Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 142 of 144
Found at i:43981645 original size:21 final size:21
Alignment explanation
Indices: 43981619--43981662 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43981609 CCAAGATTGG
*
43981619 ATATCATATCCGAGATTGCAT
1 ATATCATATCCAAGATTGCAT
*
43981640 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
43981661 AT
1 AT
43981663 CCTTGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTGCAT
Found at i:43982135 original size:42 final size:41
Alignment explanation
Indices: 43982012--43982245 Score: 155
Period size: 44 Copynumber: 5.4 Consensus size: 41
43982002 AAGATTTGTA
* * * *
43982012 TCTTCGATCTACTTCGCCACCAGTATGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCGA-TA-CAT-GAAGACAAGATCTGCTT
* * * * *
43982056 CCTTTGATATATTTCATGCCGATACATGAAGGCAAGATCTGCTT
1 TCTTCGATCTACTTC--G-CGATACATGAAGACAAGATCTGCTT
* * *
43982100 TCTTCGATCTACTTCGTCGATACACGAAGATAAGATCTACTT
1 TCTTCGATCTACTTCG-CGATACATGAAGACAAGATCTGCTT
* * *
43982142 TCTTCGATCTACTTCGCCACCAGCATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCGA-TA-CAT--GAAGACAAGATCTGCTT
* *
43982187 TCTTCGATCTACTTCACGCCAATACATGAAG-CTAAGATTTGCTT
1 TCTTCGATCTACTT--CG-CGATACATGAAGAC-AAGATCTGCTT
* *
43982231 TCTTTGACCTACTTC
1 TCTTCGATCTACTTC
43982246 ACGACAACCC
Statistics
Matches: 149, Mismatches: 30, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.01
42 40 0.27
43 3 0.02
44 62 0.42
45 30 0.20
46 5 0.03
47 5 0.03
48 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (41 bp):
TCTTCGATCTACTTCGCGATACATGAAGACAAGATCTGCTT
Found at i:43982191 original size:45 final size:42
Alignment explanation
Indices: 43982002--43982201 Score: 163
Period size: 44 Copynumber: 4.6 Consensus size: 42
43981992 TCAAGGAGAT
* *
43982002 AAGATTTG-TATCTTCGATCTACTTCGCCACCAGTATGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCCA-CA-CATGGAAGAC
* * * * * *
43982045 AAGATCTGCTACCTTTGATATATTTCATGCCGATACAT-GAAGGC
1 AAGATCTGCTATCTTCGATCTACTTC--GCC-ACACATGGAAGAC
* * * * *
43982089 AAGATCTGCTTTCTTCGATCTACTTCGTCGATACA-CGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCG-CCACACATGGAAGAC
* *
43982131 AAGATCTACTTTCTTCGATCTACTTCGCCACCAGCATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCGCCA-CA-CAT-GGAAGAC
43982176 AAGATCTGCTATCTTCGATCTACTTC
1 AAGATCTGCTATCTTCGATCTACTTC
43982202 ACGCCAATAC
Statistics
Matches: 124, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 37 0.30
43 10 0.08
44 39 0.31
45 31 0.25
46 4 0.03
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
AAGATCTGCTATCTTCGATCTACTTCGCCACACATGGAAGAC
Found at i:43982245 original size:44 final size:43
Alignment explanation
Indices: 43982039--43982512 Score: 276
Period size: 44 Copynumber: 10.8 Consensus size: 43
43982029 CACCAGTATG
* * * * *
43982039 GAAGACAAGATCTGCTACCTTTGATATATTTCATGCCGATACAT
1 GAAG-CAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * * *
43982083 GAAGGCAAGATCTGCTTTCTTCGATCTACTT--CGTCGATACAC
1 GAA-GCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * * **
43982125 GAAGATAAGATCTACTTTCTTCGATCTACTT--CGCCACCAGCAT
1 GAAG-CAAGATCTGCTATCTTTGATCTACTTCACGCCAATA-CAT
*
43982168 GGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 --GAAG-CAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * * **
43982214 GAAGCTAAGATTTGCTTTCTTTGACCTACTTCACGACAACCCAAT
1 GAAGC-AAGATCTGCTATCTTTGATCTACTTCACGCCAATAC-AT
* * * * * * * ** *
43982259 GAGGCAAG-GCTGGTGTCTTTGATCTGCTTCATTGTCGGTACAG
1 GAAGCAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACAT
*
43982302 GAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAA-GCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * * * **
43982346 GAAGCTAAGATTTGCTTTCTTTGACCTACTTCACGACAACCCAAT
1 GAAGC-AAGATCTGCTATCTTTGATCTACTTCACGCCAATAC-AT
* * * * * * * ** *
43982391 GAGGCAAG-GCTGGTGTCTTTGATCTGCTTCATTGTCGGTACAG
1 GAAGCAAGATCTGCTATCTTTGATCTACTTCA-CGCCAATACAT
*
43982434 GAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAA-GCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * *
43982478 GAAGCTAAGATTTGCTTTCTTTGACCTACTTCACG
1 GAAGC-AAGATCTGCTATCTTTGATCTACTTCACG
43982513 ACAACCCAAT
Statistics
Matches: 324, Mismatches: 88, Indels: 36
0.72 0.20 0.08
Matches are distributed among these distances:
41 1 0.00
42 39 0.12
43 47 0.15
44 151 0.47
45 77 0.24
46 3 0.01
47 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
GAAGCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
Found at i:43982576 original size:88 final size:88
Alignment explanation
Indices: 43982484--43982816 Score: 323
Period size: 88 Copynumber: 3.8 Consensus size: 88
43982474 ACATGAAGCT
* * * * *
43982484 AAGATTTGCTTTCTTTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTG
1 AAGATCTGCTATCTTTGACCTGCTTCACGACAACCCAAGGAGGCAAGGCTGGTATCTTTGATCTG
43982549 CTTCATTGTCGGTACAGGAAGGC
66 CTTCATTGTCGGTACAGGAAGGC
** * * * * * *
43982572 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTG
1 AAGATCTGCTATCTTTGACCTGCTTCACGACAACCCAAGGAGGCAAGGCTGGTATCTTTGATCTG
43982637 CTTCATTGTCGATGTA-A-GAAGGC
66 CTTCATTGTCG--GTACAGGAAGGC
* * * * * * *
43982660 AAGATCAGCTATCTTTAACTTGCTCCACTACAACCC-AGAGAGGCAAGGCTGGTACCTTCGATCT
1 AAGATCTGCTATCTTTGACCTGCTTCACGACAACCCAAG-GAGGCAAGGCTGGTATCTTTGATCT
** * *
43982724 GCTTCGCTATCGGTGCAGGAAGGC
65 GCTTCATTGTCGGTACAGGAAGGC
* * * * * * *
43982748 AAGATCTGCTAT-TTTTAGCCTGCTCCGCTACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTTGA-CCTGCTTCACGACAACCCAAGGAGGCAAGGCTGGTATCTTTGATCT
43982812 GCTTC
65 GCTTC
43982817 TATTTTCAAC
Statistics
Matches: 205, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.01
87 6 0.03
88 192 0.94
89 2 0.01
90 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (88 bp):
AAGATCTGCTATCTTTGACCTGCTTCACGACAACCCAAGGAGGCAAGGCTGGTATCTTTGATCTG
CTTCATTGTCGGTACAGGAAGGC
Found at i:43982616 original size:44 final size:44
Alignment explanation
Indices: 43982563--43982794 Score: 110
Period size: 44 Copynumber: 5.3 Consensus size: 44
43982553 ATTGTCGGTA
43982563 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* * * * ** * * * * **
43982607 CAGGGAGGCAAG-GCTGTTATCTTCGATTTGCTTCATTGTCGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACAACC
* * * * *
43982651 TAAGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* * * * * * * ****
43982695 CA-GAGAGGCAAG-GCTGGTACCTTCGATCTGCTTCGCTATCGGTG
1 CAGGA-AGGCAAGATCTGCTATCTTCAACCTGCTCCACTA-CAACC
* * * *
43982739 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
* *
43982783 TAGGGAGGCAAG
1 CAGGAAGGCAAG
43982795 GCTGGTGTCT
Statistics
Matches: 125, Mismatches: 57, Indels: 12
0.64 0.29 0.06
Matches are distributed among these distances:
43 36 0.29
44 53 0.42
45 36 0.29
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
Found at i:43982662 original size:132 final size:132
Alignment explanation
Indices: 43982169--43982587 Score: 829
Period size: 132 Copynumber: 3.2 Consensus size: 132
43982159 CACCAGCATG
*
43982169 GGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
1 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
43982234 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
66 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
43982299 CA
131 CA
43982301 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
1 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
43982366 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
66 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
43982431 CA
131 CA
43982433 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
1 GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
43982498 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
66 TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
43982563 CA
131 CA
43982565 GGAAGGCAAGATCTGCTATCTTC
1 GGAAGGCAAGATCTGCTATCTTC
43982588 AACCTGCTCC
Statistics
Matches: 286, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 286 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
GGAAGGCAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGCTAAGATTTGCTTTCT
TTGACCTACTTCACGACAACCCAATGAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTA
CA
Found at i:43982898 original size:44 final size:44
Alignment explanation
Indices: 43982843--43982972 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 44
43982833 CACCATGACC
* **
43982843 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTA
1 CAGGGAGGCAAGGCTGCTATCTTCGATCTGCTTCACTGTCGACA
* * * * * * * *
43982887 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT-ACAACC
1 CAGGGAGGCAAG-GCTGCTATCTTCGATCTGCTTCACTGTCGACA
* * *
43982931 CAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGA
1 CAGGGAGGCAAGGCTGCTATCTTCGATCTGCTTCACTGTCGA
43982973 TGTAAGAAGG
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
43 18 0.29
44 25 0.40
45 20 0.32
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (44 bp):
CAGGGAGGCAAGGCTGCTATCTTCGATCTGCTTCACTGTCGACA
Found at i:43982963 original size:148 final size:148
Alignment explanation
Indices: 43982692--43982964 Score: 420
Period size: 148 Copynumber: 1.8 Consensus size: 148
43982682 CTCCACTACA
* *
43982692 ACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGC
1 ACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCACTATCGGTACAGGAAGGCAAGATCTGC
* * * * * * *
43982757 TATTTTTAGCCTGCTCCGCTACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCTATTT
66 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCTATTT
43982822 TCAACCTGCTCCACCATG
131 TCAACCTGCTCCACCATG
* * *
43982840 ACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGC
1 ACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCACTATCGGTACAGGAAGGCAAGATCTGC
* *
43982905 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTC
66 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTC
43982965 ATTGTCGATG
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 111 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (148 bp):
ACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCACTATCGGTACAGGAAGGCAAGATCTGC
TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCTATTT
TCAACCTGCTCCACCATG
Found at i:43982971 original size:88 final size:88
Alignment explanation
Indices: 43982816--43983297 Score: 599
Period size: 88 Copynumber: 5.5 Consensus size: 88
43982806 TGATCTGCTT
* ** *
43982816 CTATTTTCAACCTGCTCCACCATGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTG
1 CTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTG
*
43982881 TCGGTACAGGAAGGCAAGATCTG
66 TCGGTGCAGGAAGGCAAGATCTG
* * * **
43982904 CTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTG
1 CTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTG
* * * *
43982969 TCGATGTAAGAAGGCAAGATCAG
66 TCGGTGCAGGAAGGCAAGATCTG
* * *
43982992 CTATCTTT-AACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTTCGCT
1 CTAT-TTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCT
*
43983056 ATCGGTGCAGGAAGGCAAGATCTG
65 GTCGGTGCAGGAAGGCAAGATCTG
* * * * * *
43983080 CTATTTTTAGCCTGCTCCGCTACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTG
1 CTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTG
* *
43983145 TCGGTGCATGAAGGCAAGATCTA
66 TCGGTGCAGGAAGGCAAGATCTG
* * * * * *
