Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 146 of 211
Found at i:43408943 original size:41 final size:40
Alignment explanation
Indices: 43408876--43409154 Score: 337
Period size: 41 Copynumber: 6.8 Consensus size: 40
43408866 CTTTCGGGGT
*
43408876 TTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCG-TTTTTG-GAAAGCGCCGCTAATGATCAGGGC
* *
43408918 TTTAGCGTCGTTTTTAGGAAAGCGCCGCTAATGATCAGGCC
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGATCAGGGC
*
43408959 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGATCAGGGC
* * * *
43409000 TTTAGCGGCGTTTTTGGAAAAACGCCGCTAATGTTTAGGGA
1 TTTAGCGGCGTTTTTGG-AAAGCGCCGCTAATGATCAGGGC
*
43409041 TTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGATCAGGGC
* * *
43409082 TTTAGCAGCGTTTTTGGGGAAGCACCGCTAAT-ACTCAGGGC
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGA-TCAGGGC
*
43409123 TTTAGCGGCATTTTT-GAAGTAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGAA--AGCGCCGCTAAT
43409155 TCTCTATTTT
Statistics
Matches: 207, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 3 0.01
41 190 0.92
42 12 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGGAAAGCGCCGCTAATGATCAGGGC
Found at i:43409110 original size:123 final size:124
Alignment explanation
Indices: 43408876--43409138 Score: 386
Period size: 123 Copynumber: 2.1 Consensus size: 124
43408866 CTTTCGGGGT
* * * *
43408876 TTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGTCGTTTTTAGGAAAGC
1 TTTAGCGGCGTTTTTGGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAGGAAAGC
* * *
43408941 GCCGCTAATGATCAGGCCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGA-TCAGGGC
66 GCCGCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAAT-ACTCAGGGC
* *
43409000 TTTAGCGGCGTTTTTGGA-AAAACGCCGCTAATGTTTAGGGATTTAGCGGCGTTTTTAGGAAAGC
1 TTTAGCGGCGTTTTTGGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAGGAAAGC
* * *
43409064 GCCGCTAATGATCAGGGATTTAGCAGCGTTTTTGGGGAAGCACCGCTAATACTCAGGGC
66 GCCGCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAATACTCAGGGC
*
43409123 TTTAGCGGCATTTTTG
1 TTTAGCGGCGTTTTTG
43409139 AAGTAGCGCC
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 1 0.01
123 107 0.86
124 17 0.14
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (124 bp):
TTTAGCGGCGTTTTTGGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAGGAAAGC
GCCGCTAATGATCAGGCATTTAGCAGCATTTTTGGGAAAGCACCGCTAATACTCAGGGC
Found at i:43410670 original size:6 final size:6
Alignment explanation
Indices: 43410659--43410686 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43410649 GCTTTAAAAT
43410659 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
43410687 CTTACATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:43410970 original size:14 final size:14
Alignment explanation
Indices: 43410951--43410977 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43410941 CATAATTTAC
43410951 AAGGGGGAAAGATG
1 AAGGGGGAAAGATG
43410965 AAGGGGGAAAGAT
1 AAGGGGGAAAGAT
43410978 ATTTGAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.48, T:0.07
Consensus pattern (14 bp):
AAGGGGGAAAGATG
Found at i:43412225 original size:32 final size:33
Alignment explanation
Indices: 43412189--43412259 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
43412179 CTGGAATTTG
43412189 TTTATTTGTAATTTGTTAT-TTTTCT-GTGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTAG-GTTTT
43412221 TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
1 TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
43412254 TCTTAT
1 T-TTAT
43412260 AATGTCTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 19 0.53
33 12 0.33
34 5 0.14
ACGTcount: A:0.14, C:0.04, G:0.13, T:0.69
Consensus pattern (33 bp):
TTTATTTGTAATTTGTTATGTTTTCTAGGTTTT
Found at i:43414778 original size:43 final size:43
Alignment explanation
Indices: 43414668--43414978 Score: 269
Period size: 43 Copynumber: 7.3 Consensus size: 43
43414658 AAGTTATCCT
* * *
43414668 TTTAGTGGCGTTTGTGG-AAAAGTGTCGCTAAAAGTCAAT-GT-
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTC-ATGGTC
* * *
43414709 TATAGCGGCGTTT-T-TAATAGAGGCGTCGCTAAAGGTCATGAG-C
1 TTTAGCGGCGTTTGTGGAA-A-AAGCGTCGCTAAAGGTCATG-GTC
* * *
43414752 TTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGGTC
* ** *
43414795 TTTAGCGGCGTTTTTGGGGAAAGTGTCGCTAAAGGT-ATTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCA-TGGTC
** *
43414838 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGGTC
* * * *** *
43414881 TTTAGCGACGTTTATGGGAAAAGTACCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGGTC
* * * * *
43414924 TTTAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGGTC
43414967 -TTAGCGGCGTTT
1 TTTAGCGGCGTTT
43414979 TTTTAAAGTT
Statistics
Matches: 223, Mismatches: 36, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
40 2 0.01
41 14 0.06
42 25 0.11
43 178 0.80
44 2 0.01
45 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGGTC
Found at i:43414826 original size:86 final size:86
Alignment explanation
Indices: 43414733--43414980 Score: 331
Period size: 86 Copynumber: 2.9 Consensus size: 86
43414723 TAATAGAGGC
* * *
43414733 GTCGCTAAAGGTCATGAG-CTTTAGTGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGTTCTT
1 GTCGCTAAAGGTCATG-GTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTT
*
43414797 TAGCGGCGTTTTTGGGGAAAGT
65 TAGCGGCGTTTTTGGGAAAAGT
*
43414819 GTCGCTAAAGGT-ATTGGTCTTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCTTGGTCTT
1 GTCGCTAAAGGTCA-TGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTT
* *
43414883 TAGCGACGTTTATGGGAAAAGT
65 TAGCGGCGTTTTTGGGAAAAGT
** * * * * *
43414905 ACCGCTAAAGGTCTTGGTCTTTAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCCTGGTC-TT
1 GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTT
43414969 AGCGGCGTTTTT
66 AGCGGCGTTTTT
43414981 TTAAAGTTAG
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 14 0.10
86 128 0.90
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (86 bp):
GTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTT
AGCGGCGTTTTTGGGAAAAGT
Found at i:43416005 original size:25 final size:25
Alignment explanation
Indices: 43415977--43416075 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 25
43415967 ATTTTATTAC
43415977 ATAAACTTCTATTTTATTACATCAA
1 ATAAACTTCTATTTTATTACATCAA
** *
43416002 AT-AA-TATC-A--AAATAAC-TCAA
1 ATAAACT-TCTATTTTATTACATCAA
* * *
43416022 AAAAATTTCTATTTTATTACTTCAA
1 ATAAACTTCTATTTTATTACATCAA
43416047 ATAAACTTCTATTTTATTACATCAA
1 ATAAACTTCTATTTTATTACATCAA
43416072 ATAA
1 ATAA
43416076 TATCAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
20 5 0.09
21 8 0.14
22 2 0.04
23 2 0.04
24 8 0.14
25 32 0.56
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAACTTCTATTTTATTACATCAA
Found at i:43416068 original size:70 final size:70
Alignment explanation
Indices: 43415977--43416120 Score: 234
Period size: 70 Copynumber: 2.1 Consensus size: 70
43415967 ATTTTATTAC
43415977 ATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTAC
1 ATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTAC
* *
43416042 TTCAA
66 ATAAA
*** *
43416047 ATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAATTTTTTTTATTTTATTAC
1 ATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTAC
43416112 ATAAA
66 ATAAA
43416117 ATAA
1 ATAA
43416121 TATCAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (70 bp):
ATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTAC
ATAAA
Found at i:43416092 original size:45 final size:45
Alignment explanation
Indices: 43416045--43416139 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
43416035 TTATTACTTC
*
43416045 AAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCA
1 AAAT-AACTTCTATTTTATTACATAAAATAATATCAAAATAACTCA
*** * *
43416091 AAATTTTTTTTATTTTATTACATAAAATAATATCAAAAT-ATTCA
1 AAATAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCA
43416135 AAATA
1 AAATA
43416140 TTTGTACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 8 0.19
45 30 0.71
46 4 0.10
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (45 bp):
AAATAACTTCTATTTTATTACATAAAATAATATCAAAATAACTCA
Found at i:43417228 original size:7 final size:7
Alignment explanation
Indices: 43417218--43417243 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43417208 TTATATACAT
43417218 AATACTA
1 AATACTA
43417225 AATACTA
1 AATACTA
43417232 AATACTA
1 AATACTA
43417239 AATAC
1 AATAC
43417244 CAATCGACTA
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:43417450 original size:20 final size:21
Alignment explanation
Indices: 43417408--43417451 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
43417398 ATACTTTTAT
*
43417408 TTTTAAAAATCTACATAATAA
1 TTTTAAAAATCTACATAAAAA
43417429 TTTT-AAAATCTA-ATATAAAA
1 TTTTAAAAATCTACATA-AAAA
43417449 TTT
1 TTT
43417452 ACCTCGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATCTACATAAAAA
Found at i:43418457 original size:11 final size:11
Alignment explanation
Indices: 43418443--43418519 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
