Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 243 of 276
Found at i:80317584 original size:42 final size:42
Alignment explanation
Indices: 80317495--80317595 Score: 100
Period size: 43 Copynumber: 2.4 Consensus size: 42
80317485 CAAAAGGTGG
* **
80317495 TCTTACATGTAATCAAATATTGATGCCACTAACCCAGACAGGG
1 TCTTACATGAAATCAAATATTGATGCCACT-ACCCAGACAGAA
80317538 TCTTACATGAAATCAAATA-TGATGCCAACGT-CCCAGAC-GTAA
1 TCTTACATGAAATCAAATATTGATGCC-AC-TACCCAGACAG-AA
*
80317580 TCTTACACGTAAATCA
1 TCTTACATG-AAATCA
80317596 TAAGTCGATG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.02
42 22 0.44
43 26 0.52
44 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (42 bp):
TCTTACATGAAATCAAATATTGATGCCACTACCCAGACAGAA
Found at i:80323088 original size:24 final size:24
Alignment explanation
Indices: 80323001--80323091 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
80322991 ACACACCGCA
* *
80323001 GCTCTTATGAGCGTCCCGATATATG
1 GCTCATATGAGCTTCCCGATAT-TG
* ** *
80323026 GCTCTTCGGAGCTTCCCAATATTG
1 GCTCATATGAGCTTCCCGATATTG
*
80323050 GCTCACT-TGAACTTCCCGATATTG
1 GCTCA-TATGAGCTTCCCGATATTG
80323074 GCTCATATGAGCTTCCCG
1 GCTCATATGAGCTTCCCG
80323092 TTAATAGCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 35 0.64
25 19 0.35
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.32
Consensus pattern (24 bp):
GCTCATATGAGCTTCCCGATATTG
Found at i:80323137 original size:25 final size:25
Alignment explanation
Indices: 80323048--80323151 Score: 88
Period size: 24 Copynumber: 4.2 Consensus size: 25
80323038 TTCCCAATAT
* * *
80323048 TGGCTCACTTGAACTTCCCGATAT-
1 TGGCTCACATAAACTTCCCGTTATA
* * *
80323072 TGGCTCATATGAGCTTCCCGTTA-A
1 TGGCTCACATAAACTTCCCGTTATA
* * *
80323096 TAGCTCTCCA-AAGCTTCCCGTTATA
1 TGGCTC-ACATAAACTTCCCGTTATA
*
80323121 TGGCTCACATAAACTTCCTGTTATA
1 TGGCTCACATAAACTTCCCGTTATA
80323146 TGGCTC
1 TGGCTC
80323152 GAAAGAGCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
24 38 0.59
25 26 0.41
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (25 bp):
TGGCTCACATAAACTTCCCGTTATA
Found at i:80323970 original size:16 final size:17
Alignment explanation
Indices: 80323946--80323985 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
80323936 ATATATATAT
*
80323946 AAAGTAAAAGAA-AAAA
1 AAAGAAAAAGAATAAAA
*
80323962 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAAAA
80323979 AAAGAAA
1 AAAGAAA
80323986 GAAAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAGAATAAAA
Found at i:80323978 original size:11 final size:10
Alignment explanation
Indices: 80323952--80323989 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
80323942 ATATAAAGTA
*
80323952 AAAGAAAAAA
1 AAAGAAAAAG
80323962 AAAGAAAAAG
1 AAAGAAAAAG
80323972 AATAGAAAAAG
1 AA-AGAAAAAG
80323983 AAAGAAA
1 AAAGAAA
80323990 GGATGAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:80324058 original size:16 final size:16
Alignment explanation
Indices: 80324014--80324052 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
80324004 AGAGAGCAGG
* *
80324014 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
80324030 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