43983168 CTATTTTCAGCCTGCTCCGCTACAACCCAGGGAGGCAAGACTGGTGTCTTTGATCTGCTTCGCTA
1 CTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTG
* *
43983233 TTGGTGTAGGAAGGCAAGATCTG
66 TCGGTGCAGGAAGGCAAGATCTG
* * *
43983256 -TAATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCT
1 CT-ATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
43983298 TTATGATTTC
Statistics
Matches: 343, Mismatches: 48, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
87 4 0.01
88 337 0.98
89 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (88 bp):
CTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTG
TCGGTGCAGGAAGGCAAGATCTG
Found at i:43983017 original size:236 final size:235
Alignment explanation
Indices: 43982580--43983052 Score: 642
Period size: 236 Copynumber: 2.0 Consensus size: 235
43982570 GCAAGATCTG
* * * *
43982580 CTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTG
1 CTATCTTCAACCTGCTCCACCACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTG
* *
43982645 TCGATGTAAGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCT
66 TCGA-GTAAGAAGGCAAGATCAGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAAGGCT
* * * * * * *
43982710 GGTACCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCG
130 GGTACCTTCGATCTGCTTCACTATCGATGCAAGAAGGCAAGATCAGCTATCTTTAACCTGCTCCA
* * ** *
43982775 CTACAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTT
195 CTACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTT
* **
43982816 CTATTTTCAACCTGCTCCACCATGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTG
1 CTATCTTCAACCTGCTCCACCACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTG
* *
43982881 TCG-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGC
66 TCGAGTA-A-GAAGGCAAGATCAGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAAGGC
* * * * * * *
43982945 TGTTATCTTCGATTTGCTTCATTGTCGATGTAAGAAGGCAAGATCAGCTATCTTTAACTTGCTCC
129 TGGTACCTTCGATCTGCTTCACTATCGATGCAAGAAGGCAAGATCAGCTATCTTTAACCTGCTCC
43983010 ACTACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTT
194 ACTACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTT
43983052 C
1 C
43983053 GCTATCGGTG
Statistics
Matches: 205, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
234 3 0.01
235 1 0.00
236 201 0.98
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (235 bp):
CTATCTTCAACCTGCTCCACCACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTG
TCGAGTAAGAAGGCAAGATCAGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAAGGCTG
GTACCTTCGATCTGCTTCACTATCGATGCAAGAAGGCAAGATCAGCTATCTTTAACCTGCTCCAC
TACAACCCAGAGAGGCAAGGCTGGTACCTTCGATCTGCTT
Found at i:43983112 original size:324 final size:324
Alignment explanation
Indices: 43982523--43983140 Score: 1209
Period size: 324 Copynumber: 1.9 Consensus size: 324
43982513 ACAACCCAAT
* * *
43982523 GAGGCAAGGCTGGTGTCTTTGATCTGCTTCATTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
1 GAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
43982588 AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGATGTA
66 AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGATGTA
43982653 AGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTT
131 AGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTT
43982718 CGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
196 CGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
43982783 TAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCTATTTTCAACCTGCTCCACCATGACCCAGG
261 TAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCTATTTTCAACCTGCTCCACCATGACCCAGG
43982847 GAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
1 GAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
43982912 AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGATGTA
66 AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGATGTA
43982977 AGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTT
131 AGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTT
43983042 CGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
196 CGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
43983107 TAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTC
261 TAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTC
43983141 GCTGTCGGTG
Statistics
Matches: 291, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
324 291 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (324 bp):
GAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTC
AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGTTATCTTCGATTTGCTTCATTGTCGATGTA
AGAAGGCAAGATCAGCTATCTTTAACTTGCTCCACTACAACCCAGAGAGGCAAGGCTGGTACCTT
CGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAACC
TAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCTATTTTCAACCTGCTCCACCATGACCCAGG
Found at i:43989840 original size:21 final size:21
Alignment explanation
Indices: 43989803--43989857 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
43989793 AATCATATCT
43989803 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
43989822 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
43989843 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
43989858 CCTTGAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:43992453 original size:97 final size:98
Alignment explanation
Indices: 43992308--43992485 Score: 279
Period size: 97 Copynumber: 1.8 Consensus size: 98
43992298 AGTTTGAGAA
* *
43992308 AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATGGCCGGAGCGTAAAATATATT-AAAAACA
1 AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
43992372 TTATACACGTGGAAATCATTGTTGGATTGAGGC
66 TTATACACGTGGAAATCATTGTTGGATTGAGGC
* * *
43992405 AAGATC-GTTCACGTTTTCCTTCCTTAGCTGAACTATAGCAGGCGCGTAAAATATATTAAAAAAC
1 AAGATCAG-TCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAAC
*
43992469 ATTATACATGTGGAAAT
65 ATTATACACGTGGAAAT
43992486 AAAAATAGAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.01
97 50 0.68
98 22 0.30
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (98 bp):
AAGATCAGTCACGTTTACCTTCCTCAGCTGAACTATAGCAGGAGCGTAAAATATATTAAAAAACA
TTATACACGTGGAAATCATTGTTGGATTGAGGC
Found at i:43992917 original size:22 final size:21
Alignment explanation
Indices: 43992890--43992954 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 21
43992880 ATATATATTT
43992890 TTTATT-TCTATATATTTTTAAA
1 TTTATTAT-TATAT-TTTTTAAA
*
43992912 TTTATTATTGTATTTTTTAAA
1 TTTATTATTATATTTTTTAAA
* * *
43992933 TAT-TTA-TGTATTTTTTATA
1 TTTATTATTATATTTTTTAAA
43992952 TTT
1 TTT
43992955 CTTTGAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 14 0.37
20 3 0.08
21 10 0.26
22 10 0.26
23 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTATTATTATATTTTTTAAA
Found at i:43992927 original size:20 final size:18
Alignment explanation
Indices: 43992902--43992947 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
43992892 TATTTCTATA
*
43992902 TATTTTTAAATTTATTATTG
1 TATTTTTAAATAT-TTA-TG
43992922 TATTTTTTAAATATTTATG
1 TA-TTTTTAAATATTTATG
43992941 TATTTTT
1 TATTTTT
43992948 TATATTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 5 0.21
21 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TATTTTTAAATATTTATG
Found at i:43992948 original size:20 final size:21
Alignment explanation
Indices: 43992904--43992949 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
43992894 TTTCTATATA
*
43992904 TTTTTAAATTTATTATTGTAT
1 TTTTTAAATATATTATTGTAT
43992925 TTTTTAAATAT-TTA-TGTAT
1 TTTTTAAATATATTATTGTAT
43992944 TTTTTA
1 TTTTTA
43992950 TATTTCTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTAAATATATTATTGTAT
Found at i:43992952 original size:17 final size:18
Alignment explanation
Indices: 43992885--43992954 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 18
43992875 TTTACATATA
*
43992885 TATTTTTT-AT-TTCTATA
1 TATTTTTTAATATT-TATG
* *
43992902 TATTTTTAAATTTATTATTG
1 TATTTTTTAATAT-TTA-TG
43992922 TATTTTTTAAATATTTATG
1 TATTTTTT-AATATTTATG
43992941 TATTTTTT-ATATTT
1 TATTTTTTAATATTT
43992955 CTTTGAATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 13 0.30
18 2 0.05
19 13 0.30
20 12 0.27
21 4 0.09
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTTTAATATTTATG
Found at i:43995241 original size:5 final size:5
Alignment explanation
Indices: 43995231--43996120 Score: 1694
Period size: 5 Copynumber: 178.0 Consensus size: 5
43995221 GGGGTAGGAC
43995231 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995281 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995331 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995381 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995431 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995481 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995531 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995581 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995631 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995681 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995731 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995781 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995831 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995881 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995931 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
43995981 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* *
43996031 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT -TCGAT ATAAC ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT
* * * *
43996081 ATGAT ACGAT -TCAAT ATGAT ATGAT ATGTT AAGAT ATGAT
1 ATGAT ATGAT AT-GAT ATGAT ATGAT ATGAT ATGAT ATGAT
43996121 TCGTATAAAA
Statistics
Matches: 869, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
4 1 0.00
5 866 1.00
6 2 0.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:43996843 original size:20 final size:17
Alignment explanation
Indices: 43996827--43996861 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43996817 ATAAAATATG
43996827 TATAATAAAATTAAAATA
1 TATAA-AAAATTAAAATA
*
43996845 TATAAAATATTAAAATA
1 TATAAAAAATTAAAATA
43996862 AAAATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATTAAAATA
Found at i:44002066 original size:39 final size:41
Alignment explanation
Indices: 44002022--44002112 Score: 103
Period size: 48 Copynumber: 2.1 Consensus size: 41
44002012 TGCTATGCAT
44002022 TTTTATACT-TGGTCTTCCACTATCTACACTATTATCACTA
1 TTTTATACTATGGTCTTCCACTATCTACACTATTATCACTA
*
44002062 TTTATCATTACTAAACGTGGTCTTCCACTATCTACACTCTTATCACTA
1 TTT-T-A-TACT--A--TGGTCTTCCACTATCTACACTATTATCACTA
44002110 TTT
1 TTT
44002113 ATCCATTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
40 3 0.07
41 1 0.02
42 1 0.02
43 4 0.10
48 33 0.79
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.44
Consensus pattern (41 bp):
TTTTATACTATGGTCTTCCACTATCTACACTATTATCACTA
Found at i:44009513 original size:69 final size:70
Alignment explanation
Indices: 44009395--44009592 Score: 200
Period size: 69 Copynumber: 2.8 Consensus size: 70
44009385 ATCATTGGTG
* * * * *** * *
44009395 TGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACGAT
1 TGCCCAACACTAGTCGAACGAATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCAACGAT
*
44009460 AGTTA
66 AGCTA
* *
