTTCAAC
1 GGATACTCCAACCCCGATTTTA-TTTCCAAA-ATATTATTTCTC-ACAATCAGGGACACTTCAAC
** *
430388 CCTTGCCTTATTTCTAAATGATCGATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTCG
63 CCCGGCCTTATTTCTAAATGATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTTCG
430453 AGG
128 AGG
*
430456 GGATACTCCAACCCCG-TTATTATCTCCAAAATATTAAATTTCTCA
1 GGATACTCCAACCCCGATT-TTATTTCCAAAATATT--ATTTCTCA
430501 TCAGGAGATG
Statistics
Matches: 138, Mismatches: 27, Indels: 20
0.75 0.15 0.11
Matches are distributed among these distances:
129 8 0.06
130 91 0.66
131 29 0.21
132 8 0.06
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (130 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAATATTATTTCTCACAATCAGGGACACTTCAACCCC
GGCCTTATTTCTAAATGATCGATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTTCGAGG
Found at i:436862 original size:61 final size:61
Alignment explanation
Indices: 436718--436907 Score: 229
Period size: 61 Copynumber: 3.1 Consensus size: 61
436708 GAGCAGGATG
* ** * * * * * *
436718 CCTTTCAAAGCCCACATGAGTTGGTGGCATTTTCCAGTCCTCAAAAGGCGGGACACCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCC-TTCT
*
436780 CCCTTTTAAAGCCCACACAAGTTGGTGCCACTTCCCAGTCCTCAAAAAGCAGGACGCCTTCT
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCCTTCT
* * *
436842 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACG-CTCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCCT-TCT
436903 CCTTT
1 CCTTT
436908 CACCCTTTAG
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.02
61 59 0.53
62 3 0.03
63 48 0.43
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCCTTCT
Found at i:436967 original size:155 final size:155
Alignment explanation
Indices: 436781--437197 Score: 620
Period size: 155 Copynumber: 2.7 Consensus size: 155
436771 CACCTTTTTC
* *
436781 CCTTTTAAAGCCCACACAAGTTGGTGCCACTTCCCAGTCCTCAAAAAGCAGGACGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
* *
436846 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCTCTCTCCTTTCAC
66 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCAC
436911 CCTTTAGTCCTCAAAGAACAGGACA
131 CCTTTAGTCCTCAAAGAACAGGACA
* *
436936 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
*
437001 TTAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTCAAAGAGCAAGACGCCCTCTCCTTTCA
66 TTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCA
* *
437065 CCCTTTAGTCTTCAAAGAGCAGGACA
130 CCCTTTAGTCCTCAAAGAACAGGACA
* *
437091 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGGACACCTT-T-C-
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
**
437151 ---AAAGCCCACATGAGTTGGTGGCACTT-CTCAGTCCTCAAAGAGCAGGA
65 TTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGA
437198 TGCCTTTTCT
Statistics
Matches: 242, Mismatches: 16, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
146 1 0.00
147 2 0.01
148 39 0.16
152 1 0.00
153 1 0.00
154 21 0.09
155 170 0.70
156 7 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (155 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCAC
CCTTTAGTCCTCAAAGAACAGGACA
Found at i:436975 original size:218 final size:216
Alignment explanation
Indices: 436596--437062 Score: 600
Period size: 218 Copynumber: 2.2 Consensus size: 216
436586 TTTAGCCCCT
* * * * **
436596 CCAGTCCTCAAAGAGTAGGACGCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTA
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTA
* * * **
436661 GTCTTCAAAGAGCAAGACGCCTTCTCCTTTTCTCCTTAGTCCTCAAAGAGCAGGATGCCTTTCAA
66 GTCCTCAAAGAGCAAGACGCCTTCTCCTTTTCCCCTTAGTCCTCAAAGAACAGGACACCTTTCAA
** * * * *
436726 AGCCCACATGAGTTGGTGGCATTTTCCAGTCCTCAAA-AGGCGGGACACCTTTTTCCCTTTTAAA
131 AGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA-GCAGGACACC-TTCT-CCTTTTAAA
436790 GCCCACACAAGTTGGTGCCACTTC
193 GCCCACACAAGTTGGTGCCACTTC
*
436814 CCAGTCCTCAAAAAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCTA
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTA
* *
436878 GTCCTCAAAGAGTAGGACG-CTCTCTCC-TTTCACCCTTTAGTCCTCAAAGAACAGGACACCTTT
