Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 120 of 141
Found at i:35609840 original size:64 final size:64
Alignment explanation
Indices: 35609746--35609940 Score: 182
Period size: 64 Copynumber: 3.0 Consensus size: 64
35609736 TTGGTCCTAG
* * * *
35609746 TACCGTTATTGATGGCTTTGTACC-AGTCATAGTACCGTTATTGATGGCTTTGTGCCGATCATGT
1 TACCGTTATCGATGGCTTTGTGCCGA-TCATAGTACCGTTACTGATGGCTTTGTGCCGATCATAT
* * * * *
35609810 TACCATTATCGATGGCTATGTGCCGATCATA-TCACCGTTACTAAGGGCTATGTGCCGATCATAT
1 TACCGTTATCGATGGCTTTGTGCCGATCATAGT-ACCGTTACTGATGGCTTTGTGCCGATCATAT
* * * * * * *
35609874 CACTGCTA-CAGATGGCTTTGAGGCGATCAT-GCTACCGTTACTGATGGCTTTGTGCTGATCACA
1 TACCGTTATC-GATGGCTTTGTGCCGATCATAG-TACCGTTACTGATGGCTTTGTGCCGATCATA
35609937 T
64 T
35609938 TAC
1 TAC
35609941 TGAACTTATG
Statistics
Matches: 104, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
63 2 0.02
64 100 0.96
65 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (64 bp):
TACCGTTATCGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTTTGTGCCGATCATAT
Found at i:35611584 original size:42 final size:42
Alignment explanation
Indices: 35611532--35611617 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
35611522 CGTGTCGCAT
* *
35611532 GGCCGTGTGTCTCACACGACTGAGACACACGCCCGTGTCTTA
1 GGCCGTGTGTCTCACACAACTGAGACACAAGCCCGTGTCTTA
*
35611574 GGCCGTGTGTCTCACACAACTGAGACACAAGCCTGTGTCTTA
1 GGCCGTGTGTCTCACACAACTGAGACACAAGCCCGTGTCTTA
35611616 GG
1 GG
35611618 TCATATGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.30, G:0.27, T:0.22
Consensus pattern (42 bp):
GGCCGTGTGTCTCACACAACTGAGACACAAGCCCGTGTCTTA
Found at i:35613056 original size:29 final size:29
Alignment explanation
Indices: 35612994--35613228 Score: 240
Period size: 29 Copynumber: 8.0 Consensus size: 29
35612984 GATGGTTGAA
* *
35612994 ACCATCCCTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCA-TATTCGATGGTCGTC
*
35613024 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* ** **
35613053 ACCATCCCTTTTCATA-GCTGACAGTCGAA
1 ACCATCCCTTTTCATATTC-GATGGTCGTC
* *
35613082 ACTATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
35613111 ACCATCCCTTTTCATATTCGATGGTCGTT
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
35613140 ACCATCCCTTTTCATATTCAATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
35613169 ACCAACCCTTTTCATTAATCGGTGGTCGTC
1 ACCATCCCTTTTCA-TATTCGATGGTCGTC
* *
35613199 ACCAT-CCTTTTACATTAATCGATGCTCGTC
1 ACCATCCCTTTT-CA-TATTCGATGGTCGTC
35613229 GATACGCCGT
Statistics
Matches: 170, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
29 126 0.74
30 44 0.26
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:35613118 original size:87 final size:88
Alignment explanation
Indices: 35612991--35613228 Score: 304
Period size: 87 Copynumber: 2.7 Consensus size: 88
35612981 AACGATGGTT
* *
35612991 GAAACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATATTTGATGGTCGTCACC
1 GAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACC
35613056 ATCCCTTTTCATAGCTGACAGTC
66 ATCCCTTTTCATAGCTGACAGTC
* * * *
35613079 GAAACTATCCCTTTTCA-TATTTGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTTACC
1 GAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACC
* *
35613143 ATCCCTTTTCATA-TTCA-ATGGTC
66 ATCCCTTTTCATAGCTGACA--GTC
* * * *
35613166 GAAACCAACCCTTTTCATTAATCGGTGGTCGTCACCAT-CCTTTTACATTAATCGATGCTCGTC
1 GAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTT-CA-TATTCGATGGTCGTC
35613229 GATACGCCGT
Statistics
Matches: 129, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
85 1 0.01
86 2 0.02
87 79 0.61
88 35 0.27
89 12 0.09
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (88 bp):
GAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACC
ATCCCTTTTCATAGCTGACAGTC
Found at i:35620702 original size:45 final size:45
Alignment explanation
Indices: 35620630--35620715 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
35620620 CTCGGTGGAT
* *
35620630 TCAGCACATAGCAACGAACTTATTAATCAATGATGTCCGGTAGAA
1 TCAGCACATAGCAACCAACTTACTAATCAATGATGTCCGGTAGAA
* *
35620675 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCAACTTACTAATCAATGATGTCCGGT
35620716 TCACATAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (45 bp):
TCAGCACATAGCAACCAACTTACTAATCAATGATGTCCGGTAGAA
Found at i:35620779 original size:51 final size:50
Alignment explanation
Indices: 35620712--35620955 Score: 278
Period size: 51 Copynumber: 4.9 Consensus size: 50
35620702 CAATGATGTT
* *
35620712 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-AACCATC
* * * *
35620763 CGATACACGTAGTAGCCTG--CATAGTACTACACATGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAACCATC
* * *
35620812 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAACCATC
* * * * *
35620863 CGGTACGCATAGTAGCCTGCACATAGAACTACACATGCGACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACCA-TC
* * *
35620913 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA
35620956 TCACTTTCAC
Statistics
Matches: 167, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 42 0.25
50 41 0.25
51 84 0.50
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACCATC
Found at i:35636731 original size:51 final size:50
Alignment explanation
Indices: 35636673--35636851 Score: 198
Period size: 51 Copynumber: 3.5 Consensus size: 50
35636663 CCAATTCACA
* * * *
35636673 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGCGACCA-TACCATCCGGTACACG
* * * * * * *
35636724 TAGTAGCCTGCACATAGTACTACACACGCGATCGAAACTATTCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGCGA-CCATACCATCCGGTACACG
* *
35636775 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGCGACCATACCA-TCCGGTACACG
*
35636825 TAGTAACCTACACATAGTACTACACAC
1 TAGTAGCCTACACATAGTACTACACAC
35636852 ATGACCATCA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 34 0.32
51 68 0.64
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGCGACCATACCATCCGGTACACG
Found at i:35636889 original size:101 final size:101
Alignment explanation
Indices: 35636669--35636852 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 101
35636659 ATGTCCAATT
* * * *
35636669 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAACCTA
* * **
35636734 CACATAGTACTACACACGCGATCGAAACTATTCGGTA
65 CACATAGTACTACACACACGATCCAAACTATTCCATA
* * *
35636771 CGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAACCTA
1 CACATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAACCTA
35636835 CACATAGTACTACACACA
65 CACATAGTACTACACACA
35636853 TGACCATCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 4 0.05
101 35 0.48
102 34 0.47
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (101 bp):
CACATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAACCTAC
ACATAGTACTACACACACGATCCAAACTATTCCATA
Found at i:35638193 original size:27 final size:27
Alignment explanation
Indices: 35638163--35638375 Score: 270
Period size: 27 Copynumber: 7.9 Consensus size: 27
35638153 TTTCATCTTT
**
35638163 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
**
35638190 TAGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
35638217 TAGGGGTA-TTCTAGTCATTTTACCCTA
1 TAGGGGTATTTC-AGTCATTTTACCCTA
* * *
35638244 TAAGGGTATTTCGGTCATTCTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
35638271 T-GGGAGTATTTCGGTCATTTTACCCTA
1 TAGGG-GTATTTCAGTCATTTTACCCTA
*
35638298 TGGGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
35638325 AAGGGGTATTT-TGATCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTA
*
35638352 TAAGGGTATTTCAGTCATTTTACC
1 TAGGGGTATTTCAGTCATTTTACC
35638376 TATTTTAGGG
Statistics
Matches: 162, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.03
27 150 0.93
28 7 0.04
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:35642097 original size:50 final size:51
Alignment explanation
Indices: 35642017--35642124 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 51
35642007 TGGACAAGCC
35642017 ACCACTGATAACACTTTTGTGGACAAGCCACCACTGAATTGCAGATATACT
1 ACCACTGATAACACTTTTGTGGACAAGCCACCACTGAATTGCAGATATACT
* ** *
35642068 ACCACTGATATA-A-TTTTG-GGAACATGCCACCACTGGTTTGCAGATATGCT
1 ACCACTGATA-ACACTTTTGTGG-ACAAGCCACCACTGAATTGCAGATATACT
*
35642118 GCCACTG
1 ACCACTG
35642125 CTTCCACCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.04
50 36 0.72
51 11 0.22
52 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (51 bp):
ACCACTGATAACACTTTTGTGGACAAGCCACCACTGAATTGCAGATATACT
Found at i:35662718 original size:26 final size:26
Alignment explanation
Indices: 35662682--35662733 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35662672 GTGTGGGGGT
35662682 AAGATAGGAAATTTGTTTTTTATTTC
1 AAGATAGGAAATTTGTTTTTTATTTC
35662708 AAGATAGGAAATTTGTTTTTTATTTC
1 AAGATAGGAAATTTGTTTTTTATTTC
35662734 TATGCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (26 bp):
AAGATAGGAAATTTGTTTTTTATTTC
Found at i:35666210 original size:138 final size:138
Alignment explanation
Indices: 35665962--35666513 Score: 863
Period size: 138 Copynumber: 4.0 Consensus size: 138
35665952 AAAAGGAAAA
* *
35665962 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACAGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
* * *
35666027 AACTGTTTATATTAATAAATTCGGTAACATATACACAATTAATATTTTCTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCAT
35666092 ATATTAAT
131 ATATTAAT
* *
35666100 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATCTTTTGTCCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
* * * *
35666165 AACTATTTATATTAATAAATTTGGTAACATATACACAAATAATATTTTGTATGAATTAAATTCAT
66 AACTATTTATATTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCAT
35666230 ATATTAAT
131 ATATTAAT
* *
35666238 TATATTCTTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTATTAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
* * *
35666303 AACT-GTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCAT
* *
35666367 ACATCAAT
131 ATATTAAT
* * *
35666375 TAAATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
* * * * *
35666440 AACTATTTATATTAATAAATTCGATAAAATATATACAATTAATAATTTATATGAACCAAATTCAT
66 AACTATTTATATTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCAT
35666505 ATATTAAT
131 ATATTAAT
35666513 T
1 T
35666514 TTATCTATGT
Statistics
Matches: 379, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
137 124 0.33
138 255 0.67
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (138 bp):
TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATAT
AACTATTTATATTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCAT
ATATTAAT
Found at i:35666284 original size:71 final size:71
Alignment explanation
Indices: 35666068--35666284 Score: 166
Period size: 71 Copynumber: 3.1 Consensus size: 71
35666058 TACACAATTA
* * *
35666068 ATATTTTCTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATTAAATTCATATATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATG
35666133 TCTTTT
66 TCTTTT
* ** * * * * * *
35666139 ATCTTTTGTCCGAAATT-AATT-A-ATA-TAACTAT-TTATAT-TAATA-AATTTGGTAACATAT
1 ATATTTTGTATG-AATTAAATTCATATATTAATTATATTCTTTCTAAAAGAATAT--T-A-ATTT
* ** *
35666197 ACA---CAAATA
61 CCATGTC-TTTT
35666206 ATATTTTGTATGAATTAAATTCATATATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATTAAATTCATATATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATG
35666271 TCTTTT
66 TCTTTT
35666277 ATATTTTG
1 ATATTTTG
35666285 ACCGAAATTA
Statistics
Matches: 101, Mismatches: 29, Indels: 32
0.62 0.18 0.20
Matches are distributed among these distances:
65 4 0.04
66 8 0.08
67 19 0.19
68 8 0.08
69 16 0.16
70 8 0.08
71 26 0.26
72 8 0.08
73 4 0.04
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (71 bp):
ATATTTTGTATGAATTAAATTCATATATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATG
TCTTTT
Found at i:35666454 original size:275 final size:276
Alignment explanation
Indices: 35665962--35666513 Score: 881
Period size: 275 Copynumber: 2.0 Consensus size: 276
35665952 AAAAGGAAAA
35665962 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACAGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACAGAAATTAATTAATAT
* *
35666027 AACTGTTTATATTAATAAATTCGGTAACATATACACAATTAATATTTTCTATGAATCAAATTCAT
66 AACTGTTTATATTAATAAATTAGGTAAAATATACACAATTAATATTTTCTATGAATCAAATTCAT
* * * * **
35666092 ATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATCTTTTGTCCGAAATTA
131 ACATCAATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCGAAATTA
* * * * * **
35666157 ATTAATATAACTATTTATATTAATAAATTTGGTAACATATACACAAATAATATTTTGTATGAATT
196 ATTAATATAACTATTTATATTAATAAATTCGATAAAATATACACAAATAATAATTTATATGAACC
35666222 AAATTCATATATTAAT
261 AAATTCATATATTAAT
* * * *
35666238 TATATTCTTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTATTAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACAGAAATTAATTAATAT
* *
35666303 AACTG-TTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
66 AACTGTTTATATTAATAAATTAGGTAAAATATACACAATTAATATTTTCTATGAATCAAATTCAT
*
35666367 ACATCAATTAAATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTAACCGAAATTA
131 ACATCAATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCGAAATTA
* *
35666432 ATTAATATAACTATTTATATTAATAAATTCGATAAAATATATACAATTAATAATTTATATGAACC
196 ATTAATATAACTATTTATATTAATAAATTCGATAAAATATACACAAATAATAATTTATATGAACC
35666497 AAATTCATATATTAAT
261 AAATTCATATATTAAT
35666513 T
1 T
35666514 TTATCTATGT
Statistics
Matches: 252, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
275 186 0.74
276 66 0.26
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (276 bp):
TATATTCTTTCCAAAAGAATATTAATTTCCATGTCATTTATATTTTGACAGAAATTAATTAATAT
AACTGTTTATATTAATAAATTAGGTAAAATATACACAATTAATATTTTCTATGAATCAAATTCAT
ACATCAATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCGAAATTA
ATTAATATAACTATTTATATTAATAAATTCGATAAAATATACACAAATAATAATTTATATGAACC
AAATTCATATATTAAT
Found at i:35674507 original size:23 final size:23
Alignment explanation
Indices: 35674470--35674520 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
35674460 ATAAGCTTAT
35674470 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
35674493 TGTAATA-CCCTGAAAATTACTAC
1 TGTAATATCCC-GAAAATTACTAC
*
35674516 AGTAA
1 TGTAA
35674521 GAAAATAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:35677530 original size:50 final size:50
Alignment explanation
Indices: 35677472--35677702 Score: 266
Period size: 50 Copynumber: 4.6 Consensus size: 50
35677462 TATGAGCTAG
*
35677472 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * *
35677522 TGTAAGACCATGTCTGGGACATGGCGTTGGCACTGGGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * * **
35677572 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * ** * * * ** *
35677622 TGTAAGACCATATCTGGGATATGGCATTGGCA-ATACAGGAAACATCTCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
*
35677671 TGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA
35677703 TGTAATTATC
Statistics
Matches: 154, Mismatches: 27, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
49 38 0.25
50 116 0.75
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:35679222 original size:23 final size:23
Alignment explanation
Indices: 35679184--35679234 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35679174 GGGGCGGAAA
* *
35679184 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
35679207 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
35679230 AGTAA
1 TGTAA
35679235 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:35680135 original size:296 final size:296
Alignment explanation
Indices: 35679601--35680185 Score: 1170
Period size: 296 Copynumber: 2.0 Consensus size: 296
35679591 AACTGCAAAG
35679601 TGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATATTTTATATTAATT
1 TGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATATTTTATATTAATT
35679666 AAATAAATAAATATTAGTTTATTAATATTTTAATTTTAGCTTTAAATGATATTTTATTATTTTAT
66 AAATAAATAAATATTAGTTTATTAATATTTTAATTTTAGCTTTAAATGATATTTTATTATTTTAT
35679731 TAGTATTTTATTTAGTATATATAAGAAAATAAAGATGAAGAATCATCCATTCCACCATATTTCCA
131 TAGTATTTTATTTAGTATATATAAGAAAATAAAGATGAAGAATCATCCATTCCACCATATTTCCA
35679796 TGCAACTAACGTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTATTTACAATTTGGTCCTTCC
196 TGCAACTAACGTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTATTTACAATTTGGTCCTTCC
35679861 ACCAAAAATTTATCATTTTCACCTAGAAAGGAAAAA
261 ACCAAAAATTTATCATTTTCACCTAGAAAGGAAAAA
35679897 TGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATATTTTATATTAATT
1 TGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATATTTTATATTAATT
35679962 AAATAAATAAATATTAGTTTATTAATATTTTAATTTTAGCTTTAAATGATATTTTATTATTTTAT
66 AAATAAATAAATATTAGTTTATTAATATTTTAATTTTAGCTTTAAATGATATTTTATTATTTTAT
35680027 TAGTATTTTATTTAGTATATATAAGAAAATAAAGATGAAGAATCATCCATTCCACCATATTTCCA
131 TAGTATTTTATTTAGTATATATAAGAAAATAAAGATGAAGAATCATCCATTCCACCATATTTCCA
35680092 TGCAACTAACGTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTATTTACAATTTGGTCCTTCC
196 TGCAACTAACGTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTATTTACAATTTGGTCCTTCC
35680157 ACCAAAAATTTATCATTTTCACCTAGAAA
261 ACCAAAAATTTATCATTTTCACCTAGAAA
35680186 TCAAAAGAAT
Statistics
Matches: 289, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 289 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (296 bp):
TGGTCAATTAGAAGAGAGAGAAATCTAGAAGATAATGATGATGTTGGAGATATTTTATATTAATT
AAATAAATAAATATTAGTTTATTAATATTTTAATTTTAGCTTTAAATGATATTTTATTATTTTAT
TAGTATTTTATTTAGTATATATAAGAAAATAAAGATGAAGAATCATCCATTCCACCATATTTCCA
TGCAACTAACGTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTATTTACAATTTGGTCCTTCC
ACCAAAAATTTATCATTTTCACCTAGAAAGGAAAAA
Found at i:35681989 original size:41 final size:41
Alignment explanation
Indices: 35681923--35682137 Score: 227
Period size: 41 Copynumber: 5.3 Consensus size: 41
35681913 GGGAGCACAA
* * * *
35681923 ATGTGC-ATTCAGAGGTATCAAAGTACGAATAGGGGCACGT
1 ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
* *** *
35681963 ATGTGCAATTTAGGGGTAGAAAAGTACAAACAGGGGCACGT
1 ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
* * * *
35682004 ATGTGCAATTCAAGGGTACCGAAGTATGAATAGGGGCACAT
1 ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
* * * * *
35682045 ATGTGCAATTTAGGGGTACTGAAGTACGAACAAGGGTACAT
1 ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
* * *
35682086 ATGTGCAATTCA-GGGTAGCGAAGTACAAACAGGGGCACGC
1 ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
35682126 ATGTGCAATTCA
1 ATGTGCAATTCA
35682138 TACAATAATT
Statistics
Matches: 144, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
40 39 0.27
41 105 0.73
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (41 bp):
ATGTGCAATTCAGGGGTACCGAAGTACGAACAGGGGCACGT
Found at i:35682070 original size:82 final size:81
Alignment explanation
Indices: 35681917--35682135 Score: 269
Period size: 82 Copynumber: 2.7 Consensus size: 81
35681907 GTAAACGGGA
* * *
35681917 GCACAAATGTGC-ATTCAGAGGTATCAAAGTACGAATAGGGGCACGTATGTGCAATTTAGGGGTA
1 GCACATATGTGCAATTCAG-GGTACCGAAGTACGAATAGGGGCACGTATGTGCAATTTAGGGGTA
* *
35681981 GAAAAGTACAAACAGGG
65 CAAAAGTACAAACAAGG
* * *
35681998 GCACGTATGTGCAATTCAAGGGTACCGAAGTATGAATAGGGGCACATATGTGCAATTTAGGGGTA
1 GCACATATGTGCAATTC-AGGGTACCGAAGTACGAATAGGGGCACGTATGTGCAATTTAGGGGTA
** *
35682063 CTGAAGTACGAACAAGG
65 CAAAAGTACAAACAAGG
* * * * *
35682080 GTACATATGTGCAATTCAGGGTAGCGAAGTACAAACAGGGGCACGCATGTGCAATT
1 GCACATATGTGCAATTCAGGGTACCGAAGTACGAATAGGGGCACGTATGTGCAATT
35682136 CATACAATAA
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
81 43 0.37
82 72 0.62
83 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (81 bp):
GCACATATGTGCAATTCAGGGTACCGAAGTACGAATAGGGGCACGTATGTGCAATTTAGGGGTAC
AAAAGTACAAACAAGG
Found at i:35688041 original size:46 final size:47
Alignment explanation
Indices: 35687939--35688075 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 47
35687929 CAGGGCTTAA
* * * *
35687939 TATTCATGTATTCTCGAGTCCACAACATATGTAGGAGAT-TGAAACC
1 TATTCATGTATTCTCGAGTTCACAACATATGCAGGAGCTCAGAAACC
** * * *
35687985 TAAACTTGTATTCTCGAGTTCACAACATATGCAGGGGCTCAG-AATC
1 TATTCATGTATTCTCGAGTTCACAACATATGCAGGAGCTCAGAAACC
*
35688031 TATTCATGTATTCTCGAG-TCTGCAACATATGCAGGAGCTC-GAAAC
1 TATTCATGTATTCTCGAGTTC-ACAACATATGCAGGAGCTCAGAAAC
35688076 TTGGGTAAGA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
45 3 0.04
46 69 0.95
47 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (47 bp):
TATTCATGTATTCTCGAGTTCACAACATATGCAGGAGCTCAGAAACC
Found at i:35689213 original size:43 final size:43
Alignment explanation
Indices: 35689161--35689494 Score: 248
Period size: 43 Copynumber: 7.7 Consensus size: 43
35689151 GTTTATGTGA
*
35689161 AAAAACGCCGCTAAAAATCATGACATTTAGCGGCGCTTCCACC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
* ** * *****
35689204 AAAAACGCCGTTATATACAACGTCACT-AATTTTAGCGGCGTTTATGTGA
1 AAAAACGCCGCTA-A-A-AA--TCA-TGACCTTTAGCGGCGCTT-CCACC
* * * *
35689253 AAAAATGCCGCTAAAGATCATGACCTTTAGCCGTGCTTCCACC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
* * *
35689296 ACAAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTCCACC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
* * * *
35689339 ACAAACACCGCTAAAGATCATGACCTTTAGCGGCACTTCCACC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
* * * *
35689382 ACAAACGCCGCTAAAAATCATGACTTTTAGCGACGCTTCTACC
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
* * ** * *
35689425 ACAAAA-GCCACTATAAAGAATGACTTTTAGCGGCGCCTTTTCA-C
1 A-AAAACGCCGCTAAAAATCATGACCTTTAGCGGCG-C-TTCCACC
*
35689469 --AAACGCCGCTAAAAA-CATGACTTTTA
1 AAAAACGCCGCTAAAAATCATGACCTTTA
35689495 AAAAATATTT
Statistics
Matches: 234, Mismatches: 45, Indels: 26
0.77 0.15 0.09
Matches are distributed among these distances:
41 13 0.06
42 9 0.04
43 155 0.66
44 20 0.09
45 4 0.02
46 3 0.01
47 1 0.00
48 17 0.07
49 12 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTCCACC
Found at i:35689251 original size:92 final size:92
Alignment explanation
Indices: 35689118--35689308 Score: 274
Period size: 92 Copynumber: 2.1 Consensus size: 92
35689108 CGCAAAAAGT
* * * *
35689118 GCCGCTATAGACAATGTCGCTAATTTTAGTGGTGTTTATGTGAAAAAACGCCGCTAAAAATCATG
1 GCCGCTATAGACAACGTCACTAATTTTAGCGGCGTTTATGTGAAAAAACGCCGCTAAAAATCATG
*
35689183 ACATTTAGCGGCGCTTCCACCAAAAAC
66 ACATTTAGCCGCGCTTCCACCAAAAAC
* * * *
35689210 GCCGTTATATACAACGTCACTAATTTTAGCGGCGTTTATGTGAAAAAATGCCGCTAAAGATCATG
1 GCCGCTATAGACAACGTCACTAATTTTAGCGGCGTTTATGTGAAAAAACGCCGCTAAAAATCATG
* * *
35689275 ACCTTTAGCCGTGCTTCCACCACAAAC
66 ACATTTAGCCGCGCTTCCACCAAAAAC
35689302 GCCGCTA
1 GCCGCTA
35689309 AAGATCATGA
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (92 bp):
GCCGCTATAGACAACGTCACTAATTTTAGCGGCGTTTATGTGAAAAAACGCCGCTAAAAATCATG
ACATTTAGCCGCGCTTCCACCAAAAAC
Found at i:35691090 original size:23 final size:24
Alignment explanation
Indices: 35691064--35691120 Score: 62
Period size: 29 Copynumber: 2.2 Consensus size: 24
35691054 GCAAATGGTC
35691064 GGCT-TACAAAGTCAAAGACTTTA
1 GGCTCTACAAAGTCAAAGACTTTA
35691087 GGCTTTCGCGTACAAAGTCAAAGACTTTA
1 GGC--T--C-TACAAAGTCAAAGACTTTA
35691116 GGCTC
1 GGCTC
35691121 GAAAGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
23 3 0.11
25 2 0.07
27 1 0.04
29 22 0.79
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
GGCTCTACAAAGTCAAAGACTTTA
Found at i:35692888 original size:87 final size:86
Alignment explanation
Indices: 35692773--35693003 Score: 236
Period size: 86 Copynumber: 2.7 Consensus size: 86