44009465 TGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACGAT
1 TGCCCAACACTAGTCGAACGAATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCAACGAT
*
44009529 AGCTG
66 AGCTA
** * *** * *
44009534 TGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCACCCAGCGCTAGTCAGATAACC
1 TGCCCAACACTAGTCGAACGAATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACC
44009593 GATGATAGTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 55 0.52
70 50 0.48
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (70 bp):
TGCCCAACACTAGTCGAACGAATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCAACGAT
AGCTA
Found at i:44009590 original size:70 final size:70
Alignment explanation
Indices: 44009393--44009600 Score: 238
Period size: 70 Copynumber: 3.0 Consensus size: 70
44009383 AAATCATTGG
* * *** * *
44009393 TGTGCCCAACACTAGTCAAACGAATCGACAAATTATTGTGCATGGCGCTAGTTGGATAACCAACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
*
44009458 ATAGT
66 ATAGC
* * * * *
44009463 TATGCCCAGCACTAGTCGAAC-AATCAAAAAATTATTATGCCCAGTGCTAGTCGGATAACCGACG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
44009527 ATAGC
66 ATAGC
** ** * *
44009532 TGTGCCCAACACTAGTCGGGCGAATCAACAAATTATTGCACCCAGCGCTAGTCAGATAACCGATG
1 TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
44009597 ATAG
66 ATAG
44009601 TTACTCAATA
Statistics
Matches: 113, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
69 55 0.49
70 58 0.51
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (70 bp):
TGTGCCCAACACTAGTCGAACGAATCAACAAATTATTGTGCCCAGCGCTAGTCGGATAACCGACG
ATAGC
Found at i:44010125 original size:16 final size:16
Alignment explanation
Indices: 44010104--44010153 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
44010094 TTAATCCTTG
44010104 AATTTATCATTCTCAT
1 AATTTATCATTCTCAT
*
44010120 AATTTA--A-TC-CTT
1 AATTTATCATTCTCAT
44010132 GAATTTATCATTCTCAT
1 -AATTTATCATTCTCAT
44010149 AATTT
1 AATTT
44010154 TATCCTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
14 1 0.04
15 1 0.04
16 13 0.48
17 2 0.07
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (16 bp):
AATTTATCATTCTCAT
Found at i:44010133 original size:29 final size:29
Alignment explanation
Indices: 44010091--44010163 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
44010081 ATTAAATCAC
44010091 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
44010120 AATTTAATCCTTGAATTTATCATTCTCAT
1 AATTTAATCCTTGAATTTATCATTCTCAT
*
44010149 AATTTTATCCTTGAA
1 AATTTAATCCTTGAA
44010164 CCTTAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (29 bp):
AATTTAATCCTTGAATTTATCATTCTCAT
Found at i:44010601 original size:19 final size:20
Alignment explanation
Indices: 44010554--44010606 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
44010544 AAAATAAAAT
44010554 AAAATAAAAATAAATTTGAAA
1 AAAAT-AAAATAAATTTGAAA
**
44010575 TTAA-AAAATAAATTT-AAA
1 AAAATAAAATAAATTTGAAA
44010593 AAAATAAAATAAAT
1 AAAATAAAATAAAT
44010607 GGGTAAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 20 0.74
21 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAAAATAAATTTGAAA
Found at i:44011476 original size:13 final size:13
Alignment explanation
Indices: 44011458--44011500 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
44011448 TAGATTTTTC
44011458 CTAAATATTATCA
1 CTAAATATTATCA
44011471 CTAAATA--ATC-
1 CTAAATATTATCA
44011481 CTAAATATTATCA
1 CTAAATATTATCA
44011494 CTAAATA
1 CTAAATA
44011501 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:44011483 original size:23 final size:23
Alignment explanation
Indices: 44011456--44011502 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
44011446 GCTAGATTTT
44011456 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
44011479 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
44011502 T
1 T
44011503 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:44011509 original size:23 final size:23
Alignment explanation
Indices: 44011460--44011509 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
44011450 GATTTTTCCT
*
44011460 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
44011483 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
44011506 AAAT
1 AAAT
44011510 TTACAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:44013497 original size:19 final size:19
Alignment explanation
Indices: 44013473--44013511 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
44013463 CCTAGTGCCA
44013473 CCTTAGAGGAGTTATGATC
1 CCTTAGAGGAGTTATGATC
*
44013492 CCTTAGAGGCGTTATGATC
1 CCTTAGAGGAGTTATGATC
44013511 C
1 C
44013512 ATATTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (19 bp):
CCTTAGAGGAGTTATGATC
Found at i:44014295 original size:6 final size:6
Alignment explanation
Indices: 44014284--44014317 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
44014274 AAATATACTA
44014284 TTATTT TTATTT TTATTT ATATATTT TTATTT TT
1 TTATTT TTATTT TTATTT -T-TATTT TTATTT TT
44014318 TCCAAATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:44021410 original size:23 final size:23
Alignment explanation
Indices: 44021380--44021429 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
44021370 GATTTTTCCT
*
44021380 AAATATTATCATTAAATAATCCA
1 AAATATTATCACTAAATAATCCA
*
44021403 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
44021426 AAAT
1 AAAT
44021430 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:44045885 original size:8 final size:8
Alignment explanation
Indices: 44045874--44045924 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
44045864 TCTTTTCCTC
44045874 TTTCTTTT
1 TTTCTTTT
44045882 TTTCTTTT
1 TTTCTTTT
44045890 TTTCTCTTT
1 TTTCT-TTT
*
44045899 TCTCCCTTTT
1 T-T-TCTTTT
44045909 TTT-TTTCT
1 TTTCTTT-T
44045917 TTTCTTTT
1 TTTCTTTT
44045925 CATGAAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
7 3 0.08
8 18 0.50
9 8 0.22
10 5 0.14
11 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTTT
Found at i:44045898 original size:30 final size:30
Alignment explanation
Indices: 44045854--44045925 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
44045844 TTTAACTTTG
*
44045854 TCTTTTGTTTTCTTTTC-CTCTTTCTTTTTT
1 TCTTTTGTTTTCTTTTCTCCCTTT-TTTTTT
44045884 TCTTTT-TTTCTCTTTTCTCCCTTTTTTTTT
1 TCTTTTGTTT-TCTTTTCTCCCTTTTTTTTT
*
44045914 TCTTTTCTTTTC
1 TCTTTTGTTTTC
44045926 ATGAAAGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
29 3 0.08
30 27 0.71
31 8 0.21
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.76
Consensus pattern (30 bp):
TCTTTTGTTTTCTTTTCTCCCTTTTTTTTT
Found at i:44047564 original size:71 final size:71
Alignment explanation
Indices: 44047448--44047590 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
44047438 CTACGAGGTT
*
44047448 TCTGCTGCTGGTTCCTCTGGTCCTAGCATTGCTTCTCTAAGAAAGATTCAACAGTTTCCGAAGCA
1 TCTGCTGATGGTTCCTCTGGTCCTAGCATTGCTTCTCTAAGAAAGATTCAACAGTTTCCGAAGCA
44047513 TGACAC
66 TGACAC
44047519 TCTGCTGATGGTTCCTCTGGTCCTAGCATTGCTTCTCTAAGAAAGATTCAACAGTTTCCGAAGCA
1 TCTGCTGATGGTTCCTCTGGTCCTAGCATTGCTTCTCTAAGAAAGATTCAACAGTTTCCGAAGCA
44047584 TGACAC
66 TGACAC
44047590 T
1 T
44047591 GTGAAACTTG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (71 bp):
TCTGCTGATGGTTCCTCTGGTCCTAGCATTGCTTCTCTAAGAAAGATTCAACAGTTTCCGAAGCA
TGACAC
Found at i:44050805 original size:46 final size:46
Alignment explanation
Indices: 44050747--44050835 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
44050737 TAGGATAGTG
* * *
44050747 TCTTCGATCTACTCCGCTGTAATCTCAGGGAGACAAGATCTGAAAT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
* *
44050793 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGA
44050836 TACGATCTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTCGATCTACTCCACTGTAACCTCAGGGAGACAAGACCTGAAAT
Found at i:44050986 original size:175 final size:169
Alignment explanation
Indices: 44050648--44051009 Score: 494
Period size: 175 Copynumber: 2.1 Consensus size: 169
44050638 CACTGCATCT
* * * *
44050648 TCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTAATC
1 TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTAATC
* * *
44050713 CGCTCCACTGTAACTTCGGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGA
66 CGCTCCACTGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTGTAATCTCAGGGA
44050778 GACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
131 GACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
* *
44050817 TCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTT
1 TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCC-----TT
* *
44050882 TAATTCGCTCCACTGTAA-TCTCAGGGAGATAGGTTTACTAG-CTTCAATCTACTCCGCTGTAAT
61 TAATCCGCTCCACTGTAACT-TCAGGGAGATAGG-ATACT-GTCTTCAATCTACTCCGCTGTAAT
* * ** *
44050945 CTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATC
123 CTCAGGGAGACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
44050992 TCAGGGAGATAAGACCTG
1 TCAGGGAGATAAGACCTG
44051010 TATAATAAAC
Statistics
Matches: 169, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
169 52 0.31
173 1 0.01
174 31 0.18
175 84 0.50
176 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (169 bp):
TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTAATC
CGCTCCACTGTAACTTCAGGGAGATAGGATACTGTCTTCAATCTACTCCGCTGTAATCTCAGGGA
GACAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
Found at i:44064471 original size:20 final size:20
Alignment explanation
Indices: 44064448--44064492 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
44064438 GGGCTTGGGC
*
44064448 ATTGGTTTGGGCTGAAGGGT
1 ATTGGTTTGGGCTGAAGAGT
44064468 ATTGGTTTGGGCTGAAGAGT
1 ATTGGTTTGGGCTGAAGAGT
44064488 ATTGG
1 ATTGG
44064493 GCTGTTCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.42, T:0.36
Consensus pattern (20 bp):
ATTGGTTTGGGCTGAAGAGT
Found at i:44070491 original size:12 final size:12
Alignment explanation
Indices: 44070474--44070542 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
44070464 TGGAGAATCC
*
44070474 GAAGAGGAAGAG
1 GAAGAAGAAGAG
* *
44070486 GAAGAGGAAGAA
1 GAAGAAGAAGAG
*
44070498 GAAGCAGAAGCA-
1 GAAGAAGAAG-AG
*
44070510 GAAGCAGAAGCA-
1 GAAGAAGAAG-AG
*
44070522 GAAGAAGAAAAG
1 GAAGAAGAAGAG
44070534 GAAGAAGAA
1 GAAGAAGAA
44070543 AAACTTAAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
11 1 0.02
12 48 0.96
13 1 0.02
ACGTcount: A:0.57, C:0.06, G:0.38, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAG
Found at i:44070501 original size:18 final size:17
Alignment explanation
Indices: 44070474--44070542 Score: 50
Period size: 18 Copynumber: 3.9 Consensus size: 17
44070464 TGGAGAATCC
*
44070474 GAAGAGGAAGAGGAAGA
1 GAAGAGGAAGAAGAAGA
* *
44070491 GGAAGAAGAAGCAGAAGCA
1 -GAAGAGGAAGAAGAAG-A
*
44070510 GAAGCA-GAAGCAGAAGAA
1 GAAG-AGGAAGAAGAAG-A
*
44070528 GAAAAGGAAGAAGAA
1 GAAGAGGAAGAAGAA
44070543 AAACTTAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 39 0.93
19 2 0.05
ACGTcount: A:0.57, C:0.06, G:0.38, T:0.00
Consensus pattern (17 bp):
GAAGAGGAAGAAGAAGA
Found at i:44070506 original size:6 final size:6
Alignment explanation
Indices: 44070492--44070530 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
44070482 AGAGGAAGAG
* *
44070492 GAAGAA GAAGCA GAAGCA GAAGCA GAAGCA GAAGAA GAA
1 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GAA