66 GTCCTCAAAGAGCAAGACGCCT-TCTCCTTTTC-CCC-TTAGTCCTCAAAGAACAGGACACCTTT
* * **
436941 TAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAA
128 CAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAA
* *
437006 GCCCACACAAGTTGGTGGCACTTT
193 GCCCACACAAGTTGGTGCCACTTC
* *
437030 CCAGTCCTCAAAGAGCAAGACGCCCTCTCCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
437063 CACCCTTTAG
Statistics
Matches: 216, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
216 67 0.31
217 54 0.25
218 94 0.44
219 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (216 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTA
GTCCTCAAAGAGCAAGACGCCTTCTCCTTTTCCCCTTAGTCCTCAAAGAACAGGACACCTTTCAA
AGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCC
CACACAAGTTGGTGCCACTTC
Found at i:437034 original size:61 final size:61
Alignment explanation
Indices: 436936--437062 Score: 209
Period size: 61 Copynumber: 2.1 Consensus size: 61
436926 GAACAGGACA
* * * *
436936 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCCTCT
*
436997 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCCCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCCTCT
437058 CCTTT
1 CCTTT
437063 CACCCTTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCCTCT
Found at i:437148 original size:54 final size:54
Alignment explanation
Indices: 437066--437264 Score: 240
Period size: 54 Copynumber: 3.5 Consensus size: 54
437056 CTCCTTTCAC
*
437066 CCTTTAGTCTTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
437120 CCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
437174 -CTTCTCAGTCCTCAAAGAGCAGGATGC-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-T-AGTCCTCAAAGAGCAGGA--CAC----C-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
437235 CTTTTTAGTCCTCAAAGAGCAGGACGCCTT
1 C-CTTTAGTCCTCAAAGAGCAGGACACCTT
437265 CTCCTTTTCT
Statistics
Matches: 125, Mismatches: 8, Indels: 23
0.80 0.05 0.15
Matches are distributed among these distances:
53 3 0.02
54 51 0.41
55 20 0.16
56 2 0.02
57 1 0.01
59 1 0.01
60 2 0.02
61 42 0.34
62 1 0.01
63 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:437169 original size:209 final size:210
Alignment explanation
Indices: 436911--437688 Score: 1054
Period size: 209 Copynumber: 3.7 Consensus size: 210
436901 CTCCTTTCAC
*
436911 CCTTT-AGTCCTCAAAGAACAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
* *
436975 CTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCA
66 CTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCA
* *
437040 AAGAGCAAGACGCCCTCTCCTTTCACCCTTTAGTCTTCAAAGAGCAGGACACCTTTTAAAGCCCA
131 AAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCTTCAAAGAGCAGGACACCTTTCAAAGCCCA
437105 CACAAGTTGGTGGCA
196 CACAAGTTGGTGGCA
* ** *
437120 CCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATGAGTTGGTGGCACTTCTCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
* * *
437184 CTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCA
66 CTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCA
* * * *
437249 AAGAGCAGGACGCCTTCTCCTTTTC-TCC-TTAGTCCTT-AAAGAGCAGGACGCCTTTCAAAGAC
131 AAGAGCAGGACGCCCTCTCC-TTTCACCCTTTAGT-CTTCAAAGAGCAGGACACCTTTCAAAGCC
*
437311 CACACGAGTTGGTGGCA
194 CACACAAGTTGGTGGCA
* *
437328 -TTTTCCAGTCCTCAAAGAGCAGGACACATTTTTCCCTTTTAAAGCCCACACAAGTTGATGGCAC
1 CCTTT-CAGTCCTCAAAGAGCAGG--ACA------CCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
437392 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTC
57 TTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
437456 TTAGTCCTCAAAGAGCATGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACACCTT
122 -TAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCTTCAAAGAGCAGGACACCTT
437521 TCAAAGCCCACACAAGTTGGTGGCA
186 TCAAAGCCCACACAAGTTGGTGGCA
* * *
437546 CCTTTCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGGCAC--CCTCTAG
1 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-C-AG
* * * * * *
437609 TCTTCAAAGAACAAGACT-CCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTC
64 TCCTCAAAGAGCAGGA-TGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTC
437673 CTCAAAGAGCAGGACG
127 CTCAAAGAGCAGGACG
437689 TCTTTTCCTT
Statistics
Matches: 499, Mismatches: 48, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
207 3 0.01
208 45 0.09
209 160 0.32
210 57 0.11
211 47 0.09
212 2 0.00
216 8 0.02
217 113 0.23
218 61 0.12
219 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (210 bp):
CCTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
CTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCA
AAGAGCAGGACGCCCTCTCCTTTCACCCTTTAGTCTTCAAAGAGCAGGACACCTTTCAAAGCCCA
CACAAGTTGGTGGCA
Found at i:437246 original size:61 final size:60
Alignment explanation
Indices: 437092--437264 Score: 232
Period size: 61 Copynumber: 3.0 Consensus size: 60
437082 AGCAGGACAC
* *
437092 CTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTTAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
437150 C----AAAGCCCACATGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
437206 CTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTT
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTT
437265 CTCCTTTTCT
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
54 22 0.23
55 21 0.22
56 4 0.04
58 1 0.01
61 48 0.50
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:437314 original size:154 final size:156
Alignment explanation
Indices: 437123--437428 Score: 465
Period size: 154 Copynumber: 2.0 Consensus size: 156
437113 GGTGGCACCT
* *
437123 TTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATGAGTTGGTGGCACTTCT-CAGTCCTC
1 TTAGTCCTCAAAGAGCAGGACACCTTTCAAAGACCACACGAGTTGGTGGCA-TTCTCCAGTCCTC
** * * ***
437187 AAAGAGCAGGATGC-CTTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAA
65 AAAGAGCAGGACACACTTTTCCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAA
437250 AGAGCAGGACGCCTTCTCCTTTTCTCC
130 AGAGCAGGACGCCTTCTCCTTTTCTCC
* * *
437277 TTAGTCCTTAAAGAGCAGGACGCCTTTCAAAGACCACACGAGTTGGTGGCATTTTCCAGTCCTCA
1 TTAGTCCTCAAAGAGCAGGACACCTTTCAAAGACCACACGAGTTGGTGGCATTCTCCAGTCCTCA
*
437342 AAGAGCAGGACACATTTTTCCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAA
66 AAGAGCAGGACACACTTTTCCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAA
437407 GAGCAGGACGCCTTCTCCTTTT
131 GAGCAGGACGCCTTCTCCTTTT
437429 AAAGCCCACA
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
153 3 0.02
154 67 0.49
155 4 0.03
156 62 0.46
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (156 bp):
TTAGTCCTCAAAGAGCAGGACACCTTTCAAAGACCACACGAGTTGGTGGCATTCTCCAGTCCTCA
AAGAGCAGGACACACTTTTCCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAA
GAGCAGGACGCCTTCTCCTTTTCTCC
Found at i:437384 original size:63 final size:61
Alignment explanation
Indices: 437299--437472 Score: 217
Period size: 63 Copynumber: 2.8 Consensus size: 61
437289 GAGCAGGACG
* * * * *
437299 CCTTTCAAAGACCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACATTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-CTTCT
* * * *
437361 CCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTCT
437423 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTT--AGTCCTCAAAGAGCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TT-TTCCAGTCCTCAAAGAGCA
437473 TGACGCTCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
61 43 0.44
62 4 0.04
63 50 0.52
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTCT
Found at i:437451 original size:61 final size:61
Alignment explanation
Indices: 437299--437488 Score: 238
Period size: 61 Copynumber: 3.1 Consensus size: 61
437289 GAGCAGGACG
* * * * * * * *
437299 CCTTTCAAAGACCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACATTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC-CTTCT
*
437361 CCCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
** *
437423 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCATGACG-CTCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCT-TCT
437484 CCTTT
1 CCTTT
437489 CACCCTTTAG
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.02