43418433 TTAAATATGG
43418443 ATTTGAGAGAA
1 ATTTGAGAGAA
*
43418454 ATTTG-GAAGGA
1 ATTTGAG-AGAA
43418465 ATTTGAGAGAA
1 ATTTGAGAGAA
*
43418476 AATTGAGAGGAA
1 ATTTGAGA-GAA
43418488 ATTT-AGAGGAA
1 ATTTGAGA-GAA
43418499 A-TTGAGAGGAA
1 ATTTGAGA-GAA
43418510 ATTTGAGAGA
1 ATTTGAGAGA
43418520 GGATTAGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 3 0.05
11 41 0.72
12 13 0.23
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:43418471 original size:22 final size:22
Alignment explanation
Indices: 43418443--43418519 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
43418433 TTAAATATGG
43418443 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
43418465 ATTTGAGAGAAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
43418488 ATTT-AGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
43418510 ATTTGAGAGA
1 ATTTGAGAGA
43418520 GGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
22 37 0.74
23 13 0.26
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:43418498 original size:33 final size:35
Alignment explanation
Indices: 43418445--43418518 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 35
43418435 AAATATGGAT
* *
43418445 TTGAGA-GAAATTTGGAAGGAATTTGAGA-GAAAA
1 TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
*
43418478 TTGAGAGGAAATTTAG-AGGAAATTGAGAGGAAAT
1 TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
43418512 TTGAGAG
1 TTGAGAG
43418519 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 17 0.47
34 19 0.53
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (35 bp):
TTGAGAGGAAATTTAGAAGGAAATTGAGAGGAAAA
Found at i:43419059 original size:38 final size:37
Alignment explanation
Indices: 43418971--43419068 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 37
43418961 TAAACAAAAT
*
43418971 ATAAATAACTAAAAATAAATAACAATAAAACAATTTAAA
1 ATAAATAA-TATAAA-AAATAACAATAAAACAATTTAAA
*
43419010 ATAAATAATATAAAAAATAACATATAAAACAGTTTTAAA
1 ATAAATAATATAAAAAATAACA-ATAAAACA-ATTTAAA
*
43419049 ATATATATATATATAAAAAT
1 ATAAATA-ATATA-AAAAAT
43419069 TTGAAAGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 8 0.15
38 13 0.25
39 20 0.38
40 5 0.10
41 6 0.12
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (37 bp):
ATAAATAATATAAAAAATAACAATAAAACAATTTAAA
Found at i:43419155 original size:27 final size:25
Alignment explanation
Indices: 43419094--43419178 Score: 116
Period size: 27 Copynumber: 3.3 Consensus size: 25
43419084 AATAGTTTAC
* *
43419094 AATAAATAATATATAAAAAAATTTA
1 AATAAATAATATATAAAAAACTTAA
*
43419119 AATAAATAATATGTAAAACAACTTAAA
1 AATAAATAATATATAAAA-AACTT-AA
43419146 AATAAATAATATATATAAAAACTTAA
1 AATAAATAATATATA-AAAAACTTAA
43419172 AATAAAT
1 AATAAAT
43419179 GATGATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 17 0.32
26 13 0.25
27 20 0.38
28 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (25 bp):
AATAAATAATATATAAAAAACTTAA
Found at i:43419774 original size:17 final size:17
Alignment explanation
Indices: 43419752--43419787 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43419742 CGTGGCGATC
*
43419752 GCCGATCGCCGGTGACA
1 GCCGATCGCCGGCGACA
*
43419769 GCCGATCGTCGGCGACA
1 GCCGATCGCCGGCGACA
43419786 GC
1 GC
43419788 GCTACCTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.36, G:0.36, T:0.11
Consensus pattern (17 bp):
GCCGATCGCCGGCGACA
Found at i:43419977 original size:6 final size:6
Alignment explanation
Indices: 43419966--43420015 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
43419956 GTTCTCTTTA
* *
43419966 AAAAAT AAAAAT AAAAA- AATAAAT AAAAAT GAAAAG AAAAA- AAATAAT
1 AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAA-AAT
43420014 AA
1 AA
43420016 GACCACCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.14
6 28 0.76
7 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:43419993 original size:24 final size:25
Alignment explanation
Indices: 43419966--43420012 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
43419956 GTTCTCTTTA
43419966 AAAAAT-AAAA-ATAAAAAAATAAAT
1 AAAAATGAAAAGA-AAAAAAATAAAT
43419990 AAAAATGAAAAGAAAAAAAATAA
1 AAAAATGAAAAGAAAAAAAATAA
43420013 TAAGACCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.29
25 14 0.67
26 1 0.05
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (25 bp):
AAAAATGAAAAGAAAAAAAATAAAT
Found at i:43420876 original size:27 final size:27
Alignment explanation
Indices: 43420838--43420890 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
43420828 AACCCTAAAC
* *
43420838 GAATGCCTTTGTAGCGTAATATGAAAG
1 GAATGCCCTTGTAGCGCAATATGAAAG
43420865 GAATGCCCTTGTAGCGCAATATGAAA
1 GAATGCCCTTGTAGCGCAATATGAAA
43420891 AAGTATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (27 bp):
GAATGCCCTTGTAGCGCAATATGAAAG
Found at i:43425373 original size:35 final size:35
Alignment explanation
Indices: 43425327--43425396 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
43425317 TGGAGCCAAA
*
43425327 CATATGCTATTTATGAGGGAAAGTGGTAGTTCTGT
1 CATATACTATTTATGAGGGAAAGTGGTAGTTCTGT
43425362 CATATACTATTTATGAGGGAAAGTGGTAGTTCTGT
1 CATATACTATTTATGAGGGAAAGTGGTAGTTCTGT
43425397 TTTTATATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (35 bp):
CATATACTATTTATGAGGGAAAGTGGTAGTTCTGT
Found at i:43428081 original size:26 final size:26
Alignment explanation
Indices: 43428045--43428098 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
43428035 TGACATTCAA
43428045 AAACTTTATGAGCTATGCTAAAATCT
1 AAACTTTATGAGCTATGCTAAAATCT
43428071 AAACTTTATGAGCTATGCTAAAATCT
1 AAACTTTATGAGCTATGCTAAAATCT
43428097 AA
1 AA
43428099 TCTTAGTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (26 bp):
AAACTTTATGAGCTATGCTAAAATCT
Found at i:43428327 original size:13 final size:13
Alignment explanation
Indices: 43428309--43428333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43428299 CCATTTTGAT
43428309 AAAAAACAAAAAA
1 AAAAAACAAAAAA
43428322 AAAAAACAAAAA
1 AAAAAACAAAAA
43428334 TTATGGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:43440597 original size:29 final size:29
Alignment explanation
Indices: 43440565--43440692 Score: 150
Period size: 29 Copynumber: 4.4 Consensus size: 29
43440555 CAATTAACAT
* * * *
43440565 AGATAGCCATAAAAGTGTTCTTTTAAGAA
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* * *
43440594 AGATAGCCACAAAGGCGTTCCATTAACAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* *
43440623 AGATAGCCACAAAGGTGTACCTTTAATAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
* *
43440652 AGATAGCCACAAAGGTGTT-CTTTTACAG
1 AGATAGCCACAAAGGTGTTCCTTTAAGAG
43440680 AGATAGCCACAAA
1 AGATAGCCACAAA
43440693 TTCCTCTATT
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 20 0.24
29 65 0.76
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (29 bp):
AGATAGCCACAAAGGTGTTCCTTTAAGAG
Found at i:43440631 original size:58 final size:58
Alignment explanation
Indices: 43440541--43440692 Score: 189
Period size: 58 Copynumber: 2.6 Consensus size: 58
43440531 TCAGAGTATT
* * * * * *
43440541 GCCACAAAGGCATTCAATTAACATAGATAGCCATAAAAGTGTTCTTTTAAGAAAGATA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
* * *
43440599 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTGTACCTTTAATAGAGATA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
* * *
43440657 GCCACAAAGGTGTT-CTTTTACAGAGATAGCCACAAA
1 GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAA
43440693 TTCCTCTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 20 0.24
58 62 0.76
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (58 bp):
GCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAAGTGTACCTTTAAGAAAGATA
Found at i:43440705 original size:57 final size:57
Alignment explanation
Indices: 43440532--43440724 Score: 176
Period size: 58 Copynumber: 3.3 Consensus size: 57
43440522 GCTTTCCCTT
* * * * * * *
43440532 CAGAGTATTGCCACAAAGGCATTCAATTAACATAGATAGCCATAAAAGTGTTCTTTTAA
1 CAGAG-ATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCA-CAAAGTGTACCTTTAA
* *
43440591 GAAAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGGTGTACCTTTAA
1 CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAA-GTGTACCTTTAA
* * * * *
43440649 TAGAGATAGCCACAAAGGTGTT-CTTTTACAGAGATAGCCACAAA-T-TCCTCTATTTAA
1 CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGTGTAC-C--TTTAA
*
43440706 CAGAGATATCCACAAAGGC
1 CAGAGATAGCCACAAAGGC
43440725 TCACTTTTAT
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
54 2 0.02
55 2 0.02
57 44 0.39
58 61 0.54
59 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (57 bp):
CAGAGATAGCCACAAAGGCGTTCCATTAACAGAGATAGCCACAAAGTGTACCTTTAA
Found at i:43440733 original size:29 final size:29
Alignment explanation
Indices: 43440558--43440733 Score: 124
Period size: 29 Copynumber: 6.1 Consensus size: 29
43440548 AGGCATTCAA
* * * **
43440558 TTAACATAGATAGCCATAAAAGTGTTCTT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* * * ** **
43440587 TTAAGAAAGATAGCCACAAAGGCGTTCCA
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* *
43440616 TTAACAGAGATAGCCACAAAGGTGTACCT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* **