44070531 AAGGAAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.56, C:0.10, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAGCA
Found at i:44075568 original size:16 final size:16
Alignment explanation
Indices: 44075531--44075568 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44075521 TATTTTGCTC
44075531 CCTCTACTAAATAGTT
1 CCTCTACTAAATAGTT
*
44075547 CTTCTACTAAA-AGTT
1 CCTCTACTAAATAGTT
44075562 ACCTCTA
1 -CCTCTA
44075569 TTTTTACTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (16 bp):
CCTCTACTAAATAGTT
Found at i:44076948 original size:105 final size:104
Alignment explanation
Indices: 44076746--44076982 Score: 260
Period size: 105 Copynumber: 2.3 Consensus size: 104
44076736 TTATTAATGC
* * * *
44076746 ACTATACATAACAACATCAGGTTCAATGCCGAGCTTTCTCATTGTATCAACAGTATTTACAGCTT
1 ACTATACGTAACAACATCAGGCTCAATGCCGAGATTTCTCATTGTATCAACAGTATCTACAGCTT
* * ** * * *
44076811 GGAAAATCGTCCCCTCCTTGCCATAAGTATCAACCAATAT
66 AGAAAA-CATCCCAGCCTTACAATAAGCATCAACCAATAT
* ** * *
44076851 ACTATACGTAACAACATTAGGCTCAATGCCTTGATTTCTCATTGTGTCAACGGTATCTACAGCTT
1 ACTATACGTAACAACATCAGGCTCAATGCCGAGATTTCTCATTGTATCAACAGTATCTACAGC-T
*
44076916 TAG-AAACAATCCCAGCCTTACAATACGCATCAACCAATAT
65 TAGAAAAC-ATCCCAGCCTTACAATAAGCATCAACCAATAT
* * *
44076956 ATTATACGTGACAATATCAGGCTCAAT
1 ACTATACGTAACAACATCAGGCTCAAT
44076983 ATTGCGCTTT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
104 1 0.01
105 105 0.96
106 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (104 bp):
ACTATACGTAACAACATCAGGCTCAATGCCGAGATTTCTCATTGTATCAACAGTATCTACAGCTT
AGAAAACATCCCAGCCTTACAATAAGCATCAACCAATAT
Found at i:44080079 original size:15 final size:15
Alignment explanation
Indices: 44080056--44080086 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44080046 TAGGTCCAAC
*
44080056 TAAGTCATACCTTTG
1 TAAGCCATACCTTTG
44080071 TAAGCCATACCTTTG
1 TAAGCCATACCTTTG
44080086 T
1 T
44080087 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (15 bp):
TAAGCCATACCTTTG
Found at i:44083237 original size:24 final size:23
Alignment explanation
Indices: 44083206--44083252 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
44083196 TATTCACACA
44083206 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
44083229 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
44083253 CCCATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:44084156 original size:17 final size:16
Alignment explanation
Indices: 44084133--44084190 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
44084123 GTTTATTTAA
44084133 TATATAATAATATAAT
1 TATATAATAATATAAT
44084149 TAATATAAT-ATATTATAT
1 T-ATATAATAATA-TA-AT
*
44084167 TATATAATAAAATAAT
1 TATATAATAATATAAT
44084183 ATATATAA
1 -TATATAA
44084191 AACATAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 6 0.17
17 25 0.69
18 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATAATAATATAAT
Found at i:44084157 original size:5 final size:5
Alignment explanation
Indices: 44084130--44084190 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
44084120 TTGGTTTATT
*
44084130 TAATA T-ATAA TAATA TAAT- TAATA TAATA TATTATA TTATA TAATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TA--ATA TAATA TAATA
44084176 -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAA
44084191 AACATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
3 1 0.02
4 14 0.30
5 25 0.54
6 2 0.04
7 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:44088420 original size:43 final size:43
Alignment explanation
Indices: 44088350--44088507 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
44088340 AGGTAGTACA
* * *
44088350 ATGCCAACGTCCCAGACTTGGTTTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
44088393 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
44088435 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCG
* *
44088479 ATGCCAACGTTCCAGACATAGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
44088508 AAAAACACAT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 30 0.32
43 37 0.39
44 28 0.29
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:44098999 original size:29 final size:29
Alignment explanation
Indices: 44098927--44099002 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
44098917 TACCTAGGAG
* *
44098927 GTCCCTATATTATACAAATGGATCAAATTA
1 GTCCCTATATTAT-TAAATCGATCAAATTA
*
44098957 GTCCCTCA-ATTATTAAATCGATCAATTTA
1 GTCCCT-ATATTATTAAATCGATCAAATTA
*
44098986 GTCCCTATACTATTAAA
1 GTCCCTATATTATTAAA
44099003 AAGAGTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 27 0.68
30 11 0.28
31 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.36
Consensus pattern (29 bp):
GTCCCTATATTATTAAATCGATCAAATTA
Found at i:44105261 original size:31 final size:30
Alignment explanation
Indices: 44105194--44105261 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
44105184 AGTTAATCTT
* * *
44105194 TAAACTAGATAATTGTTCTTACATTGGGAC
1 TAAACTACAGAATTGTTCTCACATTGGGAC
*
44105224 TCAAACTACAGAATTGTTCTCACATTTGGGTC
1 T-AAACTACAGAATTGTTCTCACA-TTGGGAC
44105256 TAAACT
1 TAAACT
44105262 TTTTTCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 24 0.75
32 7 0.22
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (30 bp):
TAAACTACAGAATTGTTCTCACATTGGGAC
Found at i:44109126 original size:108 final size:108
Alignment explanation
Indices: 44108935--44109260 Score: 625
Period size: 108 Copynumber: 3.0 Consensus size: 108
44108925 TGATATTTGG
*
44108935 GGTTTCTAAGTAAGGTTTTTTTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTC
1 GGTTTCTAAGTAAGG--TTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTC
44109000 AGGTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
64 AGGTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
44109045 GGTTTCTAAGTAAGGTTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTCAG
1 GGTTTCTAAGTAAGGTTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTCAG
44109110 GTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
66 GTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
44109153 GGTTTCTAAGTAAGGTTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTCAG
1 GGTTTCTAAGTAAGGTTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTCAG
44109218 GTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
66 GTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
44109261 TGGCATTAGG
Statistics
Matches: 215, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
108 200 0.93
110 15 0.07
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (108 bp):
GGTTTCTAAGTAAGGTTTCTTTTTATAATATATGTTTTTATATGTTTAGAATGTATTGTTCTCAG
GTATTATAGAAGGGAATAAATTTGGGTTGTTTGTGTTTTTGCT
Found at i:44131046 original size:16 final size:15
Alignment explanation
Indices: 44131019--44131048 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44131009 CTTTAACACA
44131019 TATAATTGATATATT
1 TATAATTGATATATT
44131034 TATAATATGATATAT
1 TATAAT-TGATATAT
44131049 GTTAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TATAATTGATATATT
Found at i:44132859 original size:22 final size:22
Alignment explanation
Indices: 44132834--44132877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44132824 CACTAACGAT
*
44132834 GGTGTTGTGACACCAAAGCCTA
1 GGTGTTGCGACACCAAAGCCTA
**
44132856 GGTGTTGCGACACTGAAGCCTA
1 GGTGTTGCGACACCAAAGCCTA
44132878 ACGAGTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (22 bp):
GGTGTTGCGACACCAAAGCCTA
Found at i:44139574 original size:7 final size:7
Alignment explanation
Indices: 44139562--44139591 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
44139552 ATGAAATGAC
44139562 TATATAA
1 TATATAA
44139569 TATATAA
1 TATATAA
44139576 TATATAA
1 TATATAA
44139583 TATATAA
1 TATATAA
44139590 TA
1 TA
44139592 ACAATGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:44149441 original size:13 final size:13
Alignment explanation
Indices: 44149425--44149458 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44149415 TATCTCTAAA
44149425 AATTTTCTAAAAT
1 AATTTTCTAAAAT
* *
44149438 AATTTTTTCAAAT
1 AATTTTCTAAAAT
44149451 AATTTTCT
1 AATTTTCT
44149459 CTTTACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTTCTAAAAT
Found at i:44149700 original size:20 final size:18
Alignment explanation
Indices: 44149653--44149701 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
44149643 CAAGATAAGC
44149653 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44149670 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
44149690 ATTAAATTAATA
1 ATTAAATTAATA
44149702 AAATCCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44155082 original size:75 final size:73
Alignment explanation
Indices: 44154869--44155129 Score: 263
Period size: 75 Copynumber: 3.4 Consensus size: 73
44154859 CACCAGCACG
* * * * *
44154869 AAGCCTACTAGGCACAAAGCCCGATATAATACACCAGCACAAAGCCTGCTAGGCATAAGGCCGAA
1 AAGCCTGCTAGGCACATAGCCC-A-A-AAT-CACCAGCACAAAGCCAGCTAGGCACAA-GCCCAA
*
44154934 ATATCACTGGCACA
61 ATAT-ACTGGTACA
* * ** *
44154948 AAGCCTGCTAGGCACAAAGCCCGAATATCACTGGCACAAAGCCTA-TTAGGCACGAAGCCCAAAT
1 AAGCCTGCTAGGCACATAGCCC-AAAATCACCAGCACAAAGCC-AGCTAGGCAC-AAGCCCAAAT
44155012 ATATCTGGTACA
63 ATA-CTGGTACA
* * *
44155024 AAGCCTGCTAGGCACATAGCTCAAAATCACCAGCACAAAGTCAGCTAGGCACATAGCCCGAATAA
1 AAGCCTGCTAGGCACATAGCCCAAAATCACCAGCACAAAGCCAGCTAGGCACA-AGCCCAAAT-A
*
44155089 CACTGGTACA
64 TACTGGTACA
*
44155099 AAGCCTACTAGGCACATAGCCCAAAATCACC
1 AAGCCTGCTAGGCACATAGCCCAAAATCACC
44155130 GCATTTCTAT
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
74 2 0.01
75 69 0.44
76 57 0.37
77 4 0.03
78 1 0.01
79 23 0.15
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (73 bp):
AAGCCTGCTAGGCACATAGCCCAAAATCACCAGCACAAAGCCAGCTAGGCACAAGCCCAAATATA
CTGGTACA
Found at i:44155115 original size:38 final size:38
Alignment explanation
Indices: 44154812--44155120 Score: 225
Period size: 38 Copynumber: 7.9 Consensus size: 38
44154802 GAAGCCTGAT
* * *
44154812 ATAACACATCGGCACAAAGCTTACTAGGCACAAAGCCTGA
1 ATAACAC-T-GGCACAAAGCCTACTAGGCACATAGCCCGA
** * *
44154852 TATAGTACACCAGCACGAAGCCTACTAGGCACAAAGCCCGA
1 -ATA--ACACTGGCACAAAGCCTACTAGGCACATAGCCCGA
** * * *
44154893 TATAATACACCAGCACAAAGCCTGCTAGGCATA-AGGCCGAA
1 -AT-A-ACACTGGCACAAAGCCTACTAGGCACATAGCCCG-A
* * *
44154934 ATATCACTGGCACAAAGCCTGCTAGGCACAAAGCCCGA
1 ATAACACTGGCACAAAGCCTACTAGGCACATAGCCCGA
* * *
44154972 ATATCACTGGCACAAAGCCTATTAGGCACGA-AGCCCAA
1 ATAACACTGGCACAAAGCCTACTAGGCAC-ATAGCCCGA
* * * *
44155010 ATATA-TCTGGTACAAAGCCTGCTAGGCACATAGCTC-A
1 ATA-ACACTGGCACAAAGCCTACTAGGCACATAGCCCGA
** *
44155047 A-AATCACCAGCACAAAGTC-AGCTAGGCACATAGCCCGA
1 ATAA-CACTGGCACAAAGCCTA-CTAGGCACATAGCCCGA
*
44155085 ATAACACTGGTACAAAGCCTACTAGGCACATAGCCC
1 ATAACACTGGCACAAAGCCTACTAGGCACATAGCCC
44155121 AAAATCACCG
Statistics
Matches: 220, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 26 0.12
38 112 0.51
39 10 0.05
40 7 0.03
41 58 0.26
42 1 0.00
43 4 0.02
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (38 bp):
ATAACACTGGCACAAAGCCTACTAGGCACATAGCCCGA
Found at i:44161386 original size:37 final size:36
Alignment explanation
Indices: 44161319--44161407 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 36
44161309 CAACTATAAG
44161319 TGCCGAATGC--ACATAT-TCACTTATACCCACCTA
1 TGCCGAATGCATACATATATCACTTATACCCACCTA
*
44161352 TGCCGAATGCATACATATATACACTTATATCCACCTA