61 59 0.52
62 3 0.03
63 49 0.43
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
Found at i:437490 original size:426 final size:428
Alignment explanation
Indices: 436936--437719 Score: 1317
Period size: 426 Copynumber: 1.8 Consensus size: 428
436926 GAACAGGACA
* * *
436936 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
437001 TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCCCTCTCCTTTCAC
66 TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCCCTCTCCTTTCAC
* *
437066 CCTTTAGTCTTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCC
131 CCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * *
437130 TCAAAGAGCAGGACACCTTTCAAAGCCCACATGAGTTGGTGGCA-CTTCTCAGTCCTCAAAGAGC
196 TCAAAGAGCAAGACACCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCT-AGTCCTCAAAGAAC
* *
437194 AGGA-TGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
260 AAGACT-CCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
*
437257 GACGCCTTCTCCTTTTCTCCTTAGTCCTTAAAGAGCAGGACGCCTTTCAAAGACCACACGAGTTG
324 GACGCCTTCTCCTTTTCTCCTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGACCACACGAGTTG
437322 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACATTTTTC
389 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACATTTTTC
437362 CCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
* * *
437427 TTAAAGCCCACACAAGTTGGTGGCAC-TTCTTAGTCCTCAAAGAGCATGACGCTCTCTCCTTTCA
66 TTAAAGCCCACACAAGTTGGTGGCACTTTC-CAGTCCTCAAAGAGCAAGACGCCCTCTCCTTTCA
437491 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
130 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
437556 CTCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCTTCAAAGAAC
195 CTCAAAGAGCAAGACACCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAAC
437621 AAGACTCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG
260 AAGACTCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG
* * *
437686 ACGTCTTTTCCTTTTCTCCTTTGTCCTCAAAGAG
325 ACGCCTTCTCCTTTTCTCCTTAGTCCTCAAAGAG
437720 TAGCACACAC
Statistics
Matches: 332, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
425 3 0.01
426 177 0.53
427 62 0.19
428 90 0.27
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (428 bp):
CCTTTTAAAGCCCACACAAGTTGATGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCCCTCTCCTTTCAC
CCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAAGACACCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAACA
AGACTCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
CGCCTTCTCCTTTTCTCCTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGACCACACGAGTTGGT
GGCATTTTCCAGTCCTCAAAGAGCAGGACACATTTTTC
Found at i:437557 original size:55 final size:55
Alignment explanation
Indices: 437492--437683 Score: 208
Period size: 55 Copynumber: 3.4 Consensus size: 55
437482 CTCCTTTCAC
*
437492 CCTTT-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
437546 CCTTTCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
437601 CC-CTCTAGTCTTCAAAGAACAAGACTCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAAGAC-AC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
437663 CTTTTTAGTCCTCAAAGAGCA
1 CCTTTCAGTCCTCAAAGAGCA
437684 GGACGTCTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
54 7 0.06
55 64 0.57
56 1 0.01
61 1 0.01
62 39 0.35
63 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:437694 original size:62 final size:61
Alignment explanation
Indices: 437519--437701 Score: 218
Period size: 62 Copynumber: 3.1 Consensus size: 61
437509 GCAGGACACC
*
437519 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACG-C----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGTCTTTTCT
* * * * *
437575 TTT-AAAGCCCACACGAGTTGGTGGCACCCTCTAGTCTTCAAAGAACAAGAC-TCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGT-C-TTTTCT
* *
437636 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGTCTTTT-CT
437698 TTTC
1 TTTC
437702 TCCTTTGTCC
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
55 42 0.40
56 4 0.04
61 9 0.09