80324046 GGAAAAA
1 GGAAAAA
80324053 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:80325277 original size:51 final size:51
Alignment explanation
Indices: 80325202--80325324 Score: 185
Period size: 51 Copynumber: 2.4 Consensus size: 51
80325192 AATAACTAAG
*
80325202 TTATT-CGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAA
1 TTATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAA
* * *
80325252 TTATTCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAA
1 TTATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAA
* *
80325303 TAATTCCGGATGAAGTATGAAG
1 TTATTCCGGATGAAATATGAAG
80325325 TAAGTTTCAG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
50 5 0.08
51 61 0.92
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (51 bp):
TTATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAA
Found at i:80340146 original size:11 final size:11
Alignment explanation
Indices: 80340130--80340281 Score: 119
Period size: 11 Copynumber: 13.8 Consensus size: 11
80340120 CCTAAGTATA
80340130 AAAACAGCACC
1 AAAACAGCACC
*
80340141 AAAACAGCAAC
1 AAAACAGCACC
80340152 AAAACAGCACC
1 AAAACAGCACC
**
80340163 -AAACAGCATA
1 AAAACAGCACC
* *
80340173 AAAATAGCACAA
1 AAAACAGCAC-C
* *
80340185 AAAATAGCATC
1 AAAACAGCACC
*
80340196 AAAACATCACC
1 AAAACAGCACC
* *
80340207 AAAACAACAAC
1 AAAACAGCACC
80340218 AAAACAGCACC
1 AAAACAGCACC
* **
80340229 AAAATAGCATA
1 AAAACAGCACC
* *
80340240 AAAATAGCACAA
1 AAAACAGCAC-C
80340252 AAAACAGCACC
1 AAAACAGCACC
*
80340263 -AAACAGCACA
1 AAAACAGCACC
*
80340273 AAAATAGCA
1 AAAACAGCA
80340282 TCACCAAAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
10 17 0.15
11 77 0.68
12 20 0.18
ACGTcount: A:0.61, C:0.26, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:80340158 original size:22 final size:22
Alignment explanation
Indices: 80340130--80340281 Score: 132
Period size: 22 Copynumber: 6.9 Consensus size: 22
80340120 CCTAAGTATA
80340130 AAAACAGCACCAAAACAGCAAC
1 AAAACAGCACCAAAACAGCAAC
80340152 AAAACAGCACC-AAACAGCATA-
1 AAAACAGCACCAAAACAGCA-AC
* * * *
80340173 AAAATAGCACAAAAAATAGCATC
1 AAAACAGCAC-CAAAACAGCAAC
* *
80340196 AAAACATCACCAAAACAACAAC
1 AAAACAGCACCAAAACAGCAAC
*
80340218 AAAACAGCACCAAAATAGCATA-
1 AAAACAGCACCAAAACAGCA-AC
* *
80340240 AAAATAGCACAAAAAACAGC-AC
1 AAAACAGCAC-CAAAACAGCAAC
* * *
80340262 CAAACAGCACAAAAATAGCA
1 AAAACAGCACCAAAACAGCA
80340282 TCACCAAAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
21 26 0.25
22 54 0.52
23 23 0.22
ACGTcount: A:0.61, C:0.26, G:0.08, T:0.06
Consensus pattern (22 bp):
AAAACAGCACCAAAACAGCAAC
Found at i:80340198 original size:13 final size:12
Alignment explanation
Indices: 80340172--80340311 Score: 54
Period size: 11 Copynumber: 12.4 Consensus size: 12
80340162 CAAACAGCAT
80340172 AAAAATAGCACA
1 AAAAATAGCACA
80340184 AAAAATAGCATCA
1 AAAAATAGCA-CA
*
80340197 AAACAT--CACCA
1 AAAAATAGCA-CA
*
80340208 AAACA-A-CA-A
1 AAAAATAGCACA
* *
80340217 CAAAACAGCAC-
1 AAAAATAGCACA
* *
80340228 CAAAATAGCA-T
1 AAAAATAGCACA
80340239 AAAAATAGCACA
1 AAAAATAGCACA
*
80340251 AAAAACAGCAC-
1 AAAAATAGCACA
* *
80340262 -CAAACAGCAC-