43440645 TTAATAGAGATAGCCACAAAGGTGTTCTT
1 TTAACAGAGATAGCCACAAAGGTGCACTT
* * *
43440674 TT-ACAGAGATAGCCACAAA-TTCCTCTAT
1 TTAACAGAGATAGCCACAAAGGTGCACT-T
*
43440702 TTAACAGAGATATCCACAAAGGCT-CACTT
1 TTAACAGAGATAGCCACAAAGG-TGCACTT
43440731 TTA
1 TTA
43440734 TGAAAATTGG
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
27 4 0.03
28 19 0.16
29 94 0.78
30 3 0.02
31 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (29 bp):
TTAACAGAGATAGCCACAAAGGTGCACTT
Found at i:43441610 original size:42 final size:42
Alignment explanation
Indices: 43441551--43441634 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
43441541 TCTCTTCTTG
43441551 AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
1 AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
43441593 AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
1 AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
43441635 CTTGATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (42 bp):
AAGAAGAAAGAGAAAGTTTCCATCATTTCTTACCTGAGTTAC
Found at i:43447268 original size:18 final size:17
Alignment explanation
Indices: 43447231--43447269 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43447221 ATTATTATGT
* *
43447231 ATTAAATGGTTAATTGA
1 ATTAAATGATTAAGTGA
43447248 ATTAAATGATTAAAGTGA
1 ATTAAATGATT-AAGTGA
43447266 ATTA
1 ATTA
43447270 TTGATGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (17 bp):
ATTAAATGATTAAGTGA
Found at i:43448413 original size:21 final size:22
Alignment explanation
Indices: 43448389--43448434 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43448379 GCGACCCCTA
*
43448389 TTTTCAAAATT-TTTAATTTTT
1 TTTTCAAAATTCTTTAATTTGT
* *
43448410 TTTTCCAAATTCTTTGATTTGT
1 TTTTCAAAATTCTTTAATTTGT
43448432 TTT
1 TTT
43448435 AAATTAGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTCAAAATTCTTTAATTTGT
Found at i:43451796 original size:23 final size:23
Alignment explanation
Indices: 43451759--43451806 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
43451749 TGCACATTGG
*
43451759 GGACAATGTGAAAAATAAAGTGT
1 GGACAAAGTGAAAAATAAAGTGT
*
43451782 GGACAAAGTGCAAAATAAAGTGT
1 GGACAAAGTGAAAAATAAAGTGT
43451805 GG
1 GG
43451807 GGTGACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (23 bp):
GGACAAAGTGAAAAATAAAGTGT
Found at i:43458144 original size:28 final size:27
Alignment explanation
Indices: 43458092--43458145 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
43458082 AGACAATTTC
* *
43458092 TTCATAGATTGTCACAAAGGCTTCCTT
1 TTCATAGATTGCCACAAAGCCTTCCTT
*
43458119 TTCATAGATTAGCCACAGAGCCTTCCT
1 TTCATAGATT-GCCACAAAGCCTTCCT
43458146 GTATTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (27 bp):
TTCATAGATTGCCACAAAGCCTTCCTT
Found at i:43460486 original size:27 final size:27
Alignment explanation
Indices: 43460449--43460565 Score: 117
Period size: 28 Copynumber: 4.2 Consensus size: 27
43460439 AGTCCTTATC
43460449 GACTATCTTTCAAGCAAGTGTCTGTATG
1 GACTAT-TTTCAAGCAAGTGTCTGTATG
* * * *
43460477 GACAATTTTCAAGCAATTGTCCGCATG
1 GACTATTTTCAAGCAAGTGTCTGTATG
* * * **
43460504 GACTATCTTTCAAGAAAGAGTCTGGAAA
1 GACTAT-TTTCAAGCAAGTGTCTGTATG
*
43460532 GACTATTCTTCAAGCAAGTGCCTGTATG
1 GACTATT-TTCAAGCAAGTGTCTGTATG
43460560 GACTAT
1 GACTAT
43460566 CTGTAACACC
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
27 24 0.35
28 45 0.65
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (27 bp):
GACTATTTTCAAGCAAGTGTCTGTATG
Found at i:43462373 original size:20 final size:20
Alignment explanation
Indices: 43462345--43462392 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
43462335 AAAACACACT
43462345 AGAGAGCATCAAAATGCCA-AC
1 AGAG-GCATCAAAATG-CATAC
* *
43462366 AGAGGCATCGAAGTGCATAC
1 AGAGGCATCAAAATGCATAC
43462386 AGAGGCA
1 AGAGGCA
43462393 CTAAAGTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.42, C:0.21, G:0.27, T:0.10
Consensus pattern (20 bp):
AGAGGCATCAAAATGCATAC
Found at i:43472911 original size:29 final size:29
Alignment explanation
Indices: 43472801--43472914 Score: 74
Period size: 29 Copynumber: 3.9 Consensus size: 29
43472791 CAAATTTTCG
43472801 TAAAAGTG-AGCA-TTGTGGCTATCTCTGT
1 TAAAA-TGAAGCATTTGTGGCTATCTCTGT
* * * *
43472829 TACACA-GAAACCTTTGTGGCAATC-CTTGT
1 TA-AAATGAAGCATTTGTGGCTATCTC-TGT
** * * * *
43472858 TAAAAAAAAAGCCTTTCTAGTTATCTCTGT
1 T-AAAATGAAGCATTTGTGGCTATCTCTGT
43472888 TAAAATGAAGCATTTGTGGCTATCTCT
1 TAAAATGAAGCATTTGTGGCTATCTCT
43472915 AGTAAATAGA
Statistics
Matches: 62, Mismatches: 17, Indels: 13
0.67 0.18 0.14
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
29 38 0.61
30 17 0.27
31 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (29 bp):
TAAAATGAAGCATTTGTGGCTATCTCTGT
Found at i:43473067 original size:29 final size:29
Alignment explanation
Indices: 43472813--43473155 Score: 77
Period size: 29 Copynumber: 11.7 Consensus size: 29
43472803 AAAGTGAGCA
*
43472813 TTGTGGCTATCTCTGTTACACA-GAA-ACCT
1 TTGTGGCTATCTCTGTTA-A-AGGAATGCCT
* ** *
43472842 TTGTGGCAATC-CTTGTTAAAAAAAAAGCCT
1 TTGTGGCTATCTC-TGTT-AAAGGAATGCCT
* * * * *
43472872 TTCTAGTTATCTCTGTTAAAATGAA-GCAT
1 TTGTGGCTATCTCTGTT-AAAGGAATGCCT
* *
43472901 TTGTGGCTATCTCTAG-TAAATAGAA-GACT
1 TTGTGGCTATCTCT-GTTAAA-GGAATGCCT
* *
43472930 TTGTTG-TGATCTCTATTAAATGGAA-GCCT
1 TTGTGGCT-ATCTCTGTTAAA-GGAATGCCT
* * * *
43472959 TTGT-GATAATATCTTTTAAAAGCAATGCCT
1 TTGTGGCT-ATCTCTGTT-AAAGGAATGCCT
* * * *
43472989 TTGAGGCGATACTCTG--AAGGGAAAGCCT
1 TTGTGGCTAT-CTCTGTTAAAGGAATGCCT
* *
43473017 TTGTGGCAAGTATTTAATGTTAAAGGAATGCCT
1 TTGTGGC---TATCT-CTGTTAAAGGAATGCCT
* * *
43473050 TTGTGGCTATCTCTGTTAAA-AAGATTCAT
1 TTGTGGCTATCTCTGTTAAAGGA-ATGCCT
* * * *
43473079 TTGTGGTTATCTATGTGAAAAAGACAT--CT
1 TTGTGGCTATCTCTGT-TAAAGGA-ATGCCT
* * *
43473108 TTGTGGCTATCTATATTAAAGG-ATGCCA
1 TTGTGGCTATCTCTGTTAAAGGAATGCCT
* * *
43473136 TTGTGGTTGTCTCTATTAAA
1 TTGTGGCTATCTCTGTTAAA
43473156 TGGATGTCTT
Statistics
Matches: 232, Mismatches: 57, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
26 2 0.01
28 45 0.19
29 114 0.49
30 42 0.18
31 12 0.05
33 17 0.07
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (29 bp):
TTGTGGCTATCTCTGTTAAAGGAATGCCT
Found at i:43474713 original size:22 final size:21
Alignment explanation
Indices: 43474681--43474752 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 21
43474671 TATTCCTAGC
*
43474681 AGGCTTAGTGCCGGTGTTATTT
1 AGGCTTTGTGCC-GTGTTATTT
*
43474703 AGGCTTTGTGCC----TA-AT
1 AGGCTTTGTGCCGTGTTATTT
*
43474719 AGGCTTTGTGTCAGTGTTATTT
1 AGGCTTTGTG-CCGTGTTATTT
43474741 AGGCTTTGTGCC
1 AGGCTTTGTGCC
43474753 TAGCACGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
16 11 0.28
17 3 0.08
21 3 0.08
22 22 0.56
ACGTcount: A:0.14, C:0.15, G:0.29, T:0.42
Consensus pattern (21 bp):
AGGCTTTGTGCCGTGTTATTT
Found at i:43474757 original size:76 final size:76
Alignment explanation
Indices: 43474622--43474773 Score: 198
Period size: 76 Copynumber: 2.0 Consensus size: 76
43474612 ATTATATTGA
* * * *
43474622 TATTCAGGATTTGTGCCTAGCAGGCTTTGTGCTGGTGTTATTCAGGCTTTATTCCTAGCAGGCTT
1 TATTCAGGATTTGTGCCTAACAGGCTTTGTGCTAGTGTTATTCAGGCTTTATGCCTAGCACGCTT
*
43474687 AGTGCCGGTGT
66 AGTGCCAGTGT
* * * * *
43474698 TATTTAGGCTTTGTGCCTAATAGGCTTTGTG-TCAGTGTTATTTAGGCTTTGTGCCTAGCACGCT
1 TATTCAGGATTTGTGCCTAACAGGCTTTGTGCT-AGTGTTATTCAGGCTTTATGCCTAGCACGCT
43474762 TAGTGCCAGTGT
65 TAGTGCCAGTGT
43474774 ATTAAAAAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 1 0.02
76 64 0.98
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (76 bp):
TATTCAGGATTTGTGCCTAACAGGCTTTGTGCTAGTGTTATTCAGGCTTTATGCCTAGCACGCTT
AGTGCCAGTGT
Found at i:43474772 original size:38 final size:38
Alignment explanation
Indices: 43474622--43474773 Score: 178
Period size: 38 Copynumber: 4.0 Consensus size: 38
43474612 ATTATATTGA
* * **
43474622 TATTCAGGATTTGTGCCTAGCAGGCTTTGTGCTGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* * *
43474660 TATTCAGGCTTTATTCCTAGCAGGCTTAGTGCCGGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* ** * *
43474698 TATTTAGGCTTTGTGCCTAATAGGCTTTGTGTCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
* *
43474736 TATTTAGGCTTTGTGCCTAGCACGCTTAGTGCCAGTGT
1 TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
43474774 ATTAAAAAGT
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 96 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (38 bp):
TATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
Found at i:43478034 original size:30 final size:32
Alignment explanation
Indices: 43477988--43478048 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
43477978 AATTTGTCCT
43477988 TTTAACTCTTCTAAAAATAATAAA-ATTTTAA
1 TTTAACTCTTCTAAAAATAATAAAGATTTTAA
* *
43478019 TTTAA-TCTTTTAAAAATTATAAAGATTTTA
1 TTTAACTCTTCTAAAAATAATAAAGATTTTA
43478049 GCCCCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (32 bp):
TTTAACTCTTCTAAAAATAATAAAGATTTTAA
Found at i:43488431 original size:18 final size:19
Alignment explanation
Indices: 43488410--43488445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43488400 TTCTTATAAT
43488410 TATAT-ATAAAATTTAAAA