1 TGCCGAATGCATACATATAT-CACTTATACCCACCTA
*
44161389 CGCCGAATGCATACATATA
1 TGCCGAATGCATACATATA
44161408 CACATTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
33 10 0.20
35 6 0.12
36 1 0.02
37 33 0.66
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (36 bp):
TGCCGAATGCATACATATATCACTTATACCCACCTA
Found at i:44161660 original size:41 final size:41
Alignment explanation
Indices: 44161595--44161751 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 41
44161585 TTTAAACAAA
* * * * *
44161595 TTCACTGGCACTTCA-CCTGATAGGCTTATAATCTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGTCTAATTCAG
* *
44161636 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGTCTAATTCAG
* * *
44161677 TTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCAATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CCTATAGTCTAATTCAG
* *
44161718 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCT
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGTCT
44161752 GAACAATTTC
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.03
41 95 0.96
42 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGTCTAATTCAG
Found at i:44161763 original size:41 final size:40
Alignment explanation
Indices: 44161636--44161768 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 40
44161626 TCTAATTCCG
* * * * *
44161636 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA-ACAA
* *
44161677 TTCACCGGCACTTAGCCTGCTGGACGTATAGTC-CAATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAA--CAA
44161718 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAACAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAACAA
*
44161758 TTTCACTGGCA
1 -TTCACCGGCA
44161769 ATAAATCCGA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
40 4 0.05
41 72 0.92
42 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAACAA
Found at i:44171924 original size:44 final size:42
Alignment explanation
Indices: 44171855--44172397 Score: 341
Period size: 44 Copynumber: 12.9 Consensus size: 42
44171845 CCAAAGAATT
* *
44171855 ACAG-ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAA
1 ACAGAATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTGAA
* *
44171896 TATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT--A
1 -ACAG-AATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * *
44171938 A-AGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCA
1 ACAGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * *
44171979 CCAG-GTCTTATTTCCCTG-AGATTACAGCGGAGCAGATTGAA
1 ACAGAATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTGAA
* *
44172020 TATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT--A
1 -ACAG-AATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * *
44172062 A-AGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCA
1 ACAGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * *
44172103 CCAG-GTCTTATTTCCCTG-AGATTACAGCGGAGCAGATTGAA
1 ACAGAATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTGAA
* *
44172144 TATAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT--A
1 -ACAG-AATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * *
44172186 A-AGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCA
1 ACAGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
* * * * * *
44172227 CCAG-GTCTTATTTCCCTG-AGATTACAGTGGAACAGACT-AA
1 ACAGAATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTGAA
* * * *
44172267 AGAATGTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGG
1 A-CA-G--A-ATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGA-A
* * *
44172315 CCAGAAATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAA
1 ACAG-AATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTGAA
** *
44172358 GACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
1 -ACAGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATT
44172398 AAAATAAAGG
Statistics
Matches: 385, Mismatches: 81, Indels: 69
0.72 0.15 0.13
Matches are distributed among these distances:
39 90 0.23
40 13 0.03
41 82 0.21
42 17 0.04
43 29 0.08
44 116 0.30
45 7 0.02
46 28 0.07
47 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
ACAGAATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTGAA
Found at i:44172080 original size:124 final size:124
Alignment explanation
Indices: 44171860--44172310 Score: 787
Period size: 124 Copynumber: 3.6 Consensus size: 124
44171850 GAATTACAGA
*
44171860 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
1 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
44171925 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
66 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
44171984 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
1 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
44172049 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
66 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
44172108 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
1 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
44172173 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
66 GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
* * * * * * *
44172232 TCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGA-ATGTCAGATCTTATCTCCCTGAGGTT
1 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATA-GT-A-ATCCTATCTCCCTGAAGTT
*
44172296 ACAGTGGAGCAGATT
63 ACAGTGGAGCGGATT
44172311 GAGGCCAGAA
Statistics
Matches: 315, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
123 1 0.00
124 282 0.90
125 1 0.00
126 31 0.10
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (124 bp):
TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACA
GTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG
Found at i:44172268 original size:80 final size:80
Alignment explanation
Indices: 44171907--44172257 Score: 293
Period size: 80 Copynumber: 4.3 Consensus size: 80
44171897 ATAGTAATCC
*
44171907 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCG
44171972 GATCGCACCAGGTCT
66 GATCGCACCAGGTCT
* * * * *
44171987 TATTTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAG-TTACAGTGGAGCGGATT--A-A-AG-GATCTTATCTCCCTGAAGTTACAGT
* * *
44172051 GGAGCGGAT--TA-AAGGATCT
60 AGAGCGGATCGCACCAGG-TCT
* * * * * **
44172070 TATCTCTCTGAAGTTACAGTAGAGCGGATCGCACCAGG-TCTTATTTCCCTG-AGATTACAGCGG
1 TATCTCCCTGAAGTTACAGTGGAGCGGAT--TA-AAGGATCTTATCTCCCTGAAG-TTACAGTAG
* * * ** * *
44172133 AGCAGATTGAATATAGTAATCC
62 AGCGGATCGCA-CCAG--GTCT
*
44172155 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCG
44172220 GATCGCACCAGGTCT
66 GATCGCACCAGGTCT
*
44172235 TATTTCCCTG-AGATTACAGTGGA
1 TATCTCCCTGAAG-TTACAGTGGA
44172258 ACAGACTAAA
Statistics
Matches: 209, Mismatches: 42, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
79 6 0.03
80 70 0.33
82 12 0.06
83 54 0.26
84 8 0.04
85 59 0.28
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (80 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCG
GATCGCACCAGGTCT
Found at i:44179165 original size:10 final size:9
Alignment explanation
Indices: 44179152--44179245 Score: 70
Period size: 9 Copynumber: 10.6 Consensus size: 9
44179142 TTTTAAAGTT
44179152 TTTTTATACA
1 TTTTTATA-A
*
44179162 TTTTTACAA
1 TTTTTATAA
44179171 TTTTTAT--
1 TTTTTATAA
44179178 TTTTTATAA
1 TTTTTATAA
** *
44179187 AATTT-TCA
1 TTTTTATAA
* *
44179195 TTTTTTTCA
1 TTTTTATAA
*
44179204 -TTTTATAG
1 TTTTTATAA
44179212 TTTTTATAA
1 TTTTTATAA
44179221 TTTTTAATAA
1 TTTTT-ATAA
44179231 TTTCTTATAA
1 TTT-TTATAA
44179241 TTTTT
1 TTTTT
44179246 TTAAAAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
7 7 0.10
8 10 0.15
9 27 0.40
10 21 0.31
11 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44179182 original size:26 final size:25
Alignment explanation
Indices: 44179151--44179245 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 25
44179141 CTTTTAAAGT
44179151 TTTTTTATACATTTTTACAATTTTTA
1 TTTTTTATA-ATTTTTACAATTTTTA
*
44179177 TTTTTTATAAAATTTT-C-ATTTTT-
1 TTTTTTAT-AATTTTTACAATTTTTA
* *
44179200 TTCATTTTATAGTTTTTATAATTTTTAA
1 TT--TTTTATAATTTTTACAATTTTT-A
44179228 TAATTTCTTATAATTTTT
1 T--TTT-TTATAATTTTT
44179246 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
23 2 0.04
24 11 0.20
25 7 0.13
26 19 0.35
27 1 0.02
28 3 0.06
29 10 0.19
30 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (25 bp):
TTTTTTATAATTTTTACAATTTTTA
Found at i:44179585 original size:21 final size:19
Alignment explanation
Indices: 44179560--44179611 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
44179550 ATTGATGTAA
44179560 TTTTATAATTTTATAATTATT
1 TTTTATAATTTTA-AATT-TT
*
44179581 TTTTATGATTTTAAATTTT
1 TTTTATAATTTTAAATTTT
44179600 TTATT-TAATTTT
1 TT-TTATAATTTT
44179612 TATTAGACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 6 0.21
21 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTATAATTTTAAATTTT
Found at i:44179611 original size:28 final size:29
Alignment explanation
Indices: 44179559--44179614 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
44179549 GATTGATGTA
*
44179559 ATTTTATAATTTTATAATTATTTTTTATG
1 ATTTTATAATTTTATAATTAATTTTTATG
* *
44179588 ATTTTA-AATTTTTTATTTAATTTTTAT
1 ATTTTATAATTTTATAATTAATTTTTAT
44179615 TAGACTGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (29 bp):
ATTTTATAATTTTATAATTAATTTTTATG
Found at i:44181735 original size:51 final size:51
Alignment explanation
Indices: 44181676--44181785 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
44181666 ACCCTTAAAG
* *
44181676 TTTACATATTCTGTCAATTTGGTCTTGTTTTAACAAATTCAGTCTT-CAACA
1 TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAG-CTTGCAACA
* * * *
44181727 TTTACATATTCTATCATTTTGGTTTTGATTTAACAAATTTAGCTTGTAACA
1 TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
44181778 TTTACATA
1 TTTACATA
44181786 GGATATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.06
51 49 0.94
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGGTCTTGATTTAACAAATTCAGCTTGCAACA
Found at i:44182746 original size:24 final size:24
Alignment explanation
Indices: 44182719--44182766 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44182709 GAAGTATGGA
44182719 CATAACTTATTTATGTGTTAATGC
1 CATAACTTATTTATGTGTTAATGC
44182743 CATAACTTATTTATGTGTTAATGC
1 CATAACTTATTTATGTGTTAATGC
44182767 ATCCATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (24 bp):
CATAACTTATTTATGTGTTAATGC
Found at i:44183605 original size:15 final size:16
Alignment explanation
Indices: 44183585--44183632 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
44183575 TTAATTTTTG
44183585 TAATTTTTTTAGAAAT
1 TAATTTTTTTAGAAAT
* *
44183601 T-ATTTTTATAGTAAT
1 TAATTTTTTTAGAAAT
*
44183616 TAATATTTTTTATAAAT
1 TAAT-TTTTTTAGAAAT
44183633 ATAAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 13 0.52
16 3 0.12
17 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TAATTTTTTTAGAAAT
Found at i:44189933 original size:31 final size:32
Alignment explanation
Indices: 44189895--44189958 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
44189885 GTTTTACACG
* *
44189895 TATAATTAT-ATTAATTTAAAATTTATATATA
1 TATAATTATAATTAAATCAAAATTTATATATA
44189926 TATAATTATACATTAAATCAAAATTTATATATA
1 TATAATTATA-ATTAAATCAAAATTTATATATA