35692763 TTAATTAAAA
* * * * *
35692773 TCAATC-TTACAACAGTTTATGTGAAACAAATTAGCACAAATCAACT-ATTCATAGTTCATATAT
1 TCAATCTTTATAACAATTTATATGCAACAAATTAGCAAAAATCAA-TGATTCA-AGTTCATATAT
**** *
35692836 TTACTGGCAAT-AGGGCTAAATCT
64 TTACCAAAAATCA-GACTAAATCT
* * *
35692859 TCAAT-TTCTATAACGATTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATT
1 TCAATCTT-TATAACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCATATATT
* *
35692923 TACCAAAAATCAGACTAATTTT
65 TACCAAAAATCAGACTAAATCT
* * *
35692945 TCAATCTTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCAT
1 TCAATCTTTATAACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCAT
35693004 GCACCTCTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
86 84 0.69
87 38 0.31
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (86 bp):
TCAATCTTTATAACAATTTATATGCAACAAATTAGCAAAAATCAATGATTCAAGTTCATATATTT
ACCAAAAATCAGACTAAATCT
Found at i:35693188 original size:39 final size:40
Alignment explanation
Indices: 35693056--35693201 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
35693046 AAACAGGCTT
* *
35693056 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCGAGCA
1 TTAGCGGCGTTT-TACAAAAAACGCCGCTAAAAATCGAGCA
* *** * * * *
35693097 TTAGCGGCGCTTTATGGAAATCGTCACTAAAGATCGAGCA
1 TTAGCGGCGTTTTACAAAAAACGCCGCTAAAAATCGAGCA
*
35693137 TTAGCGGTGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
1 TTAGCGGCG-TTTTACAAAAAACGCCGCTAAAAATCGAGCA
35693176 TTAGCGGCGTTTTACAGAAAAACGCC
1 TTAGCGGCGTTTTACA-AAAAACGCC
35693202 ACAAAAAACA
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
38 5 0.06
39 14 0.17
40 49 0.59
41 15 0.18
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGTTTTACAAAAAACGCCGCTAAAAATCGAGCA
Found at i:35693354 original size:41 final size:41
Alignment explanation
Indices: 35693243--35693361 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
35693233 CTTACCTTTC
* *
35693243 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCACCGCTAACGTT
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAACGAT
* * * *
35693284 AGGGGCTTTAACGGCGTTTTTGTAAAAGCGCCGCTAATGAT
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAACGAT
* * *
35693325 GGGGGCTTTAGCAGCATTTTTGGAAAAGCGCTGCTAA
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
35693362 AAACTTTTTA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (41 bp):
GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAACGAT
Found at i:35693723 original size:15 final size:14
Alignment explanation
Indices: 35693706--35693754 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
35693696 ACTATTTTAA
*
35693706 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
35693720 AGGTTTAGGCATTAT
1 -GGTTTAGGGATTAT
*
35693735 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
35693749 GGTTTA
1 GGTTTA
35693755 AGGGTTGAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.24, C:0.02, G:0.35, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:35694020 original size:21 final size:20
Alignment explanation
Indices: 35693986--35694026 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35693976 GTATGGATTA
*
35693986 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
35694006 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
35694027 AAGGGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:35694035 original size:15 final size:15
Alignment explanation
Indices: 35694011--35694048 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35694001 GGGTTGGGAT
35694011 TTAA-GGTTTAGGGG
1 TTAAGGGTTTAGGGG
*
35694025 TTAAGGGTTTATGGG
1 TTAAGGGTTTAGGGG
*
35694040 TTAGGGGTT
1 TTAAGGGTT
35694049 AGATGCGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (15 bp):
TTAAGGGTTTAGGGG
Found at i:35694138 original size:282 final size:286
Alignment explanation
Indices: 35693822--35694469 Score: 940
Period size: 282 Copynumber: 2.3 Consensus size: 286
35693812 GATTTTGGGC
35693822 GTTTAGATTAA-T-TTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
1 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
* *
35693885 TAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATAATTTATTTAATATTTAAGGCCGGTTTA
66 TAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATAATTAATTTAATATTTAAGGCCGGTTTA
* * * *
35693950 GGAGTTCATATTTTAAGATTTAGGGAGTATGGA-TTAGGGATTATGGTTTAAGGGTT-GGGATTT
131 GGAGTTCACATTTTAAGATTTAAGGAGTATGGATTTAGGGATTATGGATTAAGGATTAGGGA-TT
* *
35694013 AAGGTTTAGGG-GTTAAGGGTTTATGGGTTAGGGGTTAGATGCGTGA-GGG-GTT-AA-AA-G-T
195 AAGGATT-GGGAGTTAA-GGTTTAGGGGTTAGGGGTTAGA--CGTGAGGGGAGTTGAATAAGGTT
* *
35694071 TAGGGATTCAGTGGTCGGGTTAGGGTTTTGA
256 TAGGGATTCAGGGGTCGGGTTAAGGTTTTGA
35694102 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
1 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
* *
35694167 TAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAATATTTAAGGCTGGTTTA
66 TAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATAATTAATTTAATATTTAAGGCCGGTTTA
*
35694232 GGAGTTCACATTTTAAGGTTTAAGGAGTATGGATTTAGGGATTATGGATTAAGGATTAGGGATTA
131 GGAGTTCACATTTTAAGATTTAAGGAGTATGGATTTAGGGATTATGGATTAAGGATTAGGGATTA
* * *
35694297 GGGATTGGGATTTAAGGTTTAGGGGTTAGGGGTTAGACGTTAGGGGTTAAAAGTTAGGAATTTAA
196 AGGATTGGGAGTTAAGGTTTAGGGGTTAGGGGTTAGACGTGAGGGG-----AGTT--GAA--TAA
35694362 GGTTTAGGGATTCAGGGGTCGGGTTAAGGTTTTGA
252 GGTTTAGGGATTCAGGGGTCGGGTTAAGGTTTTGA
*
35694397 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTGTATAATTGTAAAAGAGATAA
1 GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
35694462 TAATAAAT
66 TAATAAAT
35694470 CAAATATATT
Statistics
Matches: 331, Mismatches: 17, Indels: 25
0.89 0.05 0.07
Matches are distributed among these distances:
280 15 0.05
281 4 0.01
282 166 0.50
283 32 0.10
284 4 0.01
287 3 0.01
290 2 0.01
293 2 0.01
294 1 0.00
295 102 0.31
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.42
Consensus pattern (286 bp):
GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAA
TAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATAATTAATTTAATATTTAAGGCCGGTTTA
GGAGTTCACATTTTAAGATTTAAGGAGTATGGATTTAGGGATTATGGATTAAGGATTAGGGATTA
AGGATTGGGAGTTAAGGTTTAGGGGTTAGGGGTTAGACGTGAGGGGAGTTGAATAAGGTTTAGGG
ATTCAGGGGTCGGGTTAAGGTTTTGA
Found at i:35694289 original size:14 final size:14
Alignment explanation
Indices: 35694251--35694302 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
35694241 ATTTTAAGGT
*
35694251 TTAAGGAGTATGGA
1 TTAAGGATTATGGA
*
35694265 TTTAGGGATTATGGA
1 -TTAAGGATTATGGA
*
35694280 TTAAGGATTAGGGA
1 TTAAGGATTATGGA
*
35694294 TTAGGGATT
1 TTAAGGATT
35694303 GGGATTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (14 bp):
TTAAGGATTATGGA
Found at i:35694308 original size:6 final size:7
Alignment explanation
Indices: 35694266--35694332 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
35694256 GAGTATGGAT
35694266 TTAGGGA
1 TTAGGGA
*
35694273 TTATGGA
1 TTAGGGA
*
35694280 TTAAGGA
1 TTAGGGA
35694287 TTAGGGA
1 TTAGGGA
35694294 TTAGGGA
1 TTAGGGA
35694301 TT-GGGA
1 TTAGGGA
* *
35694307 TTTAAGGT
1 -TTAGGGA
*
35694315 TTAGGGG
1 TTAGGGA
*
35694322 TTAGGGG
1 TTAGGGA
35694329 TTAG
1 TTAG
35694333 ACGTTAGGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
6 4 0.08
7 45 0.88
8 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.34
Consensus pattern (7 bp):
TTAGGGA
Found at i:35694311 original size:28 final size:29
Alignment explanation
Indices: 35694250--35694332 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
35694240 CATTTTAAGG
* * *
35694250 TTTAAGGAGTATGGATTTAGGGATTATGGA
1 TTTAAGGATTAGGGA-TTAGGGATTAGGGA
35694280 -TTAAGGATTAGGGATTAGGGATT-GGGA
1 TTTAAGGATTAGGGATTAGGGATTAGGGA
* * *
35694307 TTTAAGGTTTAGGGGTTAGGGGTTAG
1 TTTAAGGATTAGGGATTAGGGATTAG
35694333 ACGTTAGGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.07
28 29 0.64
29 13 0.29
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (29 bp):
TTTAAGGATTAGGGATTAGGGATTAGGGA
Found at i:35694352 original size:14 final size:14
Alignment explanation
Indices: 35694321--35694354 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35694311 AGGTTTAGGG
* *
35694321 GTTAGGGGTTAGAC
1 GTTAGGGGTTAAAA
35694335 GTTAGGGGTTAAAA
1 GTTAGGGGTTAAAA
35694349 GTTAGG
1 GTTAGG
35694355 AATTTAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.41, T:0.29
Consensus pattern (14 bp):
GTTAGGGGTTAAAA
Found at i:35694950 original size:109 final size:96
Alignment explanation
Indices: 35694826--35695113 Score: 369
Period size: 96 Copynumber: 2.9 Consensus size: 96
35694816 ATTTTATAAA
** * *
35694826 AAATCAATTTATAAAAAACAAAATAAAATTTTTTTAGCGTAGCAAAACGGTGTCATTTTGTTCAA
1 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAA
* *
35694891 AATGAAATATTTTTTTGCGGAAAATATAAAAACGCCGCAAAAAT
66 AATGAAATAATTTTTTGC-G--------AAAA---C-AAAAAAT
* * *
35694935 AAATCAATTTATAAAATACAAAATAAAAAAATTTTAGCATAACAAAACGGCGTCATTTTGTTCAA
1 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAA
*
35695000 AATGAAATAATTTTTTGCGCAAACAAAAAAT
66 AATGAAATAATTTTTTGCGAAAACAAAAAAT
35695031 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAA
1 AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAA
35695096 AATGAAATAATTTTTTGC
66 AATGAAATAATTTTTTGC
35695114 AGCGTTTTTA
Statistics
Matches: 166, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
96 86 0.52
97 1 0.01
100 3 0.02
108 1 0.01
109 75 0.45
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (96 bp):
AAATCAATTTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAA
AATGAAATAATTTTTTGCGAAAACAAAAAAT
Found at i:35695008 original size:49 final size:49
Alignment explanation
Indices: 35694955--35695105 Score: 121
Period size: 49 Copynumber: 3.1 Consensus size: 49
35694945 ATAAAATACA
*
35694955 AAATAAAAAAATTTTAGCATAACAAAACGGCGTCATTTTGTTCAAAATG
1 AAATAAAAAATTTTTAGCATAACAAAACGGCGTCATTTTGTTCAAAATG
* * ***** * * ** **
35695004 AAAT---AATTTTTTGCGCA-AACAAAAAATAAATCAATTTATAAAAAACA
1 AAATAAAAAATTTTT-AGCATAAC-AAAACGGCGTCATTTTGTTCAAAATG
*
35695051 AAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATG
1 AAATAAAAAATTTTTAGCATAACAAAACGGCGTCATTTTGTTCAAAATG
35695100 AAATAA
1 AAATAA
35695106 TTTTTTGCAG
Statistics
Matches: 68, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
46 9 0.13
47 22 0.32
49 28 0.41
50 9 0.13
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.28
Consensus pattern (49 bp):
AAATAAAAAATTTTTAGCATAACAAAACGGCGTCATTTTGTTCAAAATG
Found at i:35695281 original size:108 final size:108
Alignment explanation
Indices: 35695161--35695357 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 108
35695151 AAAACGCCGT
* *
35695161 AAAAAATAAATCAATTTATAAAAAACAAAATAAAAATTTTT-TGATAAGAAGAATGGCATCATTT
1 AAAAAATAAATCAATTTATAAAAAACAAAATAAAAATTTTTATCATAAGAA-AACGGCATCATTT
*
35695225 TGTTCAAAATGAAATAATTTTTTGCACATAAAAACGCCGCAAAC
65 TATTCAAAATGAAATAATTTTTTGCACATAAAAACGCCGCAAAC
* ** *
35695269 AAAAAATAAATCAATTTATAAAAAATAAAATAAAAATTTTTATCATAAGAAAACGGTGTTATTTT
1 AAAAAATAAATCAATTTATAAAAAACAAAATAAAAATTTTTATCATAAGAAAACGGCATCATTTT
35695334 ATTCAAAATGAAATAATTTTTTGC
66 ATTCAAAATGAAATAATTTTTTGC
35695358 GACGTTTTTG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 73 0.90
109 8 0.10
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (108 bp):
AAAAAATAAATCAATTTATAAAAAACAAAATAAAAATTTTTATCATAAGAAAACGGCATCATTTT
ATTCAAAATGAAATAATTTTTTGCACATAAAAACGCCGCAAAC
Found at i:35706324 original size:43 final size:43
Alignment explanation
Indices: 35706272--35706624 Score: 378
Period size: 43 Copynumber: 8.3 Consensus size: 43
35706262 GATATGTTTT
* **
35706272 TAGCGGCGTTTGTTGGAAAAGCGTCGCTAAAGGTTTTGATCTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * * *
35706315 TAGTGGCGTTTGTGGGAAATGCGCCGCTAAAGGTCTTGATTTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* ** * * *
35706358 TAGCGGCGTTTG-TGGGAAATTGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * *
35706400 TAGCGGCGTTT-TTGTAAAAAGCGTCGGTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTTG-GAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
35706443 TAGCGGCATTTG-T-GAAAAACTGCCGCTAAAAGTCCTGATCTA
1 TAGCGGCGTTTGTTGGAAAAGC-GCCGCTAAAGGTCCTGATCTA
*
35706485 TAGCGGCGTTTG-TGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
1 TAGCGGCGTTTGTTGG-AAAAGCGCCGCTAAAGGTCCTGATCTA
*
35706528 TAGCGGCGTTTG-TGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
1 TAGCGGCGTTTGTTGG-AAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
35706571 TAGCGGCGTTTGTTGTATAAGCGCCGCTAAAGGTCATGA-CTTA
1 TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGATC-TA
35706614 TAGCGGCGTTT
1 TAGCGGCGTTT
35706625 TTAGAAATAA
Statistics
Matches: 262, Mismatches: 40, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
41 5 0.02
42 65 0.25
43 185 0.71
44 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:35706431 original size:85 final size:84
Alignment explanation
Indices: 35706272--35706624 Score: 363
Period size: 85 Copynumber: 4.1 Consensus size: 84
35706262 GATATGTTTT
* ** * * *
35706272 TAGCGGCGTTTGTTGGAAAA-GCGTCGCTAAAGGTTTTGATCTATAGTGGCGTTTGTGGGAAATG
1 TAGCGGCGTTTG-TGGAAAATGC--CGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGAAAAAG
*
35706336 CGCCGCTAAAGGTCTTGATTTA
63 CGCCGCTAAAGGTCTTGATCTA
* * * * *
35706358 TAGCGGCGTTTGTGGGAAATTGCCGCTAAAGATCTTGAGCTATAGCGGCGTTTTTGTAAAAAGCG
1 TAGCGGCGTTTGT-GGAAAATGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGAAAAAGCG
* *
35706423 TCGGTAAAGGT-TCTGATCTA
65 CCGCTAAAGGTCT-TGATCTA
* *
35706443 TAGCGGCATTTGTGAAAAACTGCCGCTAAA-AGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGC
1 TAGCGGCGTTTGTGGAAAA-TGCCGCTAAAGA-TCCTGATCTATAGCGGCGTTTGTGGAAAAAGC
**
35706507 GCCGCTAAAGGTCCCGATCTA
64 GCCGCTAAAGGTCTTGATCTA
* * * * * *
35706528 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTATAGCGGCGTTTGTTGTATAAGC
1 TAGCGGCGTTTGTGG-AAAA-TGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGAAAAAGC
*
35706593 GCCGCTAAAGGTCATGA-CTTA
64 GCCGCTAAAGGTCTTGATC-TA
35706614 TAGCGGCGTTT
1 TAGCGGCGTTT
35706625 TTAGAAATAA
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
84 6 0.03
85 130 0.58
86 86 0.38
87 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (84 bp):
TAGCGGCGTTTGTGGAAAATGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGC
CGCTAAAGGTCTTGATCTA
Found at i:35706511 original size:128 final size:126
Alignment explanation
Indices: 35706272--35706624 Score: 388
Period size: 128 Copynumber: 2.8 Consensus size: 126
35706262 GATATGTTTT
* * * **
35706272 TAGCGGCGTTTGTTGGAAAAGCGTCGCTAAAGGTTTTGATCTATAGTGGCGTTTGTGGGAAA-TG
1 TAGCGGCGTTT-TTGAAAAAGCGTCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGAAAAACT-
* * * ** **
35706336 CGCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGTGGGAAATTGCCGCTAAAGATCTTGAGCTA
64 -GCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
* *
35706400 TAGCGGCGTTTTTGTAAAAAGCGTCGGTAAAGGTTCTGATCTATAGCGGCATTTGTGAAAAACTG
1 TAGCGGCGTTTTTG-AAAAAGCGTCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGAAAAACTG
* * * *
35706465 CCGCTAAAAGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTA
65 CCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGATCCCGAGCTA
* * * * * *
35706528 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCGATCTATAGCGGCGTTTGTTGTATAAGC
1 TAGCGGCGTTT-TTGAAAAAGCGTCGCTAAAGGTTCTGATCTATAGCGGCGTTTG-TG-AAAAAC
35706593 -GCCGCTAAAGGTCATGA-CTTATAGCGGCGTTT
63 TGCCGCTAAAGGTCATGATC-TATAGCGGCGTTT
35706625 TTAGAAATAA
Statistics
Matches: 191, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
127 36 0.19
128 118 0.62
129 33 0.17
130 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (126 bp):
TAGCGGCGTTTTTGAAAAAGCGTCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGAAAAACTGC
CGCTAAAGGTCATGATCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGATCCCGAGCTA
Found at i:35707180 original size:40 final size:40
Alignment explanation
Indices: 35707136--35707265 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
35707126 GGAAATTAAA
*
35707136 GGGAAAAATAAAGTGAATCGGGGTAGGGGAGAAATGGTTT
1 GGGAAAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTT
** ** * * *
35707176 GGGAAAAATAAAAGAGCTGTC-GATTTGGGGA-AATTGG--G
1 GGGAAAAAT-AAAGAG-AATCGGGGTAGGGGAGAAATGGTTT
*
35707214 GGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTT
1 GGGAAAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTT
35707254 GGGAAAAATAAA
1 GGGAAAAATAAA
35707266 ATGGGGAAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
36 2 0.03
37 12 0.18
38 14 0.21
40 26 0.38
41 12 0.18
42 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.38, T:0.18
Consensus pattern (40 bp):
GGGAAAAATAAAGAGAATCGGGGTAGGGGAGAAATGGTTT
Found at i:35707247 original size:78 final size:78
Alignment explanation
Indices: 35707118--35707266 Score: 262
Period size: 78 Copynumber: 1.9 Consensus size: 78
35707108 AGAGGGTTGC
*
35707118 CGATTTGGGGAAATTAAAGGGAAAAATAAAGTGAATCGGGGTAGGGGAGAAATGGTTTGGGAAAA
1 CGATTTGGGGAAATTAAAGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAAAA
35707183 ATAAAAGAGCTGT
66 ATAAAAGAGCTGT
***
35707196 CGATTTGGGGAAATTGGGGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAAAA
1 CGATTTGGGGAAATTAAAGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAAAA
35707261 ATAAAA
66 ATAAAA
35707267 TGGGGAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.19
Consensus pattern (78 bp):
CGATTTGGGGAAATTAAAGGGAAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAAAA
ATAAAAGAGCTGT
Found at i:35708079 original size:39 final size:38
Alignment explanation
Indices: 35708027--35708100 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
35708017 TAACCCCTAT
* *
35708027 CCCCTAAACCTTAAATCATAAACCCCTAACCCTTAAGTA
1 CCCCTAAACCTTAAACCATAAACCCC-AACACTTAAGTA
* *
35708066 CCCCTAACCCTTAAACCTTAAACCCCAACACTTAA
1 CCCCTAAACCTTAAACCATAAACCCCAACACTTAA
35708101 ACCATAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.22
Consensus pattern (38 bp):
CCCCTAAACCTTAAACCATAAACCCCAACACTTAAGTA
Found at i:35708084 original size:24 final size:21
Alignment explanation
Indices: 35708047--35708110 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
35708037 TTAAATCATA
* *
35708047 AACCCCTAACCCTTAAGTACCCC
1 AACCCTTAAACCTTAA--ACCCC
35708070 TAACCCTTAAACCTTAAACCCC
1 -AACCCTTAAACCTTAAACCCC
* *
35708092 AACACTTAAACCATAAACC
1 AACCCTTAAACCTTAAACC
35708111 ATAATCCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.47
22 5 0.14
24 14 0.39
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.19
Consensus pattern (21 bp):
AACCCTTAAACCTTAAACCCC
Found at i:35708101 original size:21 final size:22
Alignment explanation
Indices: 35708065--35708110 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
35708055 ACCCTTAAGT
* *
35708065 ACCCCTAACCCTTAAACCTTAA
1 ACCCCTAACACTTAAACCATAA
35708087 ACCCC-AACACTTAAACCATAA
1 ACCCCTAACACTTAAACCATAA
35708108 ACC
1 ACC
35708111 ATAATCCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (22 bp):
ACCCCTAACACTTAAACCATAA
Found at i:35708137 original size:15 final size:15
Alignment explanation
Indices: 35708102--35708139 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35708092 AACACTTAAA
35708102 CCATAAAC-CATAAT
1 CCATAAACTCATAAT
*
35708116 CCCTAAACTCATAAT
1 CCATAAACTCATAAT
*
35708131 TCATAAACT
1 CCATAAACT
35708140 TTAAGATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
CCATAAACTCATAAT
Found at i:35708267 original size:7 final size:7
Alignment explanation
Indices: 35708255--35708376 Score: 68
Period size: 7 Copynumber: 17.0 Consensus size: 7
35708245 ACTAATTAAT
35708255 CTAAACC
1 CTAAACC
35708262 CTAAACCC
1 CTAAA-CC
*
35708270 CTAACCC
1 CTAAACC
35708277 CTAAACC
1 CTAAACC
* * *
35708284 ATGAATC
1 CTAAACC
*
35708291 ATAAACC
1 CTAAACC
*
35708298 CTTAACAC
1 CTAAAC-C
*
35708306 CTAACCC
1 CTAAACC
35708313 CTAAACC
1 CTAAACC
*
35708320 TTAAACTC
1 CTAAAC-C
35708328 C--AACC
1 CTAAACC
35708333 CTTAAACC
1 C-TAAACC
*
35708341 ATAAACC
1 CTAAACC
* *
35708348 ATAATCC
1 CTAAACC
35708355 CTAAACC
1 CTAAACC
*
35708362 CATAATCC
1 C-TAAACC
*
35708370 ATAAACC
1 CTAAACC
35708377 TTAAGATAGT
Statistics
Matches: 87, Mismatches: 21, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 61 0.70
8 21 0.24
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:35708309 original size:36 final size:35
Alignment explanation
Indices: 35708252--35708319 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
35708242 AACACTAATT
*
35708252 AATCTAAACCCTAAACCCCTAACCCCTAAACCATG
1 AATCTAAACCCTAAACACCTAACCCCTAAACCATG
*
35708287 AATCATAAACCCTTAACACCTAACCCCTAAACC
1 AATC-TAAACCCTAAACACCTAACCCCTAAACC
35708320 TTAAACTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.41, C:0.40, G:0.01, T:0.18
Consensus pattern (35 bp):
AATCTAAACCCTAAACACCTAACCCCTAAACCATG
Found at i:35708364 original size:15 final size:15
Alignment explanation
Indices: 35708329--35708376 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
35708319 CTTAAACTCC
* *
35708329 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
35708344 AA-CCATAATCCCTA
1 AACCCATAATCCATA
35708358 AACCCATAATCCATA
1 AACCCATAATCCATA
35708373 AACC
1 AACC
35708377 TTAAGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:35708762 original size:41 final size:41
Alignment explanation
Indices: 35708708--35708923 Score: 263
Period size: 41 Copynumber: 5.3 Consensus size: 41
35708698 ATAAAATGTT
* * *
35708708 TAAAGCACAGAGCATTAGCGACGCTTTTTCAAAAATGCCAC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
35708749 TATAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGTCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* * *
35708790 TAAAGCACCAAGCTTTAGCGGCACTTTTTCAAAAATGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* * **
35708831 TAAAGTC-TCGAGCATTAGCGGCGCCTTTTCAAAAGCGCCGC
1 TAAAG-CACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* * *
35708872 TAAAGCCCCGAGCATTAGTGGCGCTTTTTCAAAAACGCCGC
1 TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
* *
35708913 TGAAGCCCCGA
1 TAAAGCACCGA
35708924 AAGGTCAGAA
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 149 0.99
42 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
TAAAGCACCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGC
Found at i:35720162 original size:21 final size:22
Alignment explanation
Indices: 35720115--35720162 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
35720105 TTAAAAATAG
*
35720115 ATATATTTTAAATTAATTATAT
1 ATATATTTTAAAATAATTATAT
*
35720137 TTATA-TTTAAAATAATTGAT-T
1 ATATATTTTAAAATAATT-ATAT
35720158 ATATA
1 ATATA
35720163 AACTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATTTTAAAATAATTATAT
Found at i:35732032 original size:30 final size:30
Alignment explanation
Indices: 35731998--35732054 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
35731988 CATAGCAGTA
*
35731998 TGTCACACACGGCTGAGAAACACGCCCATG
1 TGTCACACACGGCTAAGAAACACGCCCATG
*
35732028 TGTCACACACGGCTAAGACACACGCCC
1 TGTCACACACGGCTAAGAAACACGCCC
35732055 GTGTCTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.37, G:0.21, T:0.12
Consensus pattern (30 bp):
TGTCACACACGGCTAAGAAACACGCCCATG
Found at i:35736618 original size:50 final size:50
Alignment explanation
Indices: 35736560--35736832 Score: 411
Period size: 50 Copynumber: 5.5 Consensus size: 50
35736550 ATTGAAATTC
35736560 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