1 TATATAATAAAATTTAAAA
*
43488428 TATATAATAAGATTTAAA
1 TATATAATAAAATTTAAA
43488446 CTCAATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TATATAATAAAATTTAAAA
Found at i:43491869 original size:8 final size:9
Alignment explanation
Indices: 43491841--43491900 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
43491831 ACAGGTAATT
43491841 AATTTCTAAA
1 AATTT-TAAA
43491851 AATTTTAAA
1 AATTTTAAA
43491860 AATTTTAAA
1 AATTTTAAA
*
43491869 AATATATAAA
1 AAT-TTTAAA
*
43491879 TTATTTTAAA
1 -AATTTTAAA
*
43491889 AA-ATTAAA
1 AATTTTAAA
43491897 AATT
1 AATT
43491901 ATTTAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.17
9 17 0.41
10 15 0.37
11 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:43491870 original size:19 final size:19
Alignment explanation
Indices: 43491841--43491909 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
43491831 ACAGGTAATT
43491841 AATTTCTAAAAATTTT-AAA
1 AATTT-TAAAAATTTTAAAA
* *
43491860 AATTTTAAAAATATATAAAT
1 AATTTTAAAAAT-TTTAAAA
* *
43491880 TATTTTAAAAA-ATTAAAA
1 AATTTTAAAAATTTTAAAA
*
43491898 ATTATTTAAAAA
1 AAT-TTTAAAAA
43491910 GTACAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 12 0.31
19 15 0.38
20 12 0.31
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTTAAAAATTTTAAAA
Found at i:43491886 original size:20 final size:20
Alignment explanation
Indices: 43491861--43491909 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43491851 AATTTTAAAA
*
43491861 ATTTT-AAAAATATATAAATT
1 ATTTTAAAAAAT-TAAAAATT
43491881 ATTTTAAAAAATTAAAAATT
1 ATTTTAAAAAATTAAAAATT
43491901 A-TTTAAAAA
1 ATTTTAAAAA
43491910 GTACAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.30
20 13 0.48
21 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAATT
Found at i:43491908 original size:18 final size:18
Alignment explanation
Indices: 43491855--43491920 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
43491845 TCTAAAAATT
43491855 TTAAAAA-T-TTTAAAAA
1 TTAAAAATTATTTAAAAA
*
43491871 TATATAAATTATTTTAAAAAA
1 T-TAAAAATTA-TTT-AAAAA
43491892 TTAAAAATTATTTAAAAA
1 TTAAAAATTATTTAAAAA
* *
43491910 GTACAAATTAT
1 TTAAAAATTAT
43491921 AAATATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.02
17 5 0.12
18 15 0.37
19 3 0.07
20 11 0.27
21 6 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
TTAAAAATTATTTAAAAA
Found at i:43494371 original size:42 final size:41
Alignment explanation
Indices: 43494259--43494386 Score: 114
Period size: 44 Copynumber: 3.0 Consensus size: 41
43494249 TTCCGATATG
* *
43494259 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATA
* * *
43494300 TGAGATTTACATGTAAGACCATGTTTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATA
* * * * *
43494345 TGATTTTGTGTAAGACCCTATCTGGGATAGTGACATCGATA
1 TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
43494386 T
1 T
43494387 TTGATTACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 5 0.07
42 24 0.35
43 10 0.14
44 27 0.39
45 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATA
Found at i:43506074 original size:32 final size:32
Alignment explanation
Indices: 43506019--43506163 Score: 168
Period size: 32 Copynumber: 4.6 Consensus size: 32
43506009 GAATGGCTGT
* *
43506019 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
43506050 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * ** *
43506082 CAGCCATCAGCAATGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
43506114 AAGCCATCAATAAC-GATAATATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
*
43506146 AAACCATCAGTAACAGTA
1 AAGCCATCAGTAACAGTA
43506164 CAGTACTTCC
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
31 11 0.12
32 81 0.87
33 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:43506263 original size:24 final size:23
Alignment explanation
Indices: 43506236--43506290 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
43506226 GCTCAGAATT
*
43506236 AGTCATTCAAATCACAGATAAATC
1 AGTCATTCAAA-CACAGACAAATC
* *
43506260 AGTCATACCAAACAGAGACAAATC
1 AGTCAT-TCAAACACAGACAAATC
43506284 AGTCATT
1 AGTCATT
43506291 TGACCTCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (23 bp):
AGTCATTCAAACACAGACAAATC
Found at i:43506360 original size:27 final size:27
Alignment explanation
Indices: 43506330--43506695 Score: 428
Period size: 27 Copynumber: 13.6 Consensus size: 27
43506320 CTACCAAGGC
*
43506330 ATTACAGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
43506357 ATTACGGTCATTTTACCCTATAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
43506384 ATTACGGTCATTTTACCCTACAAGAGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** *
43506411 ATTACGGTCATTTTACAGTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
43506438 ATTACGGTCATTTTACCCTATAGGGTT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
43506465 ATTACAGTTATTTTACCCTA-AGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
43506491 ACTATGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
43506518 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * * * *
43506545 ATTATGATTATTTTACCTTACATGGCT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
43506572 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
43506599 ATTATGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
43506626 ATTACGGTCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
43506653 ATTACTGTCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
43506680 ATTACGGTTATTTTAC
1 ATTACGGTCATTTTAC
43506696 AACATTTTCG
Statistics
Matches: 287, Mismatches: 51, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.07
27 267 0.93
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:43507950 original size:12 final size:12
Alignment explanation
Indices: 43507918--43507957 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
43507908 TTCCTTCCTT
43507918 AATCTCTCC-CA
1 AATCTCTCCACA
*
43507929 ACATCCCTCCACA
1 A-ATCTCTCCACA
43507942 AATCTCTCCACA
1 AATCTCTCCACA
43507954 AATC
1 AATC
43507958 ACTCAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.04
12 21 0.84
13 3 0.12
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (12 bp):
AATCTCTCCACA
Found at i:43519534 original size:5 final size:5
Alignment explanation
Indices: 43519524--43519561 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
43519514 AATACTAATA
43519524 ATTAT ATTAT ATTAT ATTTAT ATGT-T ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT A-TTAT AT-TAT ATTAT ATTAT AT
43519562 AAATAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 23 0.77
6 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:43519546 original size:16 final size:15
Alignment explanation
Indices: 43519524--43519561 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
43519514 AATACTAATA
43519524 ATTATAT-TATATTAT
1 ATTATATGT-TATTAT
43519539 ATTTATATGTTATTAT
1 A-TTATATGTTATTAT
43519555 ATTATAT
1 ATTATAT
43519562 AAATAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTATATGTTATTAT
Found at i:43524019 original size:33 final size:33
Alignment explanation
Indices: 43523976--43524226 Score: 141
Period size: 33 Copynumber: 7.4 Consensus size: 33
43523966 GGTGGATTCC
43523976 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
** *
43524009 GCACACAGCAACC-CC--T---TGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
*
43524036 GCACTTAGCAACCCCCTTCACATTTGAGATGCGGTGGAATCA
1 GCACTTAGCAA-CCAC--CA-A--TGA-AT-CGG-GGAATCA
*
43524078 GCACTTAGCAACCACCAATGAATAGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
43524111 GCACTTAGCAACC-CC------TCGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATC-GGGGAATCA
* * *
43524138 GCACTTAGCAACCCCCTTTCACATTTAAAATAGGGTGGAATCA
1 GCACTTAGCAA-CCAC---CA-A--T-GAAT-CGG-GGAATCA
43524181 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
**
43524214 GCACACAGCAACC
1 GCACTTAGCAACC
43524227 CTTTTATATG
Statistics
Matches: 170, Mismatches: 15, Indels: 66
0.68 0.06 0.26
Matches are distributed among these distances:
26 1 0.01
27 39 0.23
28 4 0.02
29 2 0.01
30 1 0.01
31 1 0.01
32 5 0.03
33 49 0.29
34 4 0.02
35 5 0.03
36 5 0.03
38 2 0.01
39 4 0.02
40 1 0.01
41 5 0.03
42 24 0.14
43 18 0.11
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (33 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCA
Found at i:43524141 original size:102 final size:104
Alignment explanation
Indices: 43523965--43524227 Score: 433
Period size: 102 Copynumber: 2.6 Consensus size: 104
43523955 TAACTGTTAT
* * *
43523965 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGG
* *
43524030 GAATCAGCACTTAGCAACCCCC-TTCACATTTGAGAT-G
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
* **
43524067 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGG
43524132 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
43524171 -GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCC
43524228 TTTTATATGC
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
102 81 0.55
103 66 0.45
104 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (104 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAG
Found at i:43525263 original size:21 final size:21
Alignment explanation
Indices: 43525239--43525288 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
43525229 GAAATAGCTC
43525239 GCCCGACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
43525260 GCCCAACGTATGTGACACCCT
1 GCCCGACGTATGTGACACCCT
*
43525281 GCTCGACG
1 GCCCGACG
43525289 AAGCCTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (21 bp):
GCCCGACGTATGTGACACCCT
Found at i:43529725 original size:26 final size:28
Alignment explanation
Indices: 43529659--43529730 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
43529649 GTTTCTGTTA
43529659 AAGGAATGCCTTTGTGGTAAATCTCTAAT
1 AAGGAATGCCTTTGTGGTAAA-CTCTAAT
*
43529688 AAGGAATACCTTTGTGGT-AA-TCT-AT
1 AAGGAATGCCTTTGTGGTAAACTCTAAT
43529713 AAGGAGATGCCTTTGTGG
1 AAGGA-ATGCCTTTGTGG
43529731 CACAACGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.17
26 14 0.35
28 2 0.05
29 17 0.43
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
AAGGAATGCCTTTGTGGTAAACTCTAAT
Found at i:43529808 original size:29 final size:29
Alignment explanation
Indices: 43529775--43529929 Score: 150
Period size: 29 Copynumber: 5.4 Consensus size: 29
43529765 ATAAAACAAT
**
43529775 GCCTTTGTGGTGATCTCTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTATTAAAAGGAA
*
43529804 GCCTTTGTGACAATCTCTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTATTAAAAGGAA
* * * **
43529833 GCCTTTGTGACGATCTCTGTTAAAATAAA
1 GCCTTTGTGGCAATCTCTATTAAAAGGAA
* * * * *
43529862 GCCTTTATGGTAATATCTTTTAAAAGAAA
1 GCCTTTGTGGCAATCTCTATTAAAAGGAA
* * * *
43529891 GACTTTGTGGCAATCTTTGTT-AAAGGAT
1 GCCTTTGTGGCAATCTCTATTAAAAGGAA
43529919 GCCTTTGTGGC
1 GCCTTTGTGGC
43529930 GAGACTCTGA
Statistics
Matches: 103, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 15 0.15
29 88 0.85
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (29 bp):
GCCTTTGTGGCAATCTCTATTAAAAGGAA
Found at i:43529914 original size:87 final size:86
Alignment explanation
Indices: 43529766--43529927 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 86
43529756 TTAATTTTCA
* * * * * *
43529766 TAAAACAATGCCTTTGTGGTGATCTCTATTAAAAGGAAGCCTTTGTGACAATCTCTATTAAAAGG
1 TAAAACAAAGCCTTTATGGTAATATCTATTAAAAGAAAGACTTTGTGACAATCTCTATT-AAAGG
43529831 AAGCCTTTGTGACGATCTCTGT
65 AAGCCTTTGTGACGATCTCTGT
* * * * *
43529853 TAAAATAAAGCCTTTATGGTAATATCTTTTAAAAGAAAGACTTTGTGGCAATCTTTGTTAAAGGA
1 TAAAACAAAGCCTTTATGGTAATATCTATTAAAAGAAAGACTTTGTGACAATCTCTATTAAAGGA
*
43529918 TGCCTTTGTG
66 AGCCTTTGTG
43529928 GCGAGACTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 15 0.24
87 48 0.76
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (86 bp):
TAAAACAAAGCCTTTATGGTAATATCTATTAAAAGAAAGACTTTGTGACAATCTCTATTAAAGGA
AGCCTTTGTGACGATCTCTGT
Found at i:43544692 original size:16 final size:15
Alignment explanation
Indices: 43544667--43544700 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
43544657 AAAGTTGATA
*
43544667 ATAATTAATATATATT
1 ATAATAAATATA-ATT
43544683 ATAATAAATATAATT
1 ATAATAAATATAATT
43544698 ATA
1 ATA
43544701 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:43557032 original size:18 final size:18
Alignment explanation
Indices: 43557009--43557044 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43556999 TGTTAACACG
*
43557009 AAAGTGTTATTGCAGTCA
1 AAAGTGTTATTACAGTCA
43557027 AAAGTGTTATTACAGTCA
1 AAAGTGTTATTACAGTCA
43557045 TTGACACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
AAAGTGTTATTACAGTCA
Found at i:43564615 original size:18 final size:18
Alignment explanation
Indices: 43564594--43564628 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43564584 TGCAGAAGTA
43564594 GAAGTTGTTGTAGAAGAG
1 GAAGTTGTTGTAGAAGAG
*
43564612 GAAGTTGTTGTTGAAGA
1 GAAGTTGTTGTAGAAGA
43564629 AAAGAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.37, T:0.31
Consensus pattern (18 bp):
GAAGTTGTTGTAGAAGAG
Found at i:43564623 original size:21 final size:21
Alignment explanation
Indices: 43564597--43564638 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43564587 AGAAGTAGAA
* * *
43564597 GTTGTTGTAGAAGAGGAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
43564618 GTTGTTGAAGAAAAGAAAGTT
1 GTTGTTGAAGAAAAGAAAGTT
43564639 ATTGAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
GTTGTTGAAGAAAAGAAAGTT
Found at i:43565013 original size:17 final size:17
Alignment explanation
Indices: 43564988--43565021 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43564978 GATAAATATA
* *
43564988 CATTTTCATTGCATTTT
1 CATTGTCATTACATTTT
43565005 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
43565022 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:43572010 original size:144 final size:144
Alignment explanation
Indices: 43571751--43572181 Score: 731
Period size: 144 Copynumber: 3.0 Consensus size: 144
43571741 GAGACCTTTC
* * *
43571751 CTATTGCTGAAAGATTGGTAAGTCAAAC-AAAAAGATGAGGATGAGGAAGAAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
* *
43571815 CCTTTTCCTTGGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
66 CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
43571880 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* * *
43571894 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGACGTAGGAGGATTTTGAGAAG
1 CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
*
43571959 CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTTATCTTACTTATGTTGTTAA
66 CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
43572024 CTTCCATCAAACAT
131 CTTCCATCAAACAT
* *
43572038 CTATTGCTAAAGGATTGGTACA-TCAAACAAAAGAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
1 CTATTGCTGAAGGATTGGTA-AGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAA
*
43572102 GTCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
65 GCCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTA
43572167 ACTTCCATCAAACAT
130 ACTTCCATCAAACAT
43572182 TTATGAGAAA
Statistics
Matches: 270, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
143 27 0.10
144 242 0.90
145 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (144 bp):
CTATTGCTGAAGGATTGGTAAGTCAAACAAAAAAGAGGAAGATGAGGAAGAAGGATTTTGAGAAG
CCTTTTCCCTAGTGTAAGCACTTGTTTAATGATATGCTTCCTTTTGATCTTACTTATGTTGTTAA
CTTCCATCAAACAT
Found at i:43575385 original size:25 final size:25
Alignment explanation
Indices: 43575357--43575404 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43575347 AGGCATTCTG
*
43575357 GATAACACACCACATAGGCTCTTAT
1 GATAACACACCACAAAGGCTCTTAT
***
43575382 GATAGTTCACCACAAAGGCTCTT
1 GATAACACACCACAAAGGCTCTT
43575405 CGAATAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
GATAACACACCACAAAGGCTCTTAT
Found at i:43575415 original size:25 final size:25
Alignment explanation
Indices: 43575364--43575451 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
43575354 CTGGATAACA
* * *
43575364 CACCACATAGGCTCTTATG-ATAGTT
1 CACCACAAAGGCTCTT-CGAATAATT
43575389 CACCACAAAGGCTCTTCGAATAATT
1 CACCACAAAGGCTCTTCGAATAATT
*
43575414 CACCATAAAGGCTCTTC-AGATAATT
1 CACCACAAAGGCTCTTCGA-ATAATT
*
43575439 CGCCACAAAGGCT
1 CACCACAAAGGCT
43575452 TGACTTGGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.04
25 53 0.96
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
CACCACAAAGGCTCTTCGAATAATT
Found at i:43577191 original size:25 final size:25
Alignment explanation
Indices: 43577163--43577215 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
43577153 CTCCTGTGAC
* *
43577163 CATTCTGATTTACAGCTCATGTAAG
1 CATTCTGATTCACAACTCATGTAAG
* *
43577188 CATTCTGATTCACAACTCGTGTGAG
1 CATTCTGATTCACAACTCATGTAAG
43577213 CAT
1 CAT
43577216 ACATGTATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
CATTCTGATTCACAACTCATGTAAG
Found at i:43581641 original size:29 final size:29
Alignment explanation
Indices: 43581597--43581653 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
43581587 TCAATGTAAA
43581597 AATATTTATTTCATTATTAAGGTCTATAG
1 AATATTTATTTCATTATTAAGGTCTATAG
*
43581626 AATATTTATTTTATTATTAAGGTCTATA
1 AATATTTATTTCATTATTAAGGTCTATA
43581654 CCATGTTCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (29 bp):
AATATTTATTTCATTATTAAGGTCTATAG
Found at i:43581668 original size:29 final size:29
Alignment explanation
Indices: 43581609--43581668 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
43581599 TATTTATTTC
* * *
43581609 ATTATTAAGGTCTATAGAATATTTATTTT
1 ATTATTAAGGTCTATACAATATTCATATT
* * *
43581638 ATTATTAAGGTCTATACCATGTTCGTATT
1 ATTATTAAGGTCTATACAATATTCATATT
43581667 AT
1 AT
43581669 CGTATAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (29 bp):
ATTATTAAGGTCTATACAATATTCATATT
Found at i:43593700 original size:22 final size:21
Alignment explanation
Indices: 43593669--43593710 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
43593659 ATAAACTAAA
43593669 ACTAAATAAAAACCCTAAAACT
1 ACTAAAT-AAAACCCTAAAACT
*
43593691 ACTAACTAAAACCCTAAAAC
1 ACTAAATAAAACCCTAAAAC
43593711 AAATTGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (21 bp):
ACTAAATAAAACCCTAAAACT
Found at i:43595937 original size:18 final size:18