44189959 ATTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.31
33 20 0.69
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TATAATTATAATTAAATCAAAATTTATATATA
Found at i:44193144 original size:26 final size:26
Alignment explanation
Indices: 44193108--44193158 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
44193098 TTTCATACAC
44193108 TACCAAGTTTCATACTAACCACTTTG
1 TACCAAGTTTCATACTAACCACTTTG
44193134 TACCAAGTTTCATACTAACCACTTT
1 TACCAAGTTTCATACTAACCACTTT
44193159 ATATACAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (26 bp):
TACCAAGTTTCATACTAACCACTTTG
Found at i:44196332 original size:3 final size:3
Alignment explanation
Indices: 44196324--44196349 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44196314 AGGCGAAATT
44196324 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
44196350 CATCTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:44201918 original size:16 final size:17
Alignment explanation
Indices: 44201897--44201940 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
44201887 AGGTATTTGA
44201897 TATTTGGGTTAATT-TT
1 TATTTGGGTTAATTATT
*
44201913 TATTTGGGTTAGTTATT
1 TATTTGGGTTAATTATT
*
44201930 TAGTTGGGTTA
1 TATTTGGGTTA
44201941 TTGAAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (17 bp):
TATTTGGGTTAATTATT
Found at i:44201936 original size:17 final size:16
Alignment explanation
Indices: 44201900--44201940 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
44201890 TATTTGATAT
*
44201900 TTGGGTTAATTTTTAT
1 TTGGGTTAATTTTTAG
*
44201916 TTGGGTTAGTTATTTAG
1 TTGGGTTAATT-TTTAG
44201933 TTGGGTTA
1 TTGGGTTA
44201941 TTGAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (16 bp):
TTGGGTTAATTTTTAG
Found at i:44202434 original size:21 final size:21
Alignment explanation
Indices: 44202393--44202434 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
44202383 AGAGCCAAAG
* *
44202393 TAAACTTTAAAAATTGGAATT
1 TAAACTTTAAAAATAGAAATT
44202414 TAAA-TTTAAAAATAAGAAATT
1 TAAACTTTAAAAAT-AGAAATT
44202435 AGGGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAACTTTAAAAATAGAAATT
Found at i:44208349 original size:9 final size:9
Alignment explanation
Indices: 44208335--44208367 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
44208325 ATAAATAAAC
44208335 AAAAATATA
1 AAAAATATA
44208344 AAAAATATA
1 AAAAATATA
44208353 AAAAATA-A
1 AAAAATATA
44208361 AAAAATA
1 AAAAATA
44208368 GTCCATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATATA
Found at i:44216640 original size:30 final size:30
Alignment explanation
Indices: 44216604--44216680 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
44216594 GTCTTCTCAA
*
44216604 TCCCAAGATCCTGAATGAGATATCGAGTTT
1 TCCCAAGATCCTGAATGAGATATCAAGTTT
*
44216634 TCCCAAGCTCCTGAATGAGATATCAAGTTT
1 TCCCAAGATCCTGAATGAGATATCAAGTTT
* *
44216664 TCTCAAGTTCCTGAATG
1 TCCCAAGATCCTGAATG
44216681 TCCTCATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (30 bp):
TCCCAAGATCCTGAATGAGATATCAAGTTT
Found at i:44218679 original size:6 final size:6
Alignment explanation
Indices: 44218668--44218692 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44218658 CATTAATCTA
44218668 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
44218693 CTTTTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:44220109 original size:21 final size:22
Alignment explanation
Indices: 44220068--44220115 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
44220058 ATAGGTAGAT
*
44220068 TAAATTAATTGTTTGTTAATAA
1 TAAATTAATTGTTTGTAAATAA
44220090 TAAATTAATT-TTTGTAAATAA
1 TAAATTAATTGTTTGTAAATAA
44220111 TAAAT
1 TAAAT
44220116 ATCACTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTAATTGTTTGTAAATAA
Found at i:44220125 original size:40 final size:39
Alignment explanation
Indices: 44220081--44220156 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
44220071 ATTAATTGTT
44220081 TGTTAATAATAAAT-TAA-TTTTTGTAAATAATAAATATCAC
1 TGTTAATAAT-AATCTAACTTTTT-T-AATAATAAATATCAC
*
44220121 TGTTAATAATAATCTAACTTTTTTTATAATAAATAT
1 TGTTAATAATAATCTAACTTTTTTAATAATAAATAT
44220157 AATTGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 14 0.42
40 14 0.42
41 5 0.15
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (39 bp):
TGTTAATAATAATCTAACTTTTTTAATAATAAATATCAC
Found at i:44224816 original size:11 final size:11
Alignment explanation
Indices: 44224800--44224839 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
44224790 ATTAATAGGT
44224800 ATTATAATAAA
1 ATTATAATAAA
44224811 ATTATAATAAA
1 ATTATAATAAA
44224822 ATTATAATAAA
1 ATTATAATAAA
*
44224833 ATAATAA
1 ATTATAA
44224840 AAACAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:44224966 original size:19 final size:19
Alignment explanation
Indices: 44224942--44224980 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44224932 GAACCCACCA
44224942 GCGCCATAGGAGTTTTGAG
1 GCGCCATAGGAGTTTTGAG
44224961 GCGCCATAGGAGTTTTGAG
1 GCGCCATAGGAGTTTTGAG
44224980 G
1 G
44224981 TTTTAAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.26
Consensus pattern (19 bp):
GCGCCATAGGAGTTTTGAG
Found at i:44226195 original size:17 final size:17
Alignment explanation
Indices: 44226175--44226207 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44226165 AATGTGTGTA
44226175 TTATAGAAATGCACCTC
1 TTATAGAAATGCACCTC
44226192 TTATAGAAATGCACCT
1 TTATAGAAATGCACCT
44226208 GAGTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (17 bp):
TTATAGAAATGCACCTC
Found at i:44231399 original size:16 final size:17
Alignment explanation
Indices: 44231378--44231410 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44231368 CATGATAGAA
44231378 CATATAAATTT-AAAAT
1 CATATAAATTTGAAAAT
*
44231394 CATATATATTTGAAAAT
1 CATATAAATTTGAAAAT
44231411 TCTTTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CATATAAATTTGAAAAT
Found at i:44232717 original size:16 final size:16
Alignment explanation
Indices: 44232692--44232724 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44232682 TTATAGGTGG
44232692 AATTGGAATCATCAAT
1 AATTGGAATCATCAAT
*
44232708 AATTGTAATCATCAAT
1 AATTGGAATCATCAAT
44232724 A
1 A
44232725 TATTTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (16 bp):
AATTGGAATCATCAAT
Found at i:44237314 original size:144 final size:144
Alignment explanation
Indices: 44237109--44237737 Score: 1035
Period size: 144 Copynumber: 4.4 Consensus size: 144
44237099 AAAGCTTGCC
* * * * *
44237109 AATTTCTTTTGGG-ATAGAACCTTTTAATAGATTAGAACCAAGGCTTAAGTCCAGCATCTTTGAT
1 AATTTC-TTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGAT
* *
44237173 AAACTACCAATACAAGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTCCAAAAAAGTTAA
65 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAA
44237238 ATTTGCTAGATTACA
130 ATTTGCTAGATTACA
*
44237253 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
* **
44237318 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTATTTTGGGAGAGGTACAACGAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAA
*
44237383 TTTGCTAGATCACA
131 TTTGCTAGATTACA
* *
44237397 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGTAAGGCTTGAGTACTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
*
44237462 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTCCAAAAAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAA
44237527 TTTGCTAGATTACA
131 TTTGCTAGATTACA
* *
44237541 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATA
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
* * **
44237606 AGCTACCAATACAAGAAGGGATTGAACCTGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAA
44237671 TTTGCTAGATTACA
131 TTTGCTAGATTACA
* *
44237685 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGTAAGGCTTGAGTACT
1 AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACT
44237738 AGAAGGGATT
Statistics
Matches: 451, Mismatches: 33, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
143 5 0.01
144 446 0.99
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (144 bp):
AATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCATCTTTGATA
AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAA
TTTGCTAGATTACA
Found at i:44237830 original size:119 final size:119
Alignment explanation
Indices: 44237619--44237856 Score: 415
Period size: 119 Copynumber: 2.0 Consensus size: 119
44237609 TACCAATACA
* **
44237619 AGAAGGGATTGAACCTGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTAC
1 AGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAATTTGCTAGATTAC
*
44237684 AAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGT-AAGGCTTGAGTACT
66 AAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAA-TCAAGGCTTAAGTACT
*
44237738 AGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTCCAAAAAAGTTAAATTTGCTAGATTAC
1 AGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAATTTGCTAGATTAC
44237803 AAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGGCTTAAGTACT
66 AAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGGCTTAAGTACT
44237857 GCATCTTTGA
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.01
119 112 0.99
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (119 bp):
AGAAGGGATTGAACCGGTCAATTTGTTTTGGGAGAGGTACAAAAAAGTTAAATTTGCTAGATTAC
AAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGGCTTAAGTACT
Found at i:44239374 original size:50 final size:50
Alignment explanation
Indices: 44239320--44239420 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
44239310 AATATAACTT
44239320 ACTTATGTGTCCATACTATATGTTATAGAAAATAATATACTTACTTATAA
1 ACTTATGTGTCCATACTATATGTTATAGAAAATAATATACTTACTTATAA
* *
44239370 ACTTATGTGTCTATACTATATGTTATAGAAAATAATATACTTATTTATAA
1 ACTTATGTGTCCATACTATATGTTATAGAAAATAATATACTTACTTATAA
44239420 A
1 A
44239421 TCATTTTTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (50 bp):
ACTTATGTGTCCATACTATATGTTATAGAAAATAATATACTTACTTATAA
Found at i:44241692 original size:16 final size:17
Alignment explanation
Indices: 44241671--44241703 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44241661 CATGATAGAA
44241671 CATATAAATTT-AAAAT
1 CATATAAATTTGAAAAT
*
44241687 CATATATATTTGAAAAT
1 CATATAAATTTGAAAAT
44241704 TCTTTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CATATAAATTTGAAAAT
Found at i:44243012 original size:16 final size:16
Alignment explanation
Indices: 44242987--44243019 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44242977 TTATAGGTGG
44242987 AATTGGAATCATCAAT
1 AATTGGAATCATCAAT
*
44243003 AATTGTAATCATCAAT
1 AATTGGAATCATCAAT
44243019 A
1 A
44243020 TATTTGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (16 bp):
AATTGGAATCATCAAT
Found at i:44247592 original size:90 final size:90
Alignment explanation
Indices: 44247439--44247620 Score: 312
Period size: 90 Copynumber: 2.0 Consensus size: 90
44247429 CAATTTATTT
44247439 TGGGAGAGGTACAACGAAGTTAAATTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAA
1 TGGGAGAGGTACAACGAAGTTAAATTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAA
*
44247504 TAGATTAGAAGT-AAGGCTTGAGTAC
66 TAGATTAGAA-TCAAGGCTTAAGTAC
* *
44247529 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
1 TGGGAGAGGTACAACGAAGTTAAATTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAA
*
44247594 TAGATTAGAATCAAGTCTTAAGTAC
66 TAGATTAGAATCAAGGCTTAAGTAC
44247619 TG