*
35736610 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
*
35736660 TGAGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
* * * * * *
35736710 TAAGAGGTCTCATGTAAGACCATGTCTAGGACATAGTGTTGGCACTGAGA
1 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
* * * * *
35736760 TAAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATA
1 TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
**
35736810 TGAGAACTCCCATGTAAGACCAT
1 TGAGAGGTCCCATGTAAGACCAT
35736833 ATCTAGGATA
Statistics
Matches: 200, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 200 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
Found at i:35737819 original size:25 final size:25
Alignment explanation
Indices: 35737791--35737838 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
35737781 GGAGTTTAGC
35737791 GTGCTCTCTGATTATTAGCACATCG
1 GTGCTCTCTGATTATTAGCACATCG
35737816 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
35737839 TTATGTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCG
Found at i:35745722 original size:25 final size:26
Alignment explanation
Indices: 35745694--35745743 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
35745684 ATTGTTAAGG
* *
35745694 TTAATAAGTAGGTTAAA-AAGGTAAT
1 TTAATAAGTAAGTAAAATAAGGTAAT
*
35745719 TTAATAATTAAGTAAAATAAGGTAA
1 TTAATAAGTAAGTAAAATAAGGTAA
35745744 AAATTTAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (26 bp):
TTAATAAGTAAGTAAAATAAGGTAAT
Found at i:35759806 original size:24 final size:24
Alignment explanation
Indices: 35759716--35759808 Score: 123
Period size: 24 Copynumber: 3.9 Consensus size: 24
35759706 TTTACTGCAA
*
35759716 TATTGAGTGGCTTGACCCCAATGC
1 TATTGAGTGGCTTGACCACAATGC
* * *
35759740 TATTGAGTAGCTTGCCCAGAATGC
1 TATTGAGTGGCTTGACCACAATGC
* *
35759764 TATTGAGTGGCTTGGCCACAATGT
1 TATTGAGTGGCTTGACCACAATGC
*
35759788 TATTGAGTGGTTTGACCACAA
1 TATTGAGTGGCTTGACCACAA
35759809 AGATGCAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGC
Found at i:35770270 original size:22 final size:25
Alignment explanation
Indices: 35770218--35770267 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35770208 AATTGCTATT
35770218 TGAATTATTGAACAACAATGGATTA
1 TGAATTATTGAACAACAATGGATTA
35770243 TGAATTATTGAACAACAATGGATTA
1 TGAATTATTGAACAACAATGGATTA
35770268 ATTTACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
TGAATTATTGAACAACAATGGATTA
Found at i:35775226 original size:41 final size:40
Alignment explanation
Indices: 35775119--35775273 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 40
35775109 GGCTCGTACA
* * ** *
35775119 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCACATATCG
1 ATGCCAA-GTCCCAGACATGGTCTTACA-CAAATCAAATA-CG
* *
35775162 ATGCCACAGTCCCAGATAGGGTCTTACACAAATCAAATACG
1 ATGCCA-AGTCCCAGACATGGTCTTACACAAATCAAATACG
* * ** *
35775203 ATGCCAATGTCCCAAACATGGTCTTATACGTATACACAATTCG
1 ATGCCAA-GTCCCAGACATGGTCTTACACAAAT-CA-AATACG
*
35775246 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAA-GTCCCAGACATGGTCTTACA
35775274 TGAAAATACA
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
40 1 0.01
41 27 0.30
42 10 0.11
43 51 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (40 bp):
ATGCCAAGTCCCAGACATGGTCTTACACAAATCAAATACG
Found at i:35783023 original size:88 final size:84
Alignment explanation
Indices: 35782864--35783077 Score: 239
Period size: 88 Copynumber: 2.5 Consensus size: 84
35782854 CATAAGGGTC
** * * ** * **
35782864 TAAAAAATCCTCAAATTTTTTCAAAAAAAAAATTAAGTCCCTCTTTTTTTTTTACTCAATTGAGC
1 TAAAAAAGACTCAAACTTCTTCAAAAAAGCAATTAAG-CCCTCTTTTGTTTCCACTCAATTGAGC
35782929 ACTTGAACTTTCAAAATGCA
65 ACTTGAACTTTCAAAATGCA
* *
35782949 TAAAAAAGGCTATCAAACTTCTTCAAGAAAGCAATTAAGACCCTGCTTTTGTTTCCACTCAATTG
1 TAAAAAAGAC--TCAAACTTCTTCAAAAAAGCAATTAAG-CCCT-CTTTTGTTTCCACTCAATTG
* *
35783014 AGTATTTGAACTTTCAAAATGCA
62 AGCACTTGAACTTTCAAAATGCA
* * *
35783037 TAAAAAAGACTCAAATTTTTTCAAAAAAGCAAATAAGCCCT
1 TAAAAAAGACTCAAACTTCTTCAAAAAAGCAATTAAGCCCT
35783078 TACTCTTATT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
85 12 0.11
86 23 0.21
87 26 0.24
88 47 0.44
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (84 bp):
TAAAAAAGACTCAAACTTCTTCAAAAAAGCAATTAAGCCCTCTTTTGTTTCCACTCAATTGAGCA
CTTGAACTTTCAAAATGCA
Found at i:35783128 original size:30 final size:30
Alignment explanation
Indices: 35783093--35783151 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
35783083 TTATTAAAAA
35783093 TTAGAAAAATAATTAA-AATAATAATAAATT
1 TTAGAAAAATAATTAATAATAATAA-AAATT
* *
35783123 TTAGAAAAATTATTAATTATAATAAAAAT
1 TTAGAAAAATAATTAATAATAATAAAAAT
35783152 ATAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
TTAGAAAAATAATTAATAATAATAAAAATT
Found at i:35783431 original size:10 final size:9
Alignment explanation
Indices: 35783416--35783521 Score: 54
Period size: 9 Copynumber: 11.3 Consensus size: 9
35783406 TTCTTACTAC
35783416 TTTATAAAAT
1 TTTAT-AAAT
*
35783426 TTTATAATT
1 TTTATAAAT
* *
35783435 TTTTTATAT
1 TTTATAAAT
*
35783444 TTCTATATAT
1 TT-TATAAAT
*
35783454 TTTATAATT
1 TTTATAAAT
35783463 TTTATAAAAT
1 TTTAT-AAAT
* *
35783473 TTTACAATT
1 TTTATAAAT
* *
35783482 TTTATTACT
1 TTTATAAAT
*
35783491 TTT-TACGATT
1 TTTATA--AAT
35783501 TTTATAAAT
1 TTTATAAAT
35783510 TTT-TAATAT
1 TTTATAA-AT
35783519 TTT
1 TTT
35783522 TTTCTAATAT
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
8 4 0.05
9 43 0.58
10 25 0.34
11 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTATAAAT
Found at i:35783461 original size:28 final size:28
Alignment explanation
Indices: 35783377--35783465 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 28
35783367 TTTTACGAAA
* *
35783377 TTTATATTTCTTTACATTTTGTATAATTTT
1 TTTATATTTCTATA-AATTT-TATAATTTT
*
35783407 TCTTACTACTT-TATAAAATTTTATAATTTT
1 T-TTA-TATTTCTAT-AAATTTTATAATTTT
*
35783437 TTTATATTTCTATATATTTTATAATTTT
1 TTTATATTTCTATAAATTTTATAATTTT
35783465 T
1 T
35783466 ATAAAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
28 19 0.38
29 6 0.12
30 11 0.22
31 9 0.18
32 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATATTTCTATAAATTTTATAATTTT
Found at i:35783504 original size:47 final size:48
Alignment explanation
Indices: 35783416--35783514 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 48
35783406 TTCTTACTAC
* *
35783416 TTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTAT-AATT
1 TTTATAAAATTTTACAATTTTTTTATATTTCTAGATATTTTATAAATT
35783463 TTTATAAAATTTTACAATTTTTATTACT-TTT-TACGAT-TTTTATAAATT
1 TTTATAAAATTTTACAATTTTT-TTA-TATTTCTA-GATATTTTATAAATT
35783511 TTTA
1 TTTA
35783515 ATATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
47 29 0.63
48 16 0.35
49 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (48 bp):
TTTATAAAATTTTACAATTTTTTTATATTTCTAGATATTTTATAAATT
Found at i:35783520 original size:19 final size:19
Alignment explanation
Indices: 35783425--35783522 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 19
35783415 CTTTATAAAA
* *
35783425 TTTTATAATTTTTTTATAT
1 TTTTATAAATTTTTAATAT
* *
35783444 TTCTATATA-TTTT-ATAAT
1 TTTTATAAATTTTTAAT-AT
*
35783462 TTTTATAAAATTTTACA-AT
1 TTTTATAAATTTTTA-ATAT
* * **
35783481 TTTTATTACTTTTTACGAT
1 TTTTATAAATTTTTAATAT
35783500 TTTTATAAATTTTTAATAT
1 TTTTATAAATTTTTAATAT
35783519 TTTT
1 TTTT
35783523 TTCTAATATT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 45 0.74
21 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTTTAATAT
Found at i:35783758 original size:89 final size:88
Alignment explanation
Indices: 35783620--35783836 Score: 251
Period size: 89 Copynumber: 2.4 Consensus size: 88
35783610 AAGAAGGGGT
* * *
35783620 TTAATTGTTTTTTTTCTTAAGTTTGAGGGTCTTTTTAATGCATTTTGAAAGTTCAAATACCCAAT
1 TTAATTGTTTTTTTTCTAAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAGTTCAAATACCCAAA
35783685 TAG-GTGCAAAAAAAAGTAGGAAC
66 T-GTGTGCAAAAAAAAGTAGGAAC
* * *
35783708 TTAATTGCTTTTTTTT-TAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTACCCA
1 TTAATTG-TTTTTTTTCTAAA-GTTTGAGGGCCTTTTTAATGCATTTTGAAAGTTCAAATACCCA
**
35783772 AATGTGTGCAAAAAAAAAGAGTAGGGGC
64 AATGTGTGC--AAAAAAA-AGTAGGAAC
* **
35783800 TTAATTATTTTTTTTGAAAAAGTTTGAGGG-CTTTTTA
1 TTAATTGTTTTTTTT-CTAAAGTTTGAGGGCCTTTTTA
35783837 CACCCTTAAG
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
88 11 0.10
89 53 0.48
91 21 0.19
92 22 0.20
93 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (88 bp):
TTAATTGTTTTTTTTCTAAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAGTTCAAATACCCAAA
TGTGTGCAAAAAAAAGTAGGAAC
Found at i:35791740 original size:50 final size:50
Alignment explanation
Indices: 35791634--35792055 Score: 556
Period size: 50 Copynumber: 8.3 Consensus size: 50
35791624 GGGAATGAGA
* * * * *
35791634 TCCCATGTAAGATCATTTCTGGGACATGACATTGGCATCATTGAGATTATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--TGAG---ATGAGAGG
*
35791690 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* *
35791740 TCCCATGTAAGGCAATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
** *
35791790 TCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* *
35791840 TCCCATGTAAGGCAATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
** *
35791890 TCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
* *
35791940 TCCCATGTAAGGCAATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
** * * * **
35791990 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
*
35792040 TCCCATGTAATACCAT
1 TCCCATGTAAGACCAT
35792056 ATATGGGGTA
Statistics
Matches: 325, Mismatches: 41, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
50 288 0.89
53 3 0.01
55 1 0.00
56 33 0.10
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
Found at i:35792076 original size:100 final size:100
Alignment explanation
Indices: 35791686--35792049 Score: 656
Period size: 100 Copynumber: 3.6 Consensus size: 100
35791676 GAGATTATGG
**
35791686 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
35791751 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
66 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
35791786 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
35791851 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
66 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
35791886 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
35791951 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
66 GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
* * * * **
35791986 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACTCCCATGTAA
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
35792050 TACCATATAT
Statistics
Matches: 256, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 256 1.00
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.20
Consensus pattern (100 bp):
GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
GCAATGTCTGGGACATGGCGTTGGCACTGAGATGA
Found at i:35792342 original size:12 final size:12
Alignment explanation
Indices: 35792325--35792375 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
35792315 ATGAGTTATT
35792325 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
35792337 TAAGTAAACAAG
1 TAAGTAAGCAAG
35792349 TAAGTGAA-CAAG
1 TAAGT-AAGCAAG
* *
35792361 TAAGTGAGTAAG
1 TAAGTAAGCAAG
35792373 TAA
1 TAA
35792376 AGAAGCGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.91
13 2 0.06
ACGTcount: A:0.51, C:0.06, G:0.24, T:0.20
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:35795509 original size:29 final size:30
Alignment explanation
Indices: 35795472--35795532 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
35795462 GCTTTTTGAA
* *
35795472 AATATTTACAAAAA-AGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAATCAAATTTTT
*
35795501 AATATTTACAAAAAGAGTAATCAAATTTTT
1 AATATTTACAAAAAGAGGAATCAAATTTTT
35795531 AA
1 AA
35795533 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAATCAAATTTTT
Found at i:35810830 original size:10 final size:10
Alignment explanation
Indices: 35810815--35810863 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
35810805 TTGGGTTAAG
35810815 ATTGAGCTGA
1 ATTGAGCTGA
35810825 ATTGAGCTCGA
1 ATTGAGCT-GA
35810836 A-TGAGCTGA
1 ATTGAGCTGA
* *
35810845 CTTGAGCTCA
1 ATTGAGCTGA
*
35810855 AGTGAGCTG
1 ATTGAGCTG
35810864 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:35810840 original size:20 final size:20
Alignment explanation
Indices: 35810817--35810863 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
35810807 GGGTTAAGAT
35810817 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
35810837 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
35810857 TGAGCTG
1 TGAGCTG
35810864 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:35812867 original size:15 final size:15
Alignment explanation
Indices: 35812844--35812890 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
35812834 TTTTGAAATC
35812844 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
35812859 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
35812874 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
35812890 T
1 T
35812891 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:35815547 original size:10 final size:10
Alignment explanation
Indices: 35815532--35815580 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
35815522 TTGGGTTAAG
35815532 ATTGAGCTGA
1 ATTGAGCTGA
35815542 ATTGAGCTCGA
1 ATTGAGCT-GA
35815553 A-TGAGCTGA
1 ATTGAGCTGA
* *
35815562 CTTGAGCTCA
1 ATTGAGCTGA
*
35815572 AGTGAGCTG
1 ATTGAGCTG
35815581 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:35815557 original size:20 final size:20
Alignment explanation
Indices: 35815534--35815580 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
35815524 GGGTTAAGAT
35815534 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
35815554 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
35815574 TGAGCTG
1 TGAGCTG
35815581 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:35825156 original size:81 final size:81
Alignment explanation
Indices: 35825029--35825263 Score: 393
Period size: 81 Copynumber: 2.9 Consensus size: 81
35825019 TAGGTGAACG
35825029 TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATCAGCTACGTCCTTCT
1 TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATCAGCTACGTCCTTCT
35825094 TCAACCCAGGC-GCACA
66 TCAACCCAGGCAG-ACA
* * * *
35825110 TTGATGCTTAGCTTTAACCCTTTGGAAAACTAAAAAAT-TACTAACAAAATTAGCTACGTCCTTC
1 TTGATGCTTAGCTTTAACCCTTTGGCAAACT-AAACATCTACCAACAAAATCAGCTACGTCCTTC
35825174 TTCAACCCAGGCAGACA
65 TTCAACCCAGGCAGACA
*
35825191 TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAATAAAATCAGCTACGTCCTTCT
1 TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATCAGCTACGTCCTTCT
35825256 TCAACCCA
66 TCAACCCA
35825264 AGCCACCAAT
Statistics
Matches: 142, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
80 5 0.04
81 131 0.92
82 6 0.04
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (81 bp):
TTGATGCTTAGCTTTAACCCTTTGGCAAACTAAACATCTACCAACAAAATCAGCTACGTCCTTCT
TCAACCCAGGCAGACA
Found at i:35831153 original size:137 final size:137
Alignment explanation
Indices: 35830978--35831252 Score: 550
Period size: 137 Copynumber: 2.0 Consensus size: 137
35830968 ACATGTTAGC
35830978 ATGATGAAAGTAAGTTGATTTGATTAATATAATTATCCTAGCCCATTTAATGTTGAATGTTTTTT
1 ATGATGAAAGTAAGTTGATTTGATTAATATAATTATCCTAGCCCATTTAATGTTGAATGTTTTTT
35831043 TCGCTAAAGCCTTCATTCATACATTTAGGTAAATTGCATTTAGATTAGAAATTGCATTAGGGATC
66 TCGCTAAAGCCTTCATTCATACATTTAGGTAAATTGCATTTAGATTAGAAATTGCATTAGGGATC
35831108 ACACTTG
131 ACACTTG
35831115 ATGATGAAAGTAAGTTGATTTGATTAATATAATTATCCTAGCCCATTTAATGTTGAATGTTTTTT
1 ATGATGAAAGTAAGTTGATTTGATTAATATAATTATCCTAGCCCATTTAATGTTGAATGTTTTTT
35831180 TCGCTAAAGCCTTCATTCATACATTTAGGTAAATTGCATTTAGATTAGAAATTGCATTAGGGATC
66 TCGCTAAAGCCTTCATTCATACATTTAGGTAAATTGCATTTAGATTAGAAATTGCATTAGGGATC
35831245 ACACTTG
131 ACACTTG
35831252 A
1 A
35831253 ATTTAATTAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (137 bp):
ATGATGAAAGTAAGTTGATTTGATTAATATAATTATCCTAGCCCATTTAATGTTGAATGTTTTTT
TCGCTAAAGCCTTCATTCATACATTTAGGTAAATTGCATTTAGATTAGAAATTGCATTAGGGATC
ACACTTG
Found at i:35833015 original size:43 final size:43
Alignment explanation
Indices: 35832948--35833256 Score: 273
Period size: 43 Copynumber: 7.3 Consensus size: 43
35832938 TTTTAGAAAT
* *
35832948 AAACACCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
35832991 AAATGTCGCTATATATCAAGACCTTTAGCGGTGCTTTTTTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
35833034 AAACGCCGCTATAGATCAGGACTTTTAGCGGTGCTTTT-ACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* ** *
35833076 -AACGCCGCTATAGGTCAAGACCTTTAATGGCTCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * ** *
35833118 AAACGCCGTTATAGATCATGACTTTTAGCAGCACTTTTTGCTC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * * *
35833161 AAACACCGCTATAAATCATGACTTTTAACGACGCTTCTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * **
35833204 AAACGCCGCTATAGA-CATGACTTTTAGCGGTGCTTTTTTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
35833246 AAACGCCGCTA
1 AAACGCCGCTA
35833257 AAAGTGCCAT
Statistics
Matches: 212, Mismatches: 52, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
41 30 0.14
42 38 0.18
43 144 0.68
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:35833184 original size:127 final size:127
Alignment explanation
Indices: 35832953--35833256 Score: 313
Period size: 127 Copynumber: 2.4 Consensus size: 127
35832943 GAAATAAACA
* * * * *
35832953 CCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAATGTCGCTATATATCAAGACCTTTA
1 CCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTA
* ** * * *
35833018 GCGGTGCTTTTTTCACAAACGCCGCTATAGATCAGGACTTTTAGCGGTGCTTTTACACAACG
66 GCAGCACTTTTTGCACAAACACCGCTATAAATCAGGACTTTTAGCGGTGCTTTTACACAACG
* * * * * *
35833080 CCGCTATAGGTCAAGACCTTTAATGGCTCTTTTCCCACAAACGCCGTTATAGATCATGACTTTTA
1 CCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTA
* * * ** **
35833145 GCAGCACTTTTTGCTCAAACACCGCTATAAATCATGACTTTTAACGACGCTTCTCCCACAAACG
66 GCAGCACTTTTTGCACAAACACCGCTATAAATCAGGACTTTTAGCGGTGCTT-TTACAC-AACG
* * * * **
35833209 CCGCTATAGA-CATGACTTTTAGCGGTGCTTTTTTCACAAACGCCGCTA
1 CCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTA
35833257 AAAGTGCCAT
Statistics
Matches: 141, Mismatches: 34, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
127 95 0.67
128 33 0.23
129 13 0.09
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (127 bp):
CCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTA
GCAGCACTTTTTGCACAAACACCGCTATAAATCAGGACTTTTAGCGGTGCTTTTACACAACG
Found at i:35833242 original size:86 final size:85
Alignment explanation
Indices: 35832948--35833256 Score: 316
Period size: 86 Copynumber: 3.6 Consensus size: 85
35832938 TTTTAGAAAT
* * * * * * *
35832948 AAACACCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAATGTCGCTATATATCAAGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTT-TCACAAACGCCGCTATAAATCAAGAC
* ** * **
35833013 CTTTAGCGGTGCTTTTTTCAC
65 CTTTAACGACGCTTCTCCCAC
* * **
35833034 AAACGCCGCTATAGATCAGGACTTTTAGCGGTGCTTTTACAC-AACGCCGCTATAGGTCAAGACC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCACAAACGCCGCTATAAATCAAGACC
* * * *
35833098 TTTAATGGCTCTTTTCCCAC
66 TTTAACGACGCTTCTCCCAC
* * ** * * *
35833118 AAACGCCGTTATAGATCATGACTTTTAGCAGCACTTTTTGCTCAAACACCGCTATAAATCATGAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTT-CACAAACGCCGCTATAAATCAAGAC
*
35833183 TTTTAACGACGCTTCTCCCAC
65 CTTTAACGACGCTTCTCCCAC
35833204 AAACGCCGCTATAGA-CATGACTTTTAGCGGTGCTTTTTTCACAAACGCCGCTA
1 AAACGCCGCTATAGATCATGACTTTTAGCGGTGC-TTTTTCACAAACGCCGCTA
35833257 AAAGTGCCAT
Statistics
Matches: 183, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
84 65 0.36
85 32 0.17
86 86 0.47
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (85 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTCACAAACGCCGCTATAAATCAAGACC
TTTAACGACGCTTCTCCCAC
Found at i:35837695 original size:21 final size:21
Alignment explanation
Indices: 35837671--35837735 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
35837661 AACCCTAAAT
*
35837671 CCCTAACTCTTAAC-CCCAGAC
1 CCCTAACCCTTAACTCCCA-AC
* *
35837692 CCCTAGCCCTTAACTCCTAAC
1 CCCTAACCCTTAACTCCCAAC
* * *
35837713 CCCTAAACTTTAAATCCCAAC
1 CCCTAACCCTTAACTCCCAAC
35837734 CC
1 CC
35837736 TTAAACCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.29, C:0.46, G:0.03, T:0.22
Consensus pattern (21 bp):
CCCTAACCCTTAACTCCCAAC
Found at i:35837740 original size:21 final size:21
Alignment explanation
Indices: 35837701--35837741 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35837691 CCCCTAGCCC
* *
35837701 TTAACTCCTAACCCCTAAACT
1 TTAAATCCCAACCCCTAAACT
*
35837722 TTAAATCCCAACCCTTAAAC
1 TTAAATCCCAACCCCTAAAC
35837742 CATAATCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAATCCCAACCCCTAAACT
Found at i:35838035 original size:22 final size:22
Alignment explanation
Indices: 35838005--35838046 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35837995 CTATGAATCC
*
35838005 TTAAACCCTAAATCCCTAACTA
1 TTAAACCCTAAACCCCTAACTA
*
35838027 TTAACCCCTAAACCCCTAAC
1 TTAAACCCTAAACCCCTAAC
35838047 CCCTAAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAACCCTAAACCCCTAACTA
Found at i:35838052 original size:29 final size:27
Alignment explanation
Indices: 35837976--35838048 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
35837966 TTAATCTAAA
* * *
35837976 CCCTAAACCCTAACCCGACCTATGAAT
1 CCCTAAACCCTAACCCTAACTATGAAC
* *
35838003 CCTTAAACCCTAAATCCCTAACTATTAAC
1 CCCTAAACCCT-AA-CCCTAACTATGAAC
35838032 CCCTAAACCCCTAACCC
1 CCCTAAA-CCCTAACCC
35838049 CTAAACCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 10 0.27
28 5 0.14
29 18 0.49
30 4 0.11
ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21
Consensus pattern (27 bp):
CCCTAAACCCTAACCCTAACTATGAAC
Found at i:35838068 original size:21 final size:22
Alignment explanation
Indices: 35838035--35838075 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35838025 TATTAACCCC
35838035 TAAACCCCTAACCCCTAAACCT
1 TAAACCCCTAACCCCTAAACCT
* *
35838057 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
35838076 TATAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACCT
Found at i:35838373 original size:25 final size:23
Alignment explanation
Indices: 35838328--35838374 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
35838318 TAAATAATAG
*
35838328 TATTTTAATTTTTCCATGTGTTT
1 TATTTTAATTTTTCCACGTGTTT
*
35838351 TATTTTAAATTATTTCTACGTGTT
1 TATTTT-AATT-TTTCCACGTGTT
35838375 ATTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (23 bp):
TATTTTAATTTTTCCACGTGTTT
Found at i:35838647 original size:40 final size:41
Alignment explanation
Indices: 35838466--35838658 Score: 228
Period size: 41 Copynumber: 4.7 Consensus size: 41
35838456 TAAAATGTTT
* * * *
35838466 TTAGCGGCG-TTTTTGAAAAAGCGCTGCCAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAA-CGCCGCTAAAACCCCGAGCA
** * *
35838507 TTAGCGGCGCTTTCTCAAAAACGCCATTAAAACCGCGAACA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* *
35838548 TTAGCGGCTCTTTCTCATAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* *
35838589 TTAGAGGCGGTTTCTCAAAAACGCCGCTAAAA-CCCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
35838629 TCAGCGGCACTTTTTCAAAAACGCCGCTAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAA
35838659 TGCTCAGGGC
Statistics
Matches: 128, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 33 0.26
41 86 0.67
42 9 0.07
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:35840403 original size:118 final size:118
Alignment explanation
Indices: 35840185--35840409 Score: 346
Period size: 118 Copynumber: 1.9 Consensus size: 118
35840175 TATTCTGTAC
35840185 GAATCAAATTCATATATTAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATT
1 GAATCAAATTCATATATTAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATT
* *
35840250 TTGATCAAAATTAATTAATATAATTGTTTAGATTAATAAATTCGGTAAAGTAT
66 TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
* * * *
35840303 GAATCAAATTCATATATTAATTGTATTATTTTC-AAAAGAATATTAATTTTCATGTCT-TGTATA
1 GAATCAAATTCATATATTAATTATATT-CTTGCAAAAAGAATATTAATTTCCATGTCTAT-TATA
* *
35840366 TTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATT
64 TTTTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATT
35840410 TAGTAAAATA
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
117 1 0.01
118 93 0.96
119 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (118 bp):
GAATCAAATTCATATATTAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATT
TTGATCAAAATTAATTAATATAACTATTTAGATTAATAAATTCGGTAAAGTAT
Found at i:35840452 original size:138 final size:138
Alignment explanation
Indices: 35840299--35840743 Score: 692
Period size: 138 Copynumber: 3.2 Consensus size: 138
35840289 ATTCGGTAAA
* * * *
35840299 GTATGAATCAAATTCATATATTAATTGTATTATTTTCAAAAGAATATTAATTTTCATGTCTTGTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
* * * **
35840364 TATTTTGATCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
35840429 AATATTTT
131 AATATTTT
* * * *
35840437 GTATGGATCAAATTCATATATTAATTAAATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
* *
35840502 TATTTTGACCAAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
*
35840567 CATATTTT
131 AATATTTT
* *
35840575 GTATGAATCAAATTCATATAATAATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
*
35840640 TATTTTGACCGAAATTAATTAATATAATTGTTGATATTAATAAATTCGGTAAAATATATACAATT
66 TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
*
35840705 AATATTTA
131 AATATTTT
* *
35840713 ATATGAATCAAATTCATATATTAATTCTATT
1 GTATGAATCAAATTCATATATTAATTATATT
35840744 TATGTTCTTT
Statistics
Matches: 277, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 277 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
GTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTA
TATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATT
AATATTTT
Found at i:35840534 original size:256 final size:260
Alignment explanation
Indices: 35840065--35840738 Score: 908
Period size: 256 Copynumber: 2.5 Consensus size: 260
35840055 TAGGAAAATA
* * *
35840065 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCAAAATTAGTTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
35840130 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTCTGTACGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
35840195 CATATATTAATTATATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGATCAAAA
130 CATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
35840260 TTAATTAATATAATTGTTTAGATTAATAAATTCGG-T-A-A-A-GTATGAATCAAATTCATATAT
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAA
35840320 T
260 T
* * * * *
35840321 AATTGTATTATTTTCAAAAGAATATTAATTTTCATGTCTTGTATATTTTGATCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
35840386 TATAACTATTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGGATCAAATT
66 TATAACTGTTTATATTAATAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * *
35840451 CATATATTAATTAAATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATTTTGACCAAAA
130 CATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAA
*
35840516 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATTTACAATTCATATTTTGTATGA
195 TTAATTAATATAATTGTTTAGATTAATAAATTCGG------A--T--AA-T-ATA---TGTATGA
35840581 ATCAAATTCATATAAT
245 ATCAAATTCATATAAT
* *
35840597 AATTATATTATTTCCAAAAGAATATTAATTTCCATGCCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * **
35840662 TATAATTGTTGATATTAATAAATTCGGTAAAATATATACAATTAATATTTAATATGAATCAAATT
66 TATAACTGTTTATATTAATAAATT-TGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
35840727 CATATATTAATT
130 CATATATTAATT
35840739 CTATTTATGT
Statistics
Matches: 363, Mismatches: 33, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
256 209 0.58
257 1 0.00
265 1 0.00
268 1 0.00
271 1 0.00
272 1 0.00
276 149 0.41
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (260 bp):
AATTATATTATTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTAAATTCTTGCAAAAAGAATATTAATTTCCATGTCTATTATATTTTGACCAAAAT
TAATTAATATAATTGTTTAGATTAATAAATTCGGATAATATATGTATGAATCAAATTCATATAAT
Found at i:35843047 original size:39 final size:39
Alignment explanation
Indices: 35843004--35843083 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
35842994 CCATGTTACA
* *
35843004 CATATAATCACCTAA-CATGCAAGCATATATCACAATACT
1 CATATAATCACATAATAAT-CAAGCATATATCACAATACT
* *
35843043 CATATAATCACATAATAATTAAGCATATGTCACAATACT
1 CATATAATCACATAATAATCAAGCATATATCACAATACT
35843082 CA
1 CA
35843084 AAAACACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 34 0.94
40 2 0.06
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (39 bp):
CATATAATCACATAATAATCAAGCATATATCACAATACT
Found at i:35852035 original size:45 final size:45
Alignment explanation
Indices: 35851960--35852118 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 45
35851950 TACACGGTGG
* * * * * *
35851960 ATCAGCACACAGC-ACCACCCTTACAGTCAATAGTACTCGGCGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACTCGGTGAA
*
35852004 ATCAGCACATAACAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACTC-GGTGAA
* * *
35852049 ATCAGCACATAGCAACCACCTATATAAC-CATTGGTA-TCCTGTGAA
1 ATCAGCACATAGCAACCACCTTTAT-ACTCAATGGTACT-CGGTGAA
*
35852094 ATCAGTACATAGCAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
35852119 TTTCATTAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
44 12 0.12
45 82 0.85
46 3 0.03
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATACTCAATGGTACTCGGTGAA
Found at i:35852142 original size:45 final size:45
Alignment explanation
Indices: 35852001--35852159 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 45
35851991 AGTACTCGGC
* * * *
35852001 GAAATCAGCACATAACAACCACCTTTATACTCAATGGTACCGGGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGGTATCGGGT
* * **
35852046 GAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCCTGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGGTATCGGGT
* ** **
35852091 GAAATCAGTACATAGCAACCACCTTTATTTTCATTAATATCGGGT
1 GAAATCAGCACATAGCAACCACCTTTATAATCATTGGTATCGGGT
* * *
35852136 GGAATCAGCACAAAGCATCCACCT
1 GAAATCAGCACATAGCAACCACCT
35852160 ATAATTCCAA
Statistics
Matches: 93, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (45 bp):
GAAATCAGCACATAGCAACCACCTTTATAATCATTGGTATCGGGT
Found at i:35852177 original size:90 final size:90
Alignment explanation
Indices: 35852001--35852177 Score: 203
Period size: 90 Copynumber: 2.0 Consensus size: 90
35851991 AGTACTCGGC
** *
35852001 GAAATCAGCACATAACAACCACCTTTATACTCAATGGTACCGGGTGAAATCAGCACATAGCAACC
1 GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
** *
35852066 ACCTATATAACCATTGGTATCCTGT
66 ACCTATATAACCAACGATATCCTGT
* * ** * * * *
35852091 GAAATCAGTACATAGCAACCACCTTTATTTTCATTAATATCGGGTGGAATCAGCACAAAGCATCC
1 GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
*
35852156 ACCTATA-ATTCCAACGATATCC
66 ACCTATATA-ACCAACGATATCC
35852178 GGCCTATTCC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
89 1 0.01
90 70 0.99
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (90 bp):
GAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACAAAGCAACC
ACCTATATAACCAACGATATCCTGT
Found at i:35858570 original size:20 final size:20
Alignment explanation
Indices: 35858547--35858617 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
35858537 GTAATCCTGT
35858547 ACAGAGGCACCGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* * * **
35858567 ACAGAGACATCGAAGTGTGA
1 ACAGAGGCACCGTAGTGCAA
* *
35858587 ATAGAGGCACTGTAGTGCAA
1 ACAGAGGCACCGTAGTGCAA
* *
35858607 GCAGATGCACC
1 ACAGAGGCACC
35858618 AAAGTGCAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (20 bp):
ACAGAGGCACCGTAGTGCAA
Found at i:35863065 original size:25 final size:25
Alignment explanation
Indices: 35863000--35863177 Score: 180
Period size: 25 Copynumber: 7.1 Consensus size: 25
35862990 TCATGTACAT
* *
35863000 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * *
35863025 GTATGCCCATT-TGAGCTGA-AGATCG
1 GTATGCTC-TTACGAGCT-ATAAATCG
* * *
35863050 GTATGCTCTCACGAGCTATAAACCA
1 GTATGCTCTTACGAGCTATAAATCG
35863075 GTATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* *
35863100 GTATGCTCTTACGATCTTTAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * *
35863125 TTATGCTCTTACGAGCTTTAAATCA
1 GTATGCTCTTACGAGCTATAAATCG
* * *
35863150 ATATGCTCTTACGAGTTATAAATTG
1 GTATGCTCTTACGAGCTATAAATCG
35863175 GTA
1 GTA
35863178 ACCCTAATGA
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
24 2 0.02
25 120 0.97
26 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:35863130 original size:75 final size:75
Alignment explanation
Indices: 35863000--35863177 Score: 207
Period size: 75 Copynumber: 2.4 Consensus size: 75
35862990 TCATGTACAT
* * *
35863000 GTATGCTCATACGAGCTATGAATCGGTATGCCCATTTGAGCTGAAGATCGGTATGCTCTCACGAG
1 GTATGCTCTTACGAGCTATAAATCGGTATGCCCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
35863065 CTATAAACCA
66 CTATAAACCA
* * * * *
35863075 GTATGCTCTTACGAGCTATAAATCGGTATGCTC-TTACGATCTTTAA-ATCGTTATGCTCTTACG
1 GTATGCTCTTACGAGCTATAAATCGGTATGCCCATT-CGAGC-TGAAGATCGGTATGCTCTCACG
* *
35863138 AGCTTTAAATCA
64 AGCTATAAACCA
* * *
35863150 ATATGCTCTTACGAGTTATAAATTGGTA
1 GTATGCTCTTACGAGCTATAAATCGGTA
35863178 ACCCTAATGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 2 0.02
75 83 0.94
76 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (75 bp):
GTATGCTCTTACGAGCTATAAATCGGTATGCCCATTCGAGCTGAAGATCGGTATGCTCTCACGAG
CTATAAACCA
Found at i:35863783 original size:5 final size:5
Alignment explanation
Indices: 35863775--35863800 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35863765 GAGATGGAAT
35863775 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
35863801 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:35863800 original size:26 final size:26
Alignment explanation
Indices: 35863749--35863800 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
35863739 TGAAGTTTTC
* * *
35863749 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
35863775 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
35863801 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:35864501 original size:30 final size:31
Alignment explanation
Indices: 35864445--35864504 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35864435 GGAGATGGGA
*
35864445 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
35864476 TGGGAA-GGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
35864505 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:35864737 original size:9 final size:9
Alignment explanation
Indices: 35864719--35864755 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35864709 TATAGTGTGA
35864719 TATTCGAAT
1 TATTCGAAT
*
35864728 TATTCAAAT
1 TATTCGAAT
*
35864737 TATTCGAGT
1 TATTCGAAT
35864746 TATTCGAAT
1 TATTCGAAT
35864755 T
1 T
35864756 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35873076 original size:12 final size:12
Alignment explanation