Alignment explanation
Indices: 43595912--43595974 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
43595902 AGTAAGGCAA
43595912 AATAATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
* * **
43595930 ATTAATTGT-AGAAGCAA
1 AATAATTGTAAGAATCTT
*
43595947 AATGATTGTAAGAATCTT
1 AATAATTGTAAGAATCTT
*
43595965 AGTAATTGTA
1 AATAATTGTA
43595975 GAAGGTTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGTAAGAATCTT
Found at i:43595955 original size:35 final size:35
Alignment explanation
Indices: 43595908--43595978 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
43595898 GAGTAGTAAG
*
43595908 GCAAAATAATTGTAAGAATCTTATTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
*
43595943 GCAAAATGATTGTAAGAATCTTAGTAATTGTAGAA
1 GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
43595978 G
1 G
43595979 GTTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (35 bp):
GCAAAATAATTGTAAGAATCTTAGTAATTGTAGAA
Found at i:43606173 original size:7 final size:7
Alignment explanation
Indices: 43606161--43606216 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
43606151 TTTTTTTTTA
43606161 AAATTAT
1 AAATTAT
43606168 AAATTAT
1 AAATTAT
*
43606175 AAATTTAA
1 AAA-TTAT
*
43606183 AAATTTT
1 AAATTAT
* *
43606190 AAATAAAA
1 AAAT-TAT
43606198 AAATTAT
1 AAATTAT
43606205 AAATTAT
1 AAATTAT
43606212 AAATT
1 AAATT
43606217 TCAGGCAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 29 0.74
8 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTAT
Found at i:43606186 original size:15 final size:15
Alignment explanation
Indices: 43606168--43606214 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
43606158 TTAAAATTAT
43606168 AAATTATAAATTTAA
1 AAATTATAAATTTAA
* **
43606183 AAATTTTAAATAAAA
1 AAATTATAAATTTAA
43606198 AAATTATAAATTATAA
1 AAATTATAAATT-TAA
43606214 A
1 A
43606215 TTTCAGGCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTATAAATTTAA
Found at i:43607646 original size:14 final size:16
Alignment explanation
Indices: 43607623--43607654 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43607613 AATATTTTAA
43607623 TTTTATATTTA-ATTT
1 TTTTATATTTATATTT
43607638 TTTTA-ATTTATATTT
1 TTTTATATTTATATTT
43607653 TT
1 TT
43607655 ATCAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATATTTATATTT
Found at i:43607748 original size:30 final size:27
Alignment explanation
Indices: 43607709--43607774 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 27
43607699 ATTAATATTT
43607709 AATTAATTTTTAAAAAATTAAAAATTCAAAA
1 AATT-ATTTTTAAAAAA-TAAAAA-T-AAAA
43607740 AATTATTTTTAAAAAATAAAAATAAAA
1 AATTATTTTTAAAAAATAAAAATAAAA
43607767 AA-TATTTT
1 AATTATTTT
43607775 GGTTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.17
27 6 0.17
28 1 0.03
29 6 0.17
30 12 0.34
31 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AATTATTTTTAAAAAATAAAAATAAAA
Found at i:43615906 original size:45 final size:46
Alignment explanation
Indices: 43615804--43615978 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
43615794 GCTATTTGGT
* * * * *
43615804 GTGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACGAAACACTATTATTTGATTC
* * *
43615850 GTGTATGTTCAACCCTAATGGGTAACGAAATACTATT-TTTGATTT
1 GTGTAGGTTCAACCCTAATGGGTAACGAAACACTATTATTTGATTC
* * *
43615895 TTGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTC
1 GTGTAGGTTCAACCCTAATGGGTAACGAAACACTATTATTTGATTC
* * *
43615941 GTGTAGGTTTAA-CCTAAATGGGTAACCAGACACTATTA
1 GTGTAGGTTCAACCCT-AATGGGTAACGAAACACTATTA
43615979 CTTTCACCTG
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
45 43 0.40
46 65 0.60
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (46 bp):
GTGTAGGTTCAACCCTAATGGGTAACGAAACACTATTATTTGATTC
Found at i:43615976 original size:91 final size:91
Alignment explanation
Indices: 43615805--43615977 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 91
43615795 CTATTTGGTG
* * *
43615805 TGTAGGTCCAACCCTAACGGGTGACCAGACACTATTATTTGATTCGTGTATGTTCAACCCTAATG
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
* *
43615870 GGTAACGAAATACTATTTTTGATTTT
66 GGTAACCAAACACTATTTTTGATTTT
* * * *
43615896 TGTAGGTTCAACCCTAATGGGTGACGAAACACTATTATTCGATTCGTGTAGGTTTAA-CCTAAAT
1 TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCT-AAT
*
43615960 GGGTAACCAGACACTATT
65 GGGTAACCAAACACTATT
43615978 ACTTTCACCT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 3 0.04
91 68 0.96
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (91 bp):
TGTAGGTCCAACCCTAACGGGTGACCAAACACTATTATTCGATTCGTGTAGGTTCAACCCTAATG
GGTAACCAAACACTATTTTTGATTTT
Found at i:43617784 original size:28 final size:28
Alignment explanation
Indices: 43617744--43617799 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
43617734 ATGCCAATTG
43617744 TATCCCACCAATTTTGCTAATAATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
* *
43617772 TATCCCACCAATTTTTCTAATCATATTT
1 TATCCCACCAATTTTGCTAATAATATTT
43617800 AAAGTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (28 bp):
TATCCCACCAATTTTGCTAATAATATTT
Found at i:43620289 original size:16 final size:16
Alignment explanation
Indices: 43620268--43620299 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43620258 GTTTTGTTGC
*
43620268 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
43620284 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
43620300 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:43620585 original size:51 final size:50
Alignment explanation
Indices: 43620527--43620717 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 50
43620517 TTGGTTCACA
* *
43620527 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCG-TACACG
* ** * *
43620578 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCC-GTACACG
* * * * **
43620629 TAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGTACACG
43620679 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
43620718 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
49 4 0.03
50 36 0.31
51 73 0.63
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGTACACG
Found at i:43620706 original size:101 final size:102
Alignment explanation
Indices: 43620525--43620709 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
43620515 TATTGGTTCA
* * *
43620525 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
43620590 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
43620627 CATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGTAGCCTGC
43620690 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
43620710 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 36 0.47
102 36 0.47
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:43620732 original size:101 final size:102
Alignment explanation
Indices: 43620519--43620743 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 102
43620509 TAATGATATT
* * * *
43620519 GGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAG
*
43620584 CCTGCACATAGTACTACACACGTGATCAAAACTATCC
66 CCTGCACATAGTACTACACACGTGACCAAAACTATCC
* * * * *
43620621 GGTACGCATAGTAGCCTTCACATAGTACTACACATGCGACCTATCA-TTTTAG-TACACGTAGTA
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCAGATACACGTAGTA
** *
43620684 GCCTGCACATAGTACTACACACGTGACCATCACTTTCAC
65 GCCTGCACATAGTACTACACACGTGACCAAAACTATC-C
* *
43620723 -TTTCACATAGTGGCCTACACA
1 GGTTCACATAGTAGCCTACACA
43620744 CATTCCATGC
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 59 0.57
102 41 0.39
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (102 bp):
GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAG
CCTGCACATAGTACTACACACGTGACCAAAACTATCC
Found at i:43622123 original size:10 final size:10
Alignment explanation
Indices: 43622102--43622131 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
43622092 CTTAGGTAGA
43622102 ATGTTATTGGC
1 ATGTT-TTGGC
43622113 ATGTTTTGGC
1 ATGTTTTGGC
43622123 ATGTTTTGG
1 ATGTTTTGG
43622132 TACATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.13, C:0.07, G:0.30, T:0.50
Consensus pattern (10 bp):
ATGTTTTGGC
Found at i:43624263 original size:29 final size:29
Alignment explanation
Indices: 43624221--43624287 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
43624211 ACATTATGAC
43624221 ACATTGACAATTGACTTTGTCACTACTCA
1 ACATTGACAATTGACTTTGTCACTACTCA
43624250 ACATTGACAATTGACTTTGTCACTACTCA
1 ACATTGACAATTGACTTTGTCACTACTCA
43624279 AGCA-TGACA
1 A-CATTGACA
43624288 TGTAACCTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (29 bp):
ACATTGACAATTGACTTTGTCACTACTCA
Found at i:43628912 original size:17 final size:17
Alignment explanation
Indices: 43628881--43628913 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43628871 TTTTTTTTAA
43628881 TTTATATTTCTTATTTC
1 TTTATATTTCTTATTTC
43628898 TTTATGATTTC-TATTT
1 TTTAT-ATTTCTTATTT
43628914 GTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATATTTCTTATTTC
Found at i:43631698 original size:35 final size:35
Alignment explanation
Indices: 43631632--43631721 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
43631622 ATCACTATGA
* *
43631632 CATGTTTAACATGCGAGA-CAGAATCTAAATAATGG