62 48 0.46
63 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGTCTTTTCT
Found at i:437751 original size:79 final size:80
Alignment explanation
Indices: 437667--437850 Score: 221
Period size: 85 Copynumber: 2.2 Consensus size: 80
437657 GTGGCACTTT
* *
437667 TTAGTCCTCAAAGAGCAGGACG-TCTTTTCCT-TTTCTCCTTTGTCCTCAAAGAGTAGCACACAC
1 TTAGTCCTCAAAGAGCAGGACGCTATTTTCCTCTTTCT--TTTGTCCTCAAAGAGCAGCACACAC
437730 TTCA-TTCCTTTTCTCC
64 TTCATTTCCTTTTCTCC
* * *
437746 TTAGTCTTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGC
1 TTAGTCCTCAAAGAGCAGGACG--C--TATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGCACAC
*
437811 ATTTCATTTTCCTTTTCTCC
62 ACTTCA-TTTCCTTTTCTCC
*
437831 TTTGTCCTCAAAGAGCAGGA
1 TTAGTCCTCAAAGAGCAGGA
437851 TGCTCTTTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
79 21 0.24
83 25 0.28
84 8 0.09
85 35 0.39
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (80 bp):
TTAGTCCTCAAAGAGCAGGACGCTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGCACACACTT
CATTTCCTTTTCTCC
Found at i:437893 original size:46 final size:43
Alignment explanation
Indices: 437670--437941 Score: 255
Period size: 43 Copynumber: 6.4 Consensus size: 43
437660 GCACTTTTTA
437670 GTCCTCAAAGAGCAGGACG----TC-TTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* * * * *
437708 GTCCTCAAAGAGTAGCACACACTTCA--TTCCTTTTCTCCTTA
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
*
437749 GTCTTCAAAGAGCAGGACGCACTTT-ATTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTTCCT-TTTCTCCTTT
437791 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* * *
437834 GTCCTCAAAGAGCAGGATGC-TCTTTATTTCTTTCTTTTC-CCTTCT
1 GTCCTCAAAGAGCAGGACGCAT-TTCA-TT-TTCCTTTTCTCCTT-T
* * *
437879 AGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* *
437923 TTCCTCGAAA-AGTAGGACG
1 GTCCTC-AAAGAGCAGGACG
437942 TACTCTTTTT
Statistics
Matches: 191, Mismatches: 23, Indels: 35
0.77 0.09 0.14
Matches are distributed among these distances:
38 16 0.08
41 40 0.21
42 35 0.18
43 42 0.22
44 22 0.12
45 15 0.08
46 20 0.10
47 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
Found at i:441231 original size:51 final size:51
Alignment explanation
Indices: 441184--441396 Score: 268
Period size: 51 Copynumber: 4.2 Consensus size: 51
441174 CTTAATCGAA
* * * *
441184 GATACTGCAACTCCGATTTTA-TTTCTAAAACACCCATTTTCCATAATCGGG
1 GATACTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTTCACAATCGGG
* * * *
441235 GATATTCCAACTCTGATTTTA-TTTCGAAAACTCTAATTTTTCACAATCGGG
1 GATACTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTTCACAATCGGG
* * *
441286 GATACTTCAACTCCGATTGTATTTTCAAAACACTAATTTTTCACAATCGGG
1 GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
* * *
441337 GATACTCCAACTCCGATTTTATTTTCAAAACACCGACTTTTCACAATCGTG
1 GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
441388 GATACTCCA
1 GATACTCCA
441397 CCCTCATTAT
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
51 137 0.97
52 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAATCGGG
Found at i:441489 original size:51 final size:51
Alignment explanation
Indices: 441413--441547 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
441403 TTATTTTCGA
* *
441413 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTCTCCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCT-CACAATC
* * * ***
441464 GGGGATACTCCAACCCCGACTTTATTTCAAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATC
* * *
441515 AGGGATACTTCAACCCCGGCCTTATTTCTAAAA
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAA
441548 TATTGATTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
51 66 0.94
52 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAACACCAATTTCTCACAATC
Found at i:441579 original size:51 final size:51
Alignment explanation
Indices: 441452--441560 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
441442 AAAACACCAA
* * *
441452 TTCTCCACAATCGGGGATACTCCAACCCCGACTTTATTTCAAAAATATTGAT
1 TTCT-CACAATCAGGGATACTTCAACCCCGACCTTATTTCAAAAATATTGAT
* *