Indices: 35873061--35873127 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
35873051 TTTTACAAAC
35873061 TCTTTTTCAATT
1 TCTTTTTCAATT
*
35873073 TCTTTTTCCACTCTT
1 TCTTTTT-CA--ATT
35873088 TCTTTTTC---T
1 TCTTTTTCAATT
*
35873097 TCTCTTTCAATT
1 TCTTTTTCAATT
*
35873109 TCTTTTTCAATC
1 TCTTTTTCAATT
35873121 TCTTTTT
1 TCTTTTT
35873128 GCTTTTCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
9 8 0.18
12 25 0.56
13 2 0.04
14 1 0.02
15 9 0.20
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (12 bp):
TCTTTTTCAATT
Found at i:35873212 original size:12 final size:12
Alignment explanation
Indices: 35873170--35873211 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
35873160 TTTTCATCTT
35873170 TTTCTTTTTC-A
1 TTTCTTTTTCAA
35873181 TTTC--TTTCAA
1 TTTCTTTTTCAA
35873191 TTTCTTTTTCAA
1 TTTCTTTTTCAA
35873203 TGTTCTTTT
1 T-TTCTTTT
35873212 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:35873885 original size:19 final size:19
Alignment explanation
Indices: 35873861--35873898 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35873851 AGATAGAATA
35873861 AATAGTAAATGAATCTCAC
1 AATAGTAAATGAATCTCAC
35873880 AATAGTAAATGAATCTCAC
1 AATAGTAAATGAATCTCAC
35873899 CAATTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
AATAGTAAATGAATCTCAC
Found at i:35873909 original size:20 final size:19
Alignment explanation
Indices: 35873867--35873909 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35873857 AATAAATAGT
**
35873867 AAATGAATCTCACAATAGT
1 AAATGAATCTCACAATACA
*
35873886 AAATGAATCTCACCAATTCA
1 AAATGAATCTCA-CAATACA
35873906 AAAT
1 AAAT
35873910 CCTCACCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (19 bp):
AAATGAATCTCACAATACA
Found at i:35874267 original size:11 final size:11
Alignment explanation
Indices: 35874251--35874292 Score: 66
Period size: 12 Copynumber: 3.6 Consensus size: 11
35874241 GAACTCCCAC
35874251 TTTTTTTTTGA
1 TTTTTTTTTGA
35874262 TTTTTTTTTGAA
1 TTTTTTTTTG-A
35874274 TTTTTTTCTTGA
1 TTTTTTT-TTGA
35874286 TTTTTTT
1 TTTTTTT
35874293 AATGCTGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.34
12 16 0.55
13 3 0.10
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:35874268 original size:12 final size:12
Alignment explanation
Indices: 35874251--35874292 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
35874241 GAACTCCCAC
35874251 TTTTTTTTTGA-
1 TTTTTTTTTGAT
35874262 TTTTTTTTTGAAT
1 TTTTTTTTTG-AT
*
35874275 TTTTTTCTTGAT
1 TTTTTTTTTGAT
35874287 TTTTTT
1 TTTTTT
35874293 AATGCTGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.36
12 9 0.32
13 9 0.32
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAT
Found at i:35877863 original size:27 final size:26
Alignment explanation
Indices: 35877833--35877893 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
35877823 AATCCGTCAG
* *
35877833 GACTATCTTTGGTGGAAATTTTATCAA
1 GACTATCTTTAGTGG-AAGTTTATCAA
* * *
35877860 GACTATTTTTAGTGGAAGTTTGTGAA
1 GACTATCTTTAGTGGAAGTTTATCAA
35877886 GACTATCT
1 GACTATCT
35877894 AATATTTAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (26 bp):
GACTATCTTTAGTGGAAGTTTATCAA
Found at i:35884211 original size:55 final size:55
Alignment explanation
Indices: 35884146--35884255 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
35884136 AATAATTTAA
35884146 TTAAATTATATTACGATTAATCCTAAGGTGATGAGAAAAGATATTTTATAAAAAT
1 TTAAATTATATTACGATTAATCCTAAGGTGATGAGAAAAGATATTTTATAAAAAT
*
35884201 TTAAATTATATTACGATTAATCCTAAGGTGATGAGAAAAGCTATTTTATAAAAAT
1 TTAAATTATATTACGATTAATCCTAAGGTGATGAGAAAAGATATTTTATAAAAAT
35884256 AAGAAAAACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (55 bp):
TTAAATTATATTACGATTAATCCTAAGGTGATGAGAAAAGATATTTTATAAAAAT
Found at i:35888760 original size:17 final size:16
Alignment explanation
Indices: 35888735--35888768 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
35888725 TTTAACTCTT
*
35888735 TGAGTTATTTCTCTTTG
1 TGAGATATTTCT-TTTG
35888752 TGAGATATTTCTTTTG
1 TGAGATATTTCTTTTG
35888768 T
1 T
35888769 TTTTTTCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.59
Consensus pattern (16 bp):
TGAGATATTTCTTTTG
Found at i:35891140 original size:213 final size:213
Alignment explanation
Indices: 35890766--35891187 Score: 729
Period size: 213 Copynumber: 2.0 Consensus size: 213
35890756 TAATTTTTAT
35890766 ATTTTTGAGACCTTGGAAGCTTGATTTAGTTAGCCTAAGGATTAATTTGTGAAATTTTCATATGC
1 ATTTTTGAGACCTTGGAAGCTTGATTTAGTTAGCCTAAGGATTAATTTGTGAAATTTTCATATGC
* * **
35890831 ATAAAATAAACTGTTATAAGGTATTTGAAACTGATAAATTGAAATGGATTAATGTTTAGATCAAT
66 ATAAAATAAACTGTTATAAGGTATTTAAAACGGATAAATTGAAATGGATTAACATTTAGATCAAT
* *
35890896 ATTTGAATCAATCAAAAGTTAATCAAGGAAAAGGAAAAATTGTGGATTAGTCCTCAACATCTCGC
131 ATTTGAATCAATCAAAAGTTAATCAAGGAAAAGGAAAAATTATGGATTAGTCCTCAACATCTCAC
35890961 TTAATACTGTTTTGTGAA
196 TTAATACTGTTTTGTGAA
*
35890979 ATTTTTGAGACCTTGGGAGCTTGATTTAGTTAGCCTAAGGATTAATTTGTGAAATTTTCATAAT-
1 ATTTTTGAGACCTTGGAAGCTTGATTTAGTTAGCCTAAGGATTAATTTGTGAAATTTTCAT-ATG
35891043 CATAAAATAAACTGTTATAAGGTATTTAAAACGGATAAATTGAAATGGATTAACATTTAGATCAA
65 CATAAAATAAACTGTTATAAGGTATTTAAAACGGATAAATTGAAATGGATTAACATTTAGATCAA
* ** *
35891108 TATTTGAATCAATCAGAAGTTAATTGAGGAAAAGGAAAAATTATGGATTAGTCCTCGACATCTCA
130 TATTTGAATCAATCAAAAGTTAATCAAGGAAAAGGAAAAATTATGGATTAGTCCTCAACATCTCA
35891173 CTTAATACTGTTTTG
195 CTTAATACTGTTTTG
35891188 CCAGCTAAAT
Statistics
Matches: 197, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
213 195 0.99
214 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (213 bp):
ATTTTTGAGACCTTGGAAGCTTGATTTAGTTAGCCTAAGGATTAATTTGTGAAATTTTCATATGC
ATAAAATAAACTGTTATAAGGTATTTAAAACGGATAAATTGAAATGGATTAACATTTAGATCAAT
ATTTGAATCAATCAAAAGTTAATCAAGGAAAAGGAAAAATTATGGATTAGTCCTCAACATCTCAC
TTAATACTGTTTTGTGAA
Found at i:35897647 original size:18 final size:17
Alignment explanation
Indices: 35897604--35897649 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
35897594 GCCAAAAATA
35897604 GGAAAAAT-ATAACGTT
1 GGAAAAATAATAACGTT
35897620 -GAGAAAATAATAACGTT
1 GGA-AAAATAATAACGTT
35897637 GGAACAAATAATA
1 GGAA-AAATAATA
35897650 TGATTCTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 5 0.19
17 9 0.35
18 10 0.38
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (17 bp):
GGAAAAATAATAACGTT
Found at i:35898866 original size:31 final size:31
Alignment explanation
Indices: 35898831--35898967 Score: 111
Period size: 31 Copynumber: 4.5 Consensus size: 31
35898821 GTGTTTTATT
*
35898831 TGGTACTTGTACTTTCATAAAATG-CTTGATG
1 TGGTACTTGTACTTTCATAAAATGTC-TAATG
* *
35898862 TGGTATTTGTA-TTT-AAAAAATGTCTAATG
1 TGGTACTTGTACTTTCATAAAATGTCTAATG
* * * ** * * *
35898891 TGATACTTGAACTATCA-ATTTATGTATTATT
1 TGGTACTTGTACTTTCATA-AAATGTCTAATG
*
35898922 TGGTACATGTACTTTCATAAAATGTCTAATG
1 TGGTACTTGTACTTTCATAAAATGTCTAATG
*
35898953 TGGTACTTATACTTT
1 TGGTACTTGTACTTT
35898968 GAAAATGTTC
Statistics
Matches: 78, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
29 19 0.24
30 7 0.09
31 51 0.65
32 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (31 bp):
TGGTACTTGTACTTTCATAAAATGTCTAATG
Found at i:35898954 original size:91 final size:91
Alignment explanation
Indices: 35898788--35899019 Score: 272
Period size: 91 Copynumber: 2.5 Consensus size: 91
35898778 TAAAATATTG
* ** * *
35898788 AAATATCTAATGTGATACTTGAACTATTTATTTGTGTTTTATTTGGTACTTGTACTTTCATAAAA
1 AAATGTCTAATGTGATACTTGAACTATCAATTTGTGTATTATTTGGTACATGTACTTTCATAAAA
* * *
35898853 TGCTTGATGTGGTATTTGTA-TTTAAA
66 TGCTTAATGTGGTACTTATACTTT-AA
*
35898879 AAATGTCTAATGTGATACTTGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAAA
1 AAATGTCTAATGTGATACTTGAACTATCAATTTGTGTATTATTTGGTACATGTACTTTCATAAAA
*
35898944 TG-TCTAATGTGGTACTTATACTTTGA
66 TGCT-TAATGTGGTACTTATACTTTAA
* * * * *
35898970 AAATGT-TCAATGGGGTGCCTAAACTATCAATTTGTGTATTATTATGGTAC
1 AAATGTCT-AATGTGATACTTGAACTATCAATTTGTGTATTATT-TGGTAC
35899020 CTAAAGTTAA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
90 2 0.02
91 110 0.91
92 9 0.07
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (91 bp):
AAATGTCTAATGTGATACTTGAACTATCAATTTGTGTATTATTTGGTACATGTACTTTCATAAAA
TGCTTAATGTGGTACTTATACTTTAA
Found at i:35903027 original size:92 final size:90
Alignment explanation
Indices: 35902886--35903052 Score: 221
Period size: 92 Copynumber: 1.8 Consensus size: 90
35902876 AGTAATTAAA
* *
35902886 CCCCCTTCTTTTTGCATTCACTTGGGTACTTGAATTTTCACAATACATCAAAAAGGTCC-TAAAA
1 CCCCCTTCTTTTTGCATCCAATTGGGTACTTGAATTTTCACAATACATC-AAAAGG-CCTTAAAA
35902950 CTTTTTCAAAAAAAAAAGCACTTAATC
64 CTTTTTCAAAAAAAAAAGCACTTAATC
* * * * *
35902977 CCCCACTTTTTTTTGCATCCAATTGGGTACTTGGACTTTTGA-AATGCATCAAAAGGCCTTCAAA
1 CCCC-CTTCTTTTTGCATCCAATTGGGTACTT-GAATTTTCACAATACATCAAAAGGCCTTAAAA
35903041 CTTTTTCAAAAA
64 CTTTTTCAAAAA
35903053 GCAATTAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
90 2 0.03
91 26 0.39
92 31 0.47
93 7 0.11
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (90 bp):
CCCCCTTCTTTTTGCATCCAATTGGGTACTTGAATTTTCACAATACATCAAAAGGCCTTAAAACT
TTTTCAAAAAAAAAAGCACTTAATC
Found at i:35903264 original size:22 final size:22
Alignment explanation
Indices: 35903239--35903297 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
35903229 GATTTAGAAT
35903239 TTATTAAAAACTAG-AAAAAAAA
1 TTATTAAAAA-TAGTAAAAAAAA
*
35903261 TTA-TAAAAATTGTAAAAAAAA
1 TTATTAAAAATAGTAAAAAAAA
* *
35903282 TTATAAAAAATTGTAA
1 TTATTAAAAATAGTAA
35903298 TTTTTTCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 17 0.52
22 14 0.42
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
TTATTAAAAATAGTAAAAAAAA
Found at i:35903267 original size:21 final size:21
Alignment explanation
Indices: 35903243--35903290 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
35903233 TAGAATTTAT
35903243 TAAAAACTAG-AAAAAAAATTA
1 TAAAAA-TAGTAAAAAAAATTA
*
35903264 TAAAAATTGTAAAAAAAATTA
1 TAAAAATAGTAAAAAAAATTA
35903285 TAAAAA
1 TAAAAA
35903291 ATTGTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
TAAAAATAGTAAAAAAAATTA
Found at i:35903268 original size:10 final size:10
Alignment explanation
Indices: 35903255--35903293 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
35903245 AAAACTAGAA
35903255 AAAAAATTAT
1 AAAAAATTAT
* *
35903265 AAAAATTGTAA
1 AAAAAAT-TAT
35903276 AAAAAATTAT
1 AAAAAATTAT
35903286 AAAAAATT
1 AAAAAATT
35903294 GTAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:35903689 original size:21 final size:22
Alignment explanation
Indices: 35903646--35903691 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
35903636 GATTTTTATT
*
35903646 AAATTTTACAATATTTTATAAA
1 AAATTTTACAATATTTTACAAA
35903668 AAATTTTACAAT-TTTTACAAA
1 AAATTTTACAATATTTTACAAA
35903689 AAA
1 AAA
35903692 AATTCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTTTACAATATTTTACAAA
Found at i:35904030 original size:86 final size:85
Alignment explanation
Indices: 35903867--35904030 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 85
35903857 TAATGGTCAA
* * * * * *
35903867 AGAGTCTTTTTGATGCATTTTATAGTTCAAGTATCCAATTGAGTGTAAAAACAAAGTAGAGGCTT
1 AGAGCCTTTTTGATGCATTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAAGCAGAGGCTT
**
35903932 AATTTTTTTTTTTTAAGTTTG
66 AA-TTTGCTTTTTTAAGTTTG
*
35903953 AGAGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTTAGTGCAAAAAAAAAAGCAG-GGA
1 AGAGCCTTTTTGATGCATTTT-AAAGTTCAAGTACCCAATTGAGTG-AAAAAAAAAAGCAGAGG-
35904017 CTTAA-TTGCTTTTT
63 CTTAATTTGCTTTTT
35904031 AAGGTTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
86 27 0.41
87 23 0.35
88 16 0.24
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (85 bp):
AGAGCCTTTTTGATGCATTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAAGCAGAGGCTT
AATTTGCTTTTTTAAGTTTG
Done.