1 CATGCTTAACATGCGA-ATCAGAATCTAAATAATAG
*
43631667 CATGCTTAACATGCGAATCATAAT-TAGAATAATAG
1 CATGCTTAACATGCGAATCAGAATCTA-AATAATAG
*
43631702 CATGCTCAACATGCGAATCA
1 CATGCTTAACATGCGAATCA
43631722 AAATATCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 3 0.06
35 46 0.94
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (35 bp):
CATGCTTAACATGCGAATCAGAATCTAAATAATAG
Found at i:43631733 original size:35 final size:35
Alignment explanation
Indices: 43631659--43631733 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
43631649 ACAGAATCTA
* * * *
43631659 AATAATGGCATGCTTAACATGCGAATCATAATTAG
1 AATAATAGCATGCTCAACATGCGAATCAAAATTAC
43631694 AATAATAGCATGCTCAACATGCGAATCAAAA-TATC
1 AATAATAGCATGCTCAACATGCGAATCAAAATTA-C
43631729 AATAA
1 AATAA
43631734 ATCAATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (35 bp):
AATAATAGCATGCTCAACATGCGAATCAAAATTAC
Found at i:43647330 original size:20 final size:20
Alignment explanation
Indices: 43647290--43647330 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43647280 TTAACAATGC
* **
43647290 TTTTATCTCAAACGTGTTTT
1 TTTTATCTCAAAAGTCATTT
43647310 TTTTATCTCAAAAGTCATTT
1 TTTTATCTCAAAAGTCATTT
43647330 T
1 T
43647331 GAAAAGCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTATCTCAAAAGTCATTT
Found at i:43651447 original size:18 final size:18
Alignment explanation
Indices: 43651404--43651447 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43651394 ACTCACTTCA
* * *
43651404 AACCCAAGTATTCAATCC
1 AACCCAATTACTCAACCC
43651422 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
43651440 AACCCAAT
1 AACCCAAT
43651448 CATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.18
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:43651564 original size:9 final size:9
Alignment explanation
Indices: 43651542--43651619 Score: 97
Period size: 9 Copynumber: 8.7 Consensus size: 9
43651532 TATGTATGAT
43651542 TTAATTCGAG
1 TTAATTCG-G
*
43651552 -TAATTTGG
1 TTAATTCGG
43651560 TTAATTCGAG
1 TTAATTCG-G
43651570 -TAATTCGG
1 TTAATTCGG
43651578 TTAATTCGG
1 TTAATTCGG
*
43651587 ATAATTCGG
1 TTAATTCGG
*
43651596 TTAATTTGG
1 TTAATTCGG
43651605 TTAATTCGG
1 TTAATTCGG
43651614 TTAATT
1 TTAATT
43651620 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
8 2 0.03
9 56 0.95
10 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:43651839 original size:16 final size:16
Alignment explanation
Indices: 43651818--43651850 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43651808 GAACACCCCT
43651818 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
43651834 ACTTCTACCTTATTAA
1 ACTTCTACCTTATTAA
43651850 A
1 A
43651851 TGAACAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ACTTCTACCTTATTAA
Found at i:43654269 original size:20 final size:20
Alignment explanation
Indices: 43654199--43654272 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
43654189 AAAAAATTAT
* * *
43654199 AAAATTTTATAAAGTCGTAAG
1 AAAATTATA-AAAATCGTAAA
43654220 AAAATTATACAAAAT-GTAAA
1 AAAATTATA-AAAATCGTAAA
* **
43654240 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAAATCGTAAA
43654259 AAAATTATAAAAAT
1 AAAATTATAAAAAT
43654273 TATCATATCA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 14 0.34
21 12 0.29
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAATCGTAAA
Found at i:43654583 original size:21 final size:21
Alignment explanation
Indices: 43654549--43654607 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
43654539 CTACAGTTCT
*
43654549 TTTTCTTTCT-TTTTTTTGCTG
1 TTTTCTTT-TATTTTTTTGCTA
*
43654570 TTTT-TTATTATTTTGTTGCTA
1 TTTTCTT-TTATTTTTTTGCTA
*
43654591 TTTTCTTTTCTTTTTTT
1 TTTTCTTTTATTTTTTT
43654608 TTTTGACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTATTTTTTTGCTA
Found at i:43656297 original size:26 final size:27
Alignment explanation
Indices: 43656267--43656325 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
43656257 ATATTAAAAT
*
43656267 TATTTATATAATTT-TATTATATATTA
1 TATTTATAAAATTTGTATTATATATTA
* * *
43656293 TATTTTTAAAATTTGTATTTTCTATTA
1 TATTTATAAAATTTGTATTATATATTA
*
43656320 TTTTTA
1 TATTTA
43656326 ATGGTGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTATAAAATTTGTATTATATATTA
Found at i:43660811 original size:94 final size:94
Alignment explanation
Indices: 43660661--43660867 Score: 274
Period size: 94 Copynumber: 2.2 Consensus size: 94
43660651 CTTGTTAAAA
* * * *
43660661 CTCACTCTACGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGCCTCACTTTGCGTGCTTCTTGAGA
1 CTCACTCTGCGTGTTCCTTTGAGAACATGAGCATTTGTGAGCCTCACTTTGCGTGCTCCTTGAGA
* *
43660726 GCATGGGATTTTTTGAGTTTTGTGATA-AGT
66 GCATGGGATTTTGTGAGATTTGT-ATATA-T
* *
43660756 CTCACTCTGTGTGTTCCTTTGA-AACATGAGCATTTGTGAGCCTCACTTTGTGTGCTCCTTGAGA
1 CTCACTCTGCGTGTTCCTTTGAGAACATGAGCATTTGTGAGCCTCACTTTGCGTGCTCCTTGAGA
* *
43660820 GCATGTGCTTTTGTGAGATTTGTATATAT
66 GCATGGGATTTTGTGAGATTTGTATATAT
* *
43660849 CTCATTCTGCGTGCTCCTT
1 CTCACTCTGCGTGTTCCTT
43660868 GCAAGCTACG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
93 20 0.20
94 58 0.59
95 20 0.20
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (94 bp):
CTCACTCTGCGTGTTCCTTTGAGAACATGAGCATTTGTGAGCCTCACTTTGCGTGCTCCTTGAGA
GCATGGGATTTTGTGAGATTTGTATATAT
Found at i:43667944 original size:17 final size:18
Alignment explanation
Indices: 43667908--43667945 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43667898 TTTTTTAATA
* *
43667908 AAAAATCAAATATTTTTC
1 AAAAATAAAATATTTCTC
43667926 AAAAATAAAATA-TTCTC
1 AAAAATAAAATATTTCTC
43667943 AAA
1 AAA
43667946 CTTTAGATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAAAATATTTCTC
Found at i:43675124 original size:18 final size:18
Alignment explanation
Indices: 43675098--43675132 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43675088 ATGATGTGCC
*
43675098 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
43675116 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
43675133 CTTGTTCCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:43676020 original size:17 final size:17
Alignment explanation
Indices: 43675998--43676031 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43675988 TAGGTTTGAG
43675998 GACAACGACAACCCTAA
1 GACAACGACAACCCTAA
43676015 GACAACGACAACCCTAA
1 GACAACGACAACCCTAA
43676032 CTCTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.35, G:0.12, T:0.06
Consensus pattern (17 bp):
GACAACGACAACCCTAA
Found at i:43680083 original size:24 final size:24
Alignment explanation
Indices: 43680053--43680098 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
43680043 ATATCTTAAC
43680053 ATATATGTGTATAAAACCTTCAAT
1 ATATATGTGTATAAAACCTTCAAT
43680077 ATATATGTGTATAAAACCTTCA
1 ATATATGTGTATAAAACCTTCA
43680099 CCTTGGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (24 bp):
ATATATGTGTATAAAACCTTCAAT
Found at i:43681818 original size:54 final size:54
Alignment explanation
Indices: 43681703--43681819 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
43681693 GTGTCTCAGG
* * * * *
43681703 CCATGTAACAATTGAAATAGGGACACATAGCTGTGTCTCAGCCCGTGTCCTTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
* * * *
43681757 TCGTGTAACATTTGAACTAGAGACACACAACTGTGTCCCAGCCCGTAT-CTCTAC
1 CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCT-TAC
43681811 CCATGTAAC
1 CCATGTAAC
43681820 TCACTGAGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (54 bp):
CCATGTAACAATTGAAATAGAGACACACAACTGTGTCCCAGCCCGTATCCTTAC
Found at i:43707642 original size:21 final size:22
Alignment explanation
Indices: 43707618--43707658 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43707608 GCTCTATACT
43707618 TATAA-ACCATAAA-CAAATCTA
1 TATAATACCA-AAACCAAATCTA
43707639 TATAATACCAAAACCAAATC
1 TATAATACCAAAACCAAATC
43707659 ACACCATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (22 bp):
TATAATACCAAAACCAAATCTA
Found at i:43708722 original size:43 final size:43
Alignment explanation
Indices: 43708641--43708722 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
43708631 GTGTCACAGA
* * *
43708641 TCGATGCCACTGTCCCAAATAGGGTCTTACATGTAAACAAAAG
1 TCGATGCCACTGTCCCAAACAGGGTCTTACACGAAAACAAAAG
* *
43708684 TCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACA
1 TCGATGCC-ACTGTCCCAAACAGGGTCTTACACGAAAACA
43708723 CATATCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 31 0.94
44 2 0.06
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (43 bp):
TCGATGCCACTGTCCCAAACAGGGTCTTACACGAAAACAAAAG
Found at i:43710011 original size:11 final size:11
Alignment explanation
Indices: 43709995--43710025 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
43709985 AGCTTTGTCG
*
43709995 TCCCTTGCTAT
1 TCCCTTGCCAT
43710006 TCCCTTGCCAT
1 TCCCTTGCCAT
43710017 TCCCTTGCC
1 TCCCTTGCC
43710026 CCTTCCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.45, G:0.10, T:0.39
Consensus pattern (11 bp):
TCCCTTGCCAT
Found at i:43729443 original size:51 final size:51
Alignment explanation
Indices: 43729382--43729552 Score: 245
Period size: 51 Copynumber: 3.4 Consensus size: 51