441504 TTCTCACAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGAT
1 TTCTCACAATCAGGGATACTTCAACCCCGACCTTATTTCAAAAATATTGAT
441555 TTCTCA
1 TTCTCA
441561 TAATTGGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
TTCTCACAATCAGGGATACTTCAACCCCGACCTTATTTCAAAAATATTGAT
Found at i:441718 original size:130 final size:132
Alignment explanation
Indices: 441463--441738 Score: 285
Period size: 130 Copynumber: 2.1 Consensus size: 132
441453 TCTCCACAAT
* * *
441463 CGGGGATACTCCAACCCCGACTTTATTTCAAAAATATTGATTTCTCACAATCAGGGATACTTCAA
1 CGGGGATACTCCAACCCCGACTTTATTTCAAAAACATTGATTTCTCACAATCAGGGACACTACAA
* * * * * *
441528 CCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATTGGGAATGCTTCAACTCCATTA-TTTTC
66 CCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCGGGAATACTCCAACCCCATTATTTTTC
441592 -A
131 GA
* * *** * *
441593 CGGGGATACTCCAATCCCGATTTTATTTTTGAAACATCT-ATTT-TCTATAATCGGGGACACTAC
1 CGGGGATACTCCAACCCCGACTTTATTTCAAAAACAT-TGATTTCTC-ACAATCAGGGACACTAC
** * * *
441656 AACCCTTGCCTTATTTCT-AAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT
64 AACCCCGGCCTTATTTCTAAAAT-ATCGATTTCTCACAATCGGGAATACTCCAACCCCATTATTT
441720 TTCGA
128 TTCGA
*
441725 -AGGGATACTCCAAC
1 CGGGGATACTCCAAC
441739 TCCGTTATTA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
129 6 0.05
130 93 0.79
131 18 0.15
132 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (132 bp):
CGGGGATACTCCAACCCCGACTTTATTTCAAAAACATTGATTTCTCACAATCAGGGACACTACAA
CCCCGGCCTTATTTCTAAAATATCGATTTCTCACAATCGGGAATACTCCAACCCCATTATTTTTC
GA
Found at i:447561 original size:32 final size:32
Alignment explanation
Indices: 447512--447590 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
447502 TTGGCAGTAG
* *
447512 CTTC-ATAGCGATACATTGTATCGATACAATA
1 CTTCTATATCGATACATTGTATCGATACAACA
447543 CTTCTATATCGATACATTGTATCGATACAACA
1 CTTCTATATCGATACATTGTATCGATACAACA
* *
447575 CTTATGTATCGATACA
1 CTTCTATATCGATACA
447591 AATCGTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.09
32 39 0.91
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (32 bp):
CTTCTATATCGATACATTGTATCGATACAACA
Found at i:453056 original size:13 final size:13
Alignment explanation
Indices: 453038--453065 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
453028 CAACATTCCC
453038 TGTATCGATACAT
1 TGTATCGATACAT
453051 TGTATCGATACAT
1 TGTATCGATACAT
453064 TG
1 TG
453066 GATACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:455443 original size:13 final size:13
Alignment explanation
Indices: 455425--455451 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
455415 ACATGCTGCC
455425 TTGTATCGATACA
1 TTGTATCGATACA
455438 TTGTATCGATACA
1 TTGTATCGATACA
455451 T
1 T
455452 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:455463 original size:19 final size:21
Alignment explanation
Indices: 455437--455492 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
455427 GTATCGATAC
**
455437 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
455457 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
455477 ATTGTATCGATACATG
1 ATTGTATCGATACATG
455493 AAAATGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:455539 original size:13 final size:13
Alignment explanation
Indices: 455521--455547 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
455511 TTATCACTAT
455521 TTGTATCGATACA
1 TTGTATCGATACA
455534 TTGTATCGATACA
1 TTGTATCGATACA
455547 T
1 T
455548 GAAGAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:460759 original size:34 final size:34
Alignment explanation
Indices: 460721--460790 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
460711 TCGTTGTATC
460721 TTATGAGTTTTATTACTTAAACCTATTAACAAAT
1 TTATGAGTTTTATTACTTAAACCTATTAACAAAT
460755 TTATGAGTTTTATTACTTAAACCTATTAACAAAT
1 TTATGAGTTTTATTACTTAAACCTATTAACAAAT
460789 TT
1 TT
460791 TGTATGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (34 bp):
TTATGAGTTTTATTACTTAAACCTATTAACAAAT
Found at i:461124 original size:24 final size:24
Alignment explanation