1 TG
44247621 CATCTTTGAT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
89 1 0.01
90 86 0.99
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (90 bp):
TGGGAGAGGTACAACGAAGTTAAATTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAA
TAGATTAGAATCAAGGCTTAAGTAC
Found at i:44247742 original size:234 final size:234
Alignment explanation
Indices: 44247333--44247764 Score: 724
Period size: 234 Copynumber: 1.8 Consensus size: 234
44247323 AAAGCTTGCC
*
44247333 AATTTCTTTTGGGATAGAACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGATA
1 AATTTCTTTGGGGATAGAACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGATA
44247398 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTATTTTGGGAGAGGTACAACGAAGTTAAA
66 AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTATTTTGGGAGAGGTACAACGAAGTTAAA
*
44247463 TTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAAGT-AAGGCTTGAGT
131 TTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAA-TCAAGGCTTAAGT
44247527 ACTGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACA
195 ACTGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACA
* * * *
44247567 AATTTC-TTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGAT
1 AATTTCTTTGGGG-ATAGAACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGAT
* * * *
44247631 AAGCTACCAATACAAGAAGGGATTGAACCTGTCAATTTGTTTTGGGAGAGGTACAATGAAGTTAA
65 AAACTACCAATACAAGAAGGGATTGAACCAGTCAATTTATTTTGGGAGAGGTACAACGAAGTTAA
* *
44247696 ATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGTCTTAAGT
130 ATTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGGCTTAAGT
44247761 ACTG
195 ACTG
44247765 CATCTTTGAT
Statistics
Matches: 184, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
233 6 0.03
234 178 0.97
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (234 bp):
AATTTCTTTGGGGATAGAACCTTTTAATAGATTAGAAGCAAGGCTTAAGTACTGCAACTTTGATA
AACTACCAATACAAGAAGGGATTGAACCAGTCAATTTATTTTGGGAGAGGTACAACGAAGTTAAA
TTTGCTAGATCACAAATTTCTTGGGGAATAGGACCTTTTAATAGATTAGAATCAAGGCTTAAGTA
CTGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACA
Found at i:44247789 original size:144 final size:144
Alignment explanation
Indices: 44247529--44247948 Score: 804
Period size: 144 Copynumber: 2.9 Consensus size: 144
44247519 GCTTGAGTAC
44247529 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
1 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
44247594 TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
66 TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
44247659 CTGTCAATTTGTTT
131 CTGTCAATTTGTTT
44247673 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
1 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
44247738 TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
66 TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
*
44247803 CAGTCAATTTGTTT
131 CTGTCAATTTGTTT
44247817 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
1 TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
* * *
44247882 TAGATTAGAATCAAGGCTTAAGTACTGCATCTTTGATAAACTACCAACACAAGAAGGGATTGAAC
66 TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
44247947 CT
131 CT
44247949 TGAAGTTGGT
Statistics
Matches: 271, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 271 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (144 bp):
TGGGAGAGGTACAATGAAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGGACCTTTTAA
TAGATTAGAATCAAGTCTTAAGTACTGCATCTTTGATAAGCTACCAATACAAGAAGGGATTGAAC
CTGTCAATTTGTTT
Found at i:44248207 original size:144 final size:144
Alignment explanation
Indices: 44248021--44248315 Score: 502
Period size: 144 Copynumber: 2.0 Consensus size: 144
44248011 TATTGAATCG
* *
44248021 ACAAGTCTACTGTTGTAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
1 ACAATTCTACTGTTGGAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
* *
44248086 AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGGTTAATTGACCTAAAGCAG
66 AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCAG
44248151 AAGGGATTGGACCA
131 AAGGGATTGGACCA
* *
44248165 ACAATTCTATTGTTGGAGAGA-CTCAAATAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
1 ACAATTCTACTGTTGGAGAGATC-CAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGA
* *
44248229 TAGATCCATTGATTTGGTTCCCCGAAAGGATCAGAGATTGGAGATTGATTAATTGACCCAAAGCA
65 TAGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCA
44248294 GAAGGGATTGGACCA
130 GAAGGGATTGGACCA
44248309 ACAATTC
1 ACAATTC
44248316 CACATTGCCT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
143 1 0.01
144 141 0.99
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (144 bp):
ACAATTCTACTGTTGGAGAGATCCAAACAAGTCAAATTTCTCAAATATCCAATTTCTAATGGGAT
AGATCCATTGATTTGGTTCCCCCAAAGGATCAGAGATTGGAGACTGATTAATTGACCCAAAGCAG
AAGGGATTGGACCA
Found at i:44249114 original size:16 final size:17
Alignment explanation
Indices: 44249065--44249114 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 17
44249055 AGTATCAATA
*
44249065 ATGCAAACA-TTATATT
1 ATGCAAATACTTATATT
44249081 ATGCAAATAC-TATATT
1 ATGCAAATACTTATATT
44249097 ATGCAAATACTTAT-TT
1 ATGCAAATACTTATATT
44249113 AT
1 AT
44249115 AAAAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 28 0.90
17 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (17 bp):
ATGCAAATACTTATATT
Found at i:44250133 original size:18 final size:18
Alignment explanation
Indices: 44250103--44250152 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
44250093 TTAGAATATT
*
44250103 TTAAAAATGTAAAAGTTA
1 TTAAAAATATAAAAGTTA
*
44250121 -TAAAAATTATAAAATTTA
1 TTAAAAA-TATAAAAGTTA
*
44250139 TTACAAATATAAAA
1 TTAAAAATATAAAA
44250153 AATAAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
19 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
TTAAAAATATAAAAGTTA
Found at i:44252195 original size:22 final size:23
Alignment explanation
Indices: 44252153--44252198 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
44252143 AGTATTTTAA
*
44252153 TTTTAGAACATATATTTTATATT
1 TTTTAGAACATATATTATATATT
44252176 TTTTA-AA-ATATAATTATATATT
1 TTTTAGAACATAT-ATTATATATT
44252198 T
1 T
44252199 CTTATTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 12 0.57
23 5 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTAGAACATATATTATATATT
Found at i:44252561 original size:18 final size:18
Alignment explanation
Indices: 44252511--44252565 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
44252501 TTTTAATGCA
44252511 ATAATAATATATTTTAAT
1 ATAATAATATATTTTAAT
* * *
44252529 TTACAAAAAATATTTTAAT
1 ATA-ATAATATATTTTAAT
44252548 ATAATAATATATTTTAAT
1 ATAATAATATATTTTAAT
44252566 TTTAGGACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATAATATATTTTAAT
Found at i:44252561 original size:37 final size:38
Alignment explanation
Indices: 44252488--44252567 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
44252478 TTTATACAAG
*
44252488 TTTACAAAAATTATTTTAATGCAATAATAATATATTTTAA
1 TTTACAAAAAATATTTTAAT--AATAATAATATATTTTAA
44252528 TTTACAAAAAATATTTTAAT-ATAATAATATATTTTAA
1 TTTACAAAAAATATTTTAATAATAATAATATATTTTAA
44252565 TTT
1 TTT
44252568 TAGGACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 20 0.51
40 19 0.49
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (38 bp):
TTTACAAAAAATATTTTAATAATAATAATATATTTTAA
Found at i:44258186 original size:14 final size:15
Alignment explanation
Indices: 44258167--44258196 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44258157 TTTTTAAGCC
44258167 TTTATGTT-AGGGTT
1 TTTATGTTAAGGGTT
44258181 TTTATGTTAAGGGTT
1 TTTATGTTAAGGGTT
44258196 T
1 T
44258197 AGGGTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.57
Consensus pattern (15 bp):
TTTATGTTAAGGGTT
Found at i:44258222 original size:43 final size:43
Alignment explanation
Indices: 44258172--44258955 Score: 706
Period size: 43 Copynumber: 18.6 Consensus size: 43
44258162 AAGCCTTTAT
* * *
44258172 GTTAGGGTTTTTATGTTAAGGGTTTAGGGTATTTAGGTTGAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* **
44258215 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* **
44258258 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* * * * * * *
44258301 GTTTAAGGTTTTAAGTTTAA-TGTGTAGAGTTTTTATGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
*
44258344 GTTTAGGGTTTTTAGGTTGAGGG-TTAGGG-TTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
*
44258386 GTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* *
44258430 ATTAGGGTTTTTAGGTTGAGGG-TTAGGGTTTTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
** **
44258472 GTTTATAGAATTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* *** * *
44258515 GTTTATGAAATTTAGGTTAAAGGTTT-GGGGTTTTAGGTTAAGG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* * * *
44258558 GTTAGGGTTTTTAGATTTAA-GGTTTAGGG-TTTTAAGTTTAGT
1 GTTAGGGTTTTTAG-GTTAAGGGTTTAGGGTTTTTAGGTTAAGG
*
44258600 GTATAGGGTTTTT-TGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
1 GT-TAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* * * * * *
44258643 GATAGGATTTTTAGGTTAATGGTTTAGGG-TTTTAAGTTTAGT
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* * *
44258685 GTGTAGGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTGATG
1 GT-TAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
*
44258729 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTCTTAGGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* *
44258772 GTTAAGGTTTTTAGGTTAAGGGTTTAGGG---TTAGGGTTTTAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTA-GG-TTAAGG
* * * *
44258814 TTTATGAG--TTTAGGGTTTAA-GG-TTAGTG-TTTTAGGTTAATG
1 GTTA-GGGTTTTTA-GG-TTAAGGGTTTAGGGTTTTTAGGTTAAGG
*
44258855 GTTAGGG----T---TT-AGGG-TTA-GGTTTTTAGCTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* * * ** *
44258888 GTTTATGGTTTTTAGGTTTAGGGTTTAGTGTTTTTAATTTAAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
* *
44258932 GTTAGAGTTTTTAAGTTAAGGGTT
1 GTTAGGGTTTTTAGGTTAAGGGTT
44258956 ATGATTAGGG
Statistics
Matches: 616, Mismatches: 91, Indels: 68
0.79 0.12 0.09
Matches are distributed among these distances:
32 2 0.00
33 19 0.03
34 5 0.01
38 2 0.00
40 5 0.01
41 24 0.04
42 126 0.20
43 379 0.62
44 54 0.09
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (43 bp):
GTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGG
Found at i:44258280 original size:64 final size:64
Alignment explanation
Indices: 44258173--44258802 Score: 648
Period size: 64 Copynumber: 9.8 Consensus size: 64
44258163 AGCCTTTATG
* * *
44258173 TTAGGGTTTTTATGTTAAGGGTTTAGGGTATTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGT
* ** * **
44258238 TTATGGAATTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAGGTTAAGGGT
1 TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGT
* * * * * * *
44258303 TTAAGGTTTTAAGTTTAA-TGTGTAGAGTTTTTATGTTAAGGGTTTAGGGTTTTTAGGTTGAGGG
1 TTAGGGTTTTTAGGTTAAGGGT-TAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGG
44258367 -
64 T
*
44258367 TTAGGG-TTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGA-GG
1 TTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGG
*
44258430 A
64 T
* ** **
44258431 TTAGGGTTTTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAGGGTTTATAGAATTTAGGTTAAGGG-
1 TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGT
* *** * * *
44258495 TTAGGGTTTTTAGGTTAAGGGTTTATGAAATTTAGGTTAAAGGTTTGGGGTTTTAGGTTAAGGG-
1 TTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGT
* * * * * *
44258559 TTAGGGTTTTTAGATTTAAGGTTTAGGG-TTTTAAGTTTAGTGTATAGGGTTTTT-TGTTAAGGG
1 TTAGGGTTTTTAG-GTTAAGGGTTAGGGTTTTTAGGTTAAGGGT-TAGGGTTTTTAGGTTAAGGG
44258622 T
64 T
* * * * * *
44258623 TTAGGGTTTTTAGGTTAAGGGATAGGATTTTTAGGTTAATGGTTTAGGG-TTTTAAGTTTAGTGT
1 TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAA-GGGTTAGGGTTTTTAGGTTAAGGGT
* * * *
44258687 GTAGGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTGATGGTTAGGGTTTTTAGGTTAAGGGT
1 TTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGT
* *
44258752 TTAGGGTTCTTAGGTTAAGGGTTAAGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAGGGTT
44258803 AGGGTTTTAG
Statistics
Matches: 467, Mismatches: 81, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
63 43 0.09
64 246 0.53
65 178 0.38
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (64 bp):
TTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGT
Found at i:44258353 original size:7 final size:7
Alignment explanation
Indices: 44258341--44258418 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
44258331 TTTTATGTTA
44258341 AGGGTTT
1 AGGGTTT
44258348 AGGGTTTTT
1 AGGG--TTT
*
44258357 A-GGTTG
1 AGGGTTT
44258363 AGGG-TT
1 AGGGTTT
44258369 AGGGTTTT
1 AGGG-TTT
*
44258377 A-GGTTA
1 AGGGTTT
44258383 AGGGTTT
1 AGGGTTT
44258390 AGGGTTTTT
1 AGGG--TTT
*
44258399 A-GGTTA
1 AGGGTTT
44258405 AGGGTTT
1 AGGGTTT
44258412 AGGGTTT
1 AGGGTTT
44258419 TTAGGTTGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
6 14 0.25
7 27 0.48
8 7 0.12
9 8 0.14
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:44258759 original size:14 final size:14
Alignment explanation
Indices: 44258738--44258897 Score: 70
Period size: 13 Copynumber: 11.6 Consensus size: 14
44258728 GGTTAGGGTT
44258738 TTTA-GGTTAAGGG
1 TTTAGGGTTAAGGG
*
44258751 TTTAGGGTTCTTA-GG
1 TTTAGGG-T-TAAGGG
* *
44258766 TTAAGGGTTAAGGTT
1 TTTAGGGTTAAGG-G
44258781 TTTA-GGTTAAGGG
1 TTTAGGGTTAAGGG
44258794 TTTAGGGTT-AGGG
1 TTTAGGGTTAAGGG
* * *
44258807 TTTTAGGTTTATGAG
1 -TTTAGGGTTAAGGG
44258822 TTTAGGGTTTAA-GG
1 TTTAGGG-TTAAGGG
* *
44258836 -TTAGTGTTTTA-GG
1 TTTAG-GGTTAAGGG
* *
44258849 TTAATGGTT-AGGG
1 TTTAGGGTTAAGGG
*
44258862 TTTAGGGTT-AGGTT
1 TTTAGGGTTAAGG-G
*
44258876 TTTA-GCTTAAGGG
1 TTTAGGGTTAAGGG
*
44258889 TTTATGGTT
1 TTTAGGGTT
44258898 TTTAGGTTTA
Statistics
Matches: 109, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.01
13 45 0.41
14 44 0.40
15 17 0.16
16 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:44258824 original size:28 final size:28
Alignment explanation
Indices: 44258769--44258835 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
44258759 TCTTAGGTTA
* *
44258769 AGGGTTAAGGTTTTTAGGTTAAGGGTTT
1 AGGGTTAAGGGTTTTAGGTTAAGAGTTT
*
44258797 AGGGTT-AGGGTTTTAGGTTTATGAGTTT
1 AGGGTTAAGGGTTTTAGG-TTAAGAGTTT
44258825 AGGGTTTAAGG
1 AGGG-TTAAGG
44258836 TTAGTGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.30
28 18 0.55
29 2 0.06
30 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (28 bp):
AGGGTTAAGGGTTTTAGGTTAAGAGTTT
Found at i:44258866 original size:7 final size:7
Alignment explanation
Indices: 44258738--44258920 Score: 73
Period size: 7 Copynumber: 26.4 Consensus size: 7
44258728 GGTTAGGGTT
44258738 TTTA-GG
1 TTTAGGG
*
44258744 TTAAGGG
1 TTTAGGG
44258751 TTTAGGG
1 TTTAGGG
44258758 TTCTTA-GG
1 -T-TTAGGG
*
44258766 TTAAGGG
1 TTTAGGG
* *
44258773 TTAAGGTT
1 TTTAGG-G
44258781 TTTA-GG
1 TTTAGGG
*
44258787 TTAAGGG
1 TTTAGGG
44258794 TTTAGGG
1 TTTAGGG
44258801 -TTAGGG
1 TTTAGGG
44258807 TTTTA-GG
1 -TTTAGGG
*
44258814 TTTATGAG
1 TTTA-GGG
44258822 TTTAGGG
1 TTTAGGG
*
44258829 TTTAAGG
1 TTTAGGG
*
44258836 -TTAGTGT
1 TTTAG-GG
44258843 TTTA-GG
1 TTTAGGG
* *
44258849 TTAATGG
1 TTTAGGG
44258856 -TTAGGG
1 TTTAGGG
44258862 TTTAGGG
1 TTTAGGG
*
44258869 -TTAGGTT
1 TTTAGG-G
*
44258876 TTTA-GC
1 TTTAGGG
*
44258882 TTAAGGG
1 TTTAGGG
*
44258889 TTTATGGTT
1 TTTA-GG-G
44258898 TTTA-GG
1 TTTAGGG
44258904 TTTAGGG
1 TTTAGGG
*
44258911 TTTAGTG
1 TTTAGGG
44258918 TTT
1 TTT
44258921 TTAATTTAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 39
0.67 0.13 0.20
Matches are distributed among these distances:
6 41 0.31
7 62 0.47
8 22 0.17
9 7 0.05
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:44258900 original size:22 final size:21
Alignment explanation
Indices: 44258865--44258955 Score: 80
Period size: 22 Copynumber: 4.3 Consensus size: 21
44258855 GTTAGGGTTT
44258865 AGGG-TTAGGTTTTTAGCTTA
1 AGGGTTTAGGTTTTTAGCTTA
* *
44258885 AGGGTTTATGGTTTTTAGGTTT
1 AGGGTTTA-GGTTTTTAGCTTA
**
44258907 AGGGTTTAGTGTTTTTAATTTA
1 AGGGTTTAG-GTTTTTAGCTTA
*
44258929 AAGG-TTAGAGTTTTTAAG-TTA
1 AGGGTTTAG-GTTTTT-AGCTTA
44258950 AGGGTT
1 AGGGTT
44258956 ATGATTAGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
20 4 0.07
21 20 0.35
22 33 0.58
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (21 bp):
AGGGTTTAGGTTTTTAGCTTA
Found at i:44258936 original size:21 final size:21
Alignment explanation
Indices: 44258912--44258956 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44258902 GGTTTAGGGT
* *
44258912 TTAGTGTTTTTAATTTAAAGG
1 TTAGAGTTTTTAAGTTAAAGG
*
44258933 TTAGAGTTTTTAAGTTAAGGG
1 TTAGAGTTTTTAAGTTAAAGG
44258954 TTA
1 TTA
44258957 TGATTAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
TTAGAGTTTTTAAGTTAAAGG
Found at i:44260239 original size:7 final size:7
Alignment explanation
Indices: 44260229--44260254 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44260219 TTATATACAT
44260229 AATACTA
1 AATACTA
44260236 AATACTA
1 AATACTA
44260243 AATACTA
1 AATACTA
44260250 AATAC
1 AATAC
44260255 AATTTACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:44261505 original size:11 final size:12
Alignment explanation
Indices: 44261489--44261532 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
44261479 ATTAAATATG
44261489 AATTTGAGA-GA
1 AATTTGAGAGGA
44261500 AATTTG-GAAGGA
1 AATTTGAG-AGGA
44261512 AA-TTGAGAGGA
1 AATTTGAGAGGA
44261523 AATTTGAGAG
1 AATTTGAGAG
44261533 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:44263436 original size:12 final size:12
Alignment explanation
Indices: 44263419--44263443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44263409 AAGATGTAGA
44263419 TAAAAGGAAAGG
1 TAAAAGGAAAGG
44263431 TAAAAGGAAAGG
1 TAAAAGGAAAGG
44263443 T
1 T
44263444 GGAGGGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (12 bp):
TAAAAGGAAAGG
Found at i:44269712 original size:42 final size:43
Alignment explanation
Indices: 44269627--44269714 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
44269617 CCCAGACATT
* **
44269627 GTCTTACATGGAAATCTCATATCGATGCCAATACCCAGCTATG
1 GTCTTACATCGAAATCTCATATCGATGCCAATACCCAAATATG
*
44269670 GTCTTACA-CGAAGTCTCATATCGATGCC-ATATCCCAAATATG
1 GTCTTACATCGAAATCTCATATCGATGCCAATA-CCCAAATATG
44269712 GTC
1 GTC
44269715 GTATACGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.08
42 29 0.73
43 8 0.20
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCTTACATCGAAATCTCATATCGATGCCAATACCCAAATATG
Found at i:44269729 original size:42 final size:41
Alignment explanation
Indices: 44269639--44269729 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
44269629 CTTACATGGA
** *
44269639 AATCTCATATCGATGCCAATACCCAGCTATGGTCTTACACG
1 AATCTCATATCGATGCCAATACCCAAATATGGTCGTACACG
*
44269680 AAGTCTCATATCGATGCC-ATATCCCAAATATGGTCGTATACGG
1 AA-TCTCATATCGATGCCAATA-CCCAAATATGGTCGTACAC-G
44269723 AATCTCA
1 AATCTCA
44269730 AATCAAAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 5 0.12
42 35 0.81
43 3 0.07
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
AATCTCATATCGATGCCAATACCCAAATATGGTCGTACACG
Found at i:44269777 original size:90 final size:94
Alignment explanation
Indices: 44269660--44269865 Score: 226
Period size: 96 Copynumber: 2.2 Consensus size: 94
44269650 GATGCCAATA
* * * *
44269660 CCCAGCTATGGTCTTACACGAAGTCTC-A-T-AT-CGATGCCATATCCCAAATATGGTCGTATAC
1 CCCAGATATGGTCTTATACGAAGTCTCAATTGATCCGATGCCATACCCCAAATATGGCCGTATAC
*
44269721 GGAATCTCAAATCAAAACCTA-TGTCATAT
66 GGAATCTCAAATCAAAACCGATTG-CATAT
* *
44269750 CCCAGATATGGTCTTATACG-AGATCTCAAATTGATGCCGATGCCATACCCCAGATATGGCCTTA
1 CCCAGATATGGTCTTATACGAAG-TCTC-AATTGAT-CCGATGCCATACCCCAAATATGGCCGTA
* * ***
44269814 TACGGGATTTCAAATCAATGTCGATTGCATAT
63 TACGGAATCTCAAATCAAAACCGATTGCATAT
44269846 CCCAGATATGGTCTTATACG
1 CCCAGATATGGTCTTATACG
44269866 TTTTCTCACT
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
89 2 0.02
90 22 0.23
92 1 0.01
93 1 0.01
94 2 0.02
96 66 0.69
97 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (94 bp):
CCCAGATATGGTCTTATACGAAGTCTCAATTGATCCGATGCCATACCCCAAATATGGCCGTATAC
GGAATCTCAAATCAAAACCGATTGCATAT
Found at i:44269802 original size:48 final size:47
Alignment explanation
Indices: 44269691--44269865 Score: 199
Period size: 48 Copynumber: 3.7 Consensus size: 47
44269681 AGTCTCATAT
* * **
44269691 CGATGCCATATCCCAAATATGGTCGTATACGGAATCTCAAATCAAAAC
1 CGATGCCATATCCCAGATATGGTCTTATACGG-ATCTCAAATCAATGC
* * **
44269739 CTATGTCATATCCCAGATATGGTCTTATACGAGATCTCAAATTGATGC
1 CGATGCCATATCCCAGATATGGTCTTATACG-GATCTCAAATCAATGC
* * * *
44269787 CGATGCCATACCCCAGATATGGCCTTATACGGGATTTCAAATCAATGT
1 CGATGCCATATCCCAGATATGGTCTTATAC-GGATCTCAAATCAATGC
44269835 CGATTG-CATATCCCAGATATGGTCTTATACG
1 CGA-TGCCATATCCCAGATATGGTCTTATACG
44269866 TTTTCTCACT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 1 0.01
48 101 0.95
49 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACGGATCTCAAATCAATGC
Found at i:44269883 original size:96 final size:96
Alignment explanation
Indices: 44269691--44269865 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
44269681 AGTCTCATAT
* * *
44269691 CGATGCCATATCCCAAATATGGTCGTATACGGAATCTCAAATCAAAACCTATGTCATATCCCAGA
1 CGATGCCATACCCCAAATATGGCCGTATACGGAATCTCAAATCAAAACCGATGTCATATCCCAGA
44269756 TATGGTCTTATACGAGATCTCAAATTGATGC
66 TATGGTCTTATACGAGATCTCAAATTGATGC
* * * * ***
44269787 CGATGCCATACCCCAGATATGGCCTTATACGGGATTTCAAATCAATGTCGAT-TGCATATCCCAG
1 CGATGCCATACCCCAAATATGGCCGTATACGGAATCTCAAATCAAAACCGATGT-CATATCCCAG
44269851 ATATGGTCTTATACG
65 ATATGGTCTTATACG
44269866 TTTTCTCACT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 67 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (96 bp):
CGATGCCATACCCCAAATATGGCCGTATACGGAATCTCAAATCAAAACCGATGTCATATCCCAGA
TATGGTCTTATACGAGATCTCAAATTGATGC
Found at i:44271930 original size:18 final size:19
Alignment explanation
Indices: 44271907--44271943 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
44271897 CACCAAAAAG
44271907 GTAAATCATTTT-CAGAAA
1 GTAAATCATTTTCCAGAAA
44271925 GTAAATCATTTTCCAGAAA
1 GTAAATCATTTTCCAGAAA
44271944 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
GTAAATCATTTTCCAGAAA
Found at i:44271964 original size:14 final size:14
Alignment explanation
Indices: 44271927--44271957 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44271917 TTCAGAAAGT
44271927 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
44271941 AAATCATTTTCCGG
1 AAATCATTTTCCAG
44271955 AAA
1 AAA
44271958 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Done.