43729372 TTTGGGGTTT
* * * * * *
43729382 TTCACATAGTACCACCCATGTTACTATTA-TCATTCGGTACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTA-TCGATACACGTAGTAGCC
* *
43729433 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
*
43729484 TTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
43729535 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
43729553 CGTGTTCATC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 107 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
Found at i:43729525 original size:25 final size:25
Alignment explanation
Indices: 43729448--43729525 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
43729438 TTAGTACTAT
43729448 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
* *
43729473 ACGTAGT-AGCC-TTCACTTA--GTACTAC
1 ACAT-GTGA-CCATT-ATTTATCG-A-TAC
43729499 ACATGTGACCATTATTTATCGATAC
1 ACATGTGACCATTATTTATCGATAC
43729524 AC
1 AC
43729526 GTAGTAGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 18 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (25 bp):
ACATGTGACCATTATTTATCGATAC
Found at i:43737016 original size:51 final size:50
Alignment explanation
Indices: 43736957--43737279 Score: 339
Period size: 51 Copynumber: 6.4 Consensus size: 50
43736947 TTTGGGGGTT
* * * * *
43736957 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTAT-TTTCGATACACGTAGTAGCC
* * *
43737008 TTCACATAGTACTACACATGTGATCA--AGTTTTACGGTTCACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA-TTTT-CGATACACGTAGTAGCC
* * * *
43737058 TTCACATAGTACTACACACGTGACCA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* *
43737109 TTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
* * * *
43737160 TTCACATAGTACTACACACGTGACCA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTA--TTTTCGATACACGTAGTAGCC
* * * *
43737211 TTTACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACCATTATTT-TCGATACACGTAGTAGCC
43737262 TTCACATAGTACTACACA
1 TTCACATAGTACTACACA
43737280 CGTGTTCATC
Statistics
Matches: 226, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.01
50 47 0.21
51 167 0.74
52 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (50 bp):
TTCACATAGTACTACACATGTGACCATTATTTTCGATACACGTAGTAGCC
Found at i:43737181 original size:102 final size:102
Alignment explanation
Indices: 43736989--43737283 Score: 486
Period size: 102 Copynumber: 2.9 Consensus size: 102
43736979 ACTATTATCA
* * * * * * *
43736989 TTCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGT-TTTA-CGGTTCACGTA
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTA
43737052 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
65 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
*
43737090 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACCATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
43737155 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
*
43737192 TTCGGTACACATAGTAGCCTTTACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
43737257 TAGCCTTCACATAGTACTACACACGTG
66 TAGCCTTCACATAGTACTACACACGTG
43737284 TTCATCGGTA
Statistics
Matches: 182, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
100 3 0.02
101 42 0.23
102 137 0.75
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTATACATGTGACAATTATTTATCGATACACGTAG
TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:43737272 original size:153 final size:152
Alignment explanation
Indices: 43736990--43737275 Score: 405
Period size: 153 Copynumber: 1.9 Consensus size: 152
43736980 CTATTATCAT
* * * *
43736990 TCGATACACGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
* * *
43737055 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
43737120 CTATACATGTGACCATTATTTA
131 CTATACATGTGACCATTATTTA
43737142 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTACACATAG
* * * * ** *
43737206 TAGCCTTTACTTAGTACTATACATGTGA-CAATTATTTATCGATACACGTAGTAGCCTTCACATA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAGATTT-TCGATACACATAGTAGCCTTCACATA
43737270 GTACTA
128 GTACTA
43737276 CACACGTGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
152 47 0.40
153 66 0.56
154 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (152 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAAGATTTTCGATACACATAGTAGCCTTCACATAGTA
CTATACATGTGACCATTATTTA
Found at i:43740087 original size:40 final size:40
Alignment explanation
Indices: 43739999--43740079 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
43739989 GCTTTTCTGT
* * * *
43739999 AACACTAGTGGCTTGTCCACATTACTGGCAACTTGTCTGC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
**
43740039 AACACTGGTGGCCTGTCCACATTACTGGCAGTTTATCTAC
1 AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
43740079 A
1 A
43740080 TTACTGGTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
AACACTGGTGGCCTGTCCACATTACTGGCAACTTATCTAC
Found at i:43762761 original size:19 final size:19
Alignment explanation
Indices: 43762737--43762787 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
43762727 TTCCATTAGC
43762737 TTAGATTTTTTCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
* *
43762756 TTAGATTCTATCTTTAGGT
1 TTAGATTTTTTCTTTAGGT
*
43762775 TTAGATTTGTTCT
1 TTAGATTTTTTCT
43762788 CTTGTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (19 bp):
TTAGATTTTTTCTTTAGGT
Found at i:43768938 original size:18 final size:19
Alignment explanation
Indices: 43768915--43768951 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
43768905 TTGACAAATG
43768915 AAAAAAAAATAAT-TTTTT
1 AAAAAAAAATAATATTTTT
*
43768933 AAAAAATAATAATATTTTT
1 AAAAAAAAATAATATTTTT
43768952 TTTCCACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAAAAAATAATATTTTT
Found at i:43770946 original size:12 final size:12
Alignment explanation
Indices: 43770931--43770958 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43770921 TGACAGTAAA
43770931 ATTTAAAAACCT
1 ATTTAAAAACCT
43770943 ATTTAAAAACCT
1 ATTTAAAAACCT
43770955 ATTT
1 ATTT
43770959 CTTTTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAAAACCT
Found at i:43786069 original size:11 final size:12
Alignment explanation
Indices: 43786053--43786081 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
43786043 TTTCTTCAAT
43786053 TTTCTCTCT-AA
1 TTTCTCTCTAAA
43786064 TTTCTCTCTAAA
1 TTTCTCTCTAAA
43786076 TTTCTC
1 TTTCTC
43786082 AAAGCTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTCTCTCTAAA
Found at i:43786289 original size:19 final size:22
Alignment explanation
Indices: 43786248--43786289 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
43786238 TAAGGGTTAA
43786248 TTTTTCAATATTATTTAATTTT
1 TTTTTCAATATTATTTAATTTT
43786270 TTTTTC-AT-TTATTTAATTTT
1 TTTTTCAATATTATTTAATTTT
43786290 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTCAATATTATTTAATTTT
Found at i:43786299 original size:16 final size:16
Alignment explanation
Indices: 43786260--43786306 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
43786250 TTTCAATATT
* *
43786260 ATTTAATTTTTTTTTC
1 ATTTAATTTTATTTTA
*
43786276 ATTT-ATTTAATTTTA
1 ATTTAATTTTATTTTA
43786291 ATTTAATTTTATTTTA
1 ATTTAATTTTATTTTA
43786307 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTAATTTTATTTTA
Found at i:43786299 original size:20 final size:21
Alignment explanation
Indices: 43786258--43786304 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
43786248 TTTTTCAATA
** *
43786258 TTATTTAATTTTTTTTTCA-T
1 TTATTTAATTTTAATTTAATT
43786278 TTATTTAATTTTAATTTAATT
1 TTATTTAATTTTAATTTAATT
43786299 TTATTT
1 TTATTT
43786305 TATAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTAATTTTAATTTAATT
Found at i:43788380 original size:93 final size:92
Alignment explanation
Indices: 43788221--43788411 Score: 337
Period size: 93 Copynumber: 2.1 Consensus size: 92
43788211 ATTGATTTTT
**
43788221 TTAATATATTAGTACAATTTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
1 TTAATATATTAGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
43788286 TTTTAATAGTAATTTATTTTTTATATTC
66 TTTTAATAGTAATTTA-TTTTTATATTC
*
43788314 TTAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
1 TTAATATATTAGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
*
43788379 TTTTAATAGTAATTTATTTTTATATTT
66 TTTTAATAGTAATTTATTTTTATATTC
43788406 TTAATA
1 TTAATA
43788412 AAATAGAAGT
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 16 0.17
93 78 0.83
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (92 bp):
TTAATATATTAGTACAAACTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATA
TTTTAATAGTAATTTATTTTTATATTC
Found at i:43788386 original size:24 final size:24
Alignment explanation
Indices: 43788359--43788414 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
43788349 CATTTAATAA
*
43788359 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAAGTTATTTTTATAT-TTTT
* *
43788383 AATAGTAATTTATTTTTATATTTTT
1 AATA-AAAGTTATTTTTATATTTTT
43788408 AATAAAA
1 AATAAAA
43788415 TAGAAGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.23
25 18 0.69
26 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
AATAAAAGTTATTTTTATATTTTT
Done.