Indices: 461092--461138 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
461082 TTCTTGATAG
*
461092 TTAACTTATGTCACGAGCTGTTAA
1 TTAACTTATGTAACGAGCTGTTAA
461116 TTAACTTATGTAACGAGCTGTTA
1 TTAACTTATGTAACGAGCTGTTA
461139 GACATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (24 bp):
TTAACTTATGTAACGAGCTGTTAA
Found at i:463004 original size:17 final size:18
Alignment explanation
Indices: 462969--463007 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
462959 AAATTAAATT
462969 TTTAATTTTAAAAATAAA
1 TTTAATTTTAAAAATAAA
462987 TTTAA-TTTAATAAA-AAA
1 TTTAATTTTAA-AAATAAA
463004 TTTA
1 TTTA
463008 TTAGATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAATTTTAAAAATAAA
Found at i:463072 original size:23 final size:21
Alignment explanation
Indices: 463046--463094 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
463036 TTAATTAAAA
463046 ATTTTATATTAAATAATAATTAT
1 ATTTTATATTAAAT-ATAA-TAT
* **
463069 ATTTTTTATTTTATATAATAT
1 ATTTTATATTAAATATAATAT
463090 ATTTT
1 ATTTT
463095 TTATCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
22 4 0.17
23 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTATATTAAATATAATAT
Found at i:463075 original size:25 final size:21
Alignment explanation
Indices: 463046--463098 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
463036 TTAATTAAAA
* *
463046 ATTTTATATTAAATAATAATTAT
1 ATTTTTTATTTAAT-ATAA-TAT
*
463069 ATTTTTTATTTTATATAATAT
1 ATTTTTTATTTAATATAATAT
463090 ATTTTTTAT
1 ATTTTTTAT
463099 CATAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 12 0.44
22 4 0.15
23 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTTATTTAATATAATAT
Found at i:463392 original size:14 final size:15
Alignment explanation
Indices: 463373--463401 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
463363 TTTAAAATAT
463373 ATTATA-TTAATAAA
1 ATTATATTTAATAAA
463387 ATTATATTTAATAAA
1 ATTATATTTAATAAA
463402 TTTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTTAATAAA
Found at i:464040 original size:17 final size:17
Alignment explanation
Indices: 464009--464042 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
463999 AATATTAAAA
464009 ATTTTATTTTATATAAT
1 ATTTTATTTTATATAAT
464026 ATTTATATTTT-TATAAT
1 ATTT-TATTTTATATAAT
464043 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTTTATATAAT
Found at i:464073 original size:26 final size:24
Alignment explanation
Indices: 464032--464079 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
464022 TAATATTTAT
*
464032 ATTTTTATAATTAAATTTTAATAA
1 ATTTTTATAATTAAATTATAATAA
464056 ATTTATTATTAATTAAATTATAAT
1 ATTT-TTA-TAATTAAATTATAAT
464080 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 3 0.14
26 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTTATAATTAAATTATAATAA
Found at i:464074 original size:16 final size:16
Alignment explanation
Indices: 464003--464108 Score: 52
Period size: 16 Copynumber: 6.9 Consensus size: 16
463993 GATTAAAATA
*
464003 TTAA-AAATTT-TATT
1 TTAATAAATTTATAAT
*
464017 TTATATAATATTTATATT
1 TTA-ATAA-ATTTATAAT
*
464035 TTTAT-AA-TTA-AATT
1 TTAATAAATTTATAA-T
*
464049 TTAATAAATTTATTA-
1 TTAATAAATTTATAAT
464064 TTAATTAAA-TTATAAT
1 TTAA-TAAATTTATAAT
464080 TTAAATAAATTTA-AA-
1 TT-AATAAATTTATAAT
*
464095 -TAAAAAATTTATAA
1 TTAATAAATTTATAA
464109 CAAAATTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
13 10 0.14
14 14 0.19
15 13 0.18
16 18 0.25
17 12 0.16
18 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAAATTTATAAT
Found at i:464081 original size:32 final size:30
Alignment explanation
Indices: 464014--464092 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 30
464004 TAAAAATTTT
*
464014 ATTTTATATAATATTTATATTTTTATAATTAA
1 ATTTTA-ATAA-ATTTATATTATTATAATTAA
464046 ATTTTAATAAATTTATTATTAATTA-AATTATA
1 ATTTTAATAAATTTA-TATT-ATTATAATTA-A
*
464078 ATTTAAATAAATTTA
1 ATTTTAATAAATTTA
464093 AATAAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 5 0.12
31 13 0.31
32 24 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTAATAAATTTATATTATTATAATTAA
Found at i:464092 original size:10 final size:10
Alignment explanation
Indices: 464043--464098 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
464033 TTTTTATAAT
*
464043 TAAATTTTAA
1 TAAATTTAAA
*
464053 TAAATTTATTA
1 TAAATTTA-AA
*
464064 TTAA-TTAAA
1 TAAATTTAAA
464073 TTATAATTTAAA
1 -TA-AATTTAAA
464085 TAAATTTAAA
1 TAAATTTAAA
464095 TAAA
1 TAAA
464099 AAATTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 23 0.62
11 8 0.22
12 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:464382 original size:47 final size:46
Alignment explanation
Indices: 464311--464447 Score: 114
Period size: 47 Copynumber: 2.8 Consensus size: 46
464301 TAATAATATA
* ***
464311 TTTATTTATAAATAAATTAAAATTAATTAAATAAATTTAATATTTTATTT
1 TTTATTTATAAAT--ATT--AATTAATTAAATAAATTAAATAAAATATTT
**
464361 TATTATTTATAAATATTAATTAACTTTTAT-AATTAAATAAAATATTT
1 T-TTATTTATAAATATTAATTAA-TTAAATAAATTAAATAAAATATTT
*
464408 TTTATTAATTAAATATTAACTTAAATTAAATTAAATTAAA
1 TTTATTTA-TAAATATTAA-TT-AATTAAA-TAAATTAAA
464448 AATAGATTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
46 6 0.08
47 30 0.42
48 9 0.13
49 6 0.08
50 8 0.11
51 12 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (46 bp):
TTTATTTATAAATATTAATTAATTAAATAAATTAAATAAAATATTT
Found at i:465139 original size:20 final size:20
Alignment explanation
Indices: 465107--465161 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
465097 TTTAAAAAAC
*
465107 TTATTTATTTTATTTTTA-AA
1 TTATTT-TTTTATTTTGATAA
465127 TTAATTTTTTTATTTTGATAA
1 TT-ATTTTTTTATTTTGATAA
*
465148 TTATTTTTATATTT
1 TTATTTTTTTATTT
465162 ATATTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATTTTTTTATTTTGATAA
Found at i:466056 original size:20 final size:20
Alignment explanation
Indices: 466014--466057 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
466004 TTTGTATTAT
* *
466014 TAAAAATTTTAAATTTTATA
1 TAAAAATTTTAAATATTAAA
466034 TAAAATATTTTAAA-ATTAAA
1 TAAAA-ATTTTAAATATTAAA
466054 TAAA
1 TAAA
466058 TCAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAAATTTTAAATATTAAA
Found at i:466331 original size:22 final size:22
Alignment explanation
Indices: 466287--466332 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
466277 TTATTTTTAT
*
466287 ATTTTATATTAAATATAAATAA
1 ATTTTATATTAAATAAAAATAA
*
466309 ATTTTTTATT-AATAAAAATTAA
1 ATTTTATATTAAATAAAAA-TAA
466331 AT
1 AT
466333 CAATTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTATATTAAATAAAAATAA
Found at i:466675 original size:19 final size:21
Alignment explanation
Indices: 466639--466683 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
466629 ATTTCAAGTT
*
466639 TTAAATAAAATATTTTAAAA-
1 TTAAATAAAATATATTAAAAG
*
466659 TTAAATAAATTA-ATTAAAAG
1 TTAAATAAAATATATTAAAAG
466679 TTAAA
1 TTAAA
466684 CATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAATAAAATATATTAAAAG
Found at i:467660 original size:24 final size:26
Alignment explanation
Indices: 467627--467712 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 26
467617 AAATATATTT
467627 TTAATTATATTATATTTATTATAATAA
1 TTAA-TATATTATATTTATTATAATAA
* **
467654 -TAA-ATATAATAAATATTATAATAA
1 TTAATATATTATATTTATTATAATAA
467678 TTAATTATATTAAATATTTATTATAA-ATA
1 TTAA-TATATT--ATATTTATTATAATA-A
467707 TTAATA
1 TTAATA
467713 ATATAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
24 18 0.38
25 3 0.06
26 3 0.06
27 4 0.09
28 3 0.06
29 16 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATATATTATATTTATTATAATAA
Found at i:467698 original size:13 final size:13
Alignment explanation
Indices: 467645--467715 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
467635 ATTATATTTA
*
467645 TTATAAT-AATAA
1 TTATAATAAATAT
*
467657 ATATAATAAATA-
1 TTATAATAAATAT
* *
467669 TTATAATAATTAA
1 TTATAATAAATAT
*
467682 TTATATTAAATAT
1 TTATAATAAATAT
*
467695 TTATTATAAATAT
1 TTATAATAAATAT
*
467708 TAATAATA
1 TTATAATA
467716 TAAAATTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
12 16 0.34
13 31 0.66
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTATAATAAATAT
Done.