1 AAAAATAGCACA
80340272 AAAAATAGCATCA
1 AAAAATAGCA-CA
*
80340285 CCAAAA-A-CAC-
1 -AAAAATAGCACA
*
80340295 CAAAATAGCACA
1 AAAAATAGCACA
80340307 AAAAA
1 AAAAA
80340312 CCTGCAAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
9 9 0.09
10 11 0.11
11 42 0.42
12 27 0.27
13 8 0.08
14 4 0.04
ACGTcount: A:0.62, C:0.24, G:0.06, T:0.07
Consensus pattern (12 bp):
AAAAATAGCACA
Found at i:80340254 original size:66 final size:66
Alignment explanation
Indices: 80340130--80340276 Score: 224
Period size: 66 Copynumber: 2.2 Consensus size: 66
80340120 CCTAAGTATA
*
80340130 AAAACAGCACCAAAACAGCAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAATAGCAT
1 AAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAATAGCAT
80340195 C
66 C
* * *
80340196 AAAACATCACCAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
1 AAAACAGCACCAAAACAACAACAAAACAGCACC-AAACAGCATAAAAATAGCACAAAAAATAGCA
80340261 -C
65 TC
* *
80340262 CAAACAGCACAAAAA
1 AAAACAGCACCAAAA
80340277 TAGCATCACC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 44 0.60
67 29 0.40
ACGTcount: A:0.61, C:0.26, G:0.07, T:0.05
Consensus pattern (66 bp):
AAAACAGCACCAAAACAACAACAAAACAGCACCAAACAGCATAAAAATAGCACAAAAAATAGCAT
C
Found at i:80340256 original size:56 final size:56
Alignment explanation
Indices: 80340127--80340312 Score: 152
Period size: 56 Copynumber: 3.4 Consensus size: 56
80340117 ATACCTAAGT
* * * * * **
80340127 ATAAAAACAGCAC-CAAAACAGCAACAAAACAGC-ACCAAACAGCATAAAAATAGC
1 ATAAAAATAGCACAAAAAACAGCACCAAAACAACAACAAAACAGCACCAAAATAGC
* ** *
80340181 ACAAAAAATAGCA-TCAAAACATCACCAAAACAACAACAAAACAGCACCAAAATAGC
1 A-TAAAAATAGCACAAAAAACAGCACCAAAACAACAACAAAACAGCACCAAAATAGC
*
80340237 ATAAAAATAGCACAAAAAACAGCACC-AAACAGCACAA-AAATAGCATCACCAAAA-A-C
1 ATAAAAATAGCACAAAAAACAGCACCAAAACA--ACAACAAA-A-CAGCACCAAAATAGC
**
80340293 ACCAAAATAGCACAAAAAAC
1 ATAAAAATAGCACAAAAAAC
80340313 CTGCAAAATA
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
54 1 0.01
55 41 0.38
56 51 0.47
57 6 0.06
58 10 0.09
ACGTcount: A:0.61, C:0.26, G:0.07, T:0.06
Consensus pattern (56 bp):
ATAAAAATAGCACAAAAAACAGCACCAAAACAACAACAAAACAGCACCAAAATAGC
Found at i:80340296 original size:33 final size:34
Alignment explanation
Indices: 80340213--80340310 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
80340203 CACCAAAACA
*
80340213 ACAACAAAACAGCACCAAAATAGCATAAAAATAGC
1 ACAA-AAAACAGCACCAAAATAGCACAAAAATAGC
*
80340248 ACAAAAAACAGCACC-AAACAGCACAAAAATAGC
1 ACAAAAAACAGCACCAAAATAGCACAAAAATAGC
*
80340281 ATCACCAAAA-A-CACCAAAATAGCACAAAAA
1 A-CA-AAAAACAGCACCAAAATAGCACAAAAA
80340311 ACCTGCAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 21 0.38
34 27 0.48
35 8 0.14
ACGTcount: A:0.61, C:0.26, G:0.07, T:0.06
Consensus pattern (34 bp):
ACAAAAAACAGCACCAAAATAGCACAAAAATAGC
Found at i:80340296 original size:67 final size:67
Alignment explanation
Indices: 80340130--80340310 Score: 217
Period size: 67 Copynumber: 2.7 Consensus size: 67
80340120 CCTAAGTATA
* * * *
80340130 AAAACAGCACCAAAACAGCAACAAAACAGCACC-AAACAGCATAAAAATAGCACAAAAAATAGCA
1 AAAACAGCACAAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
80340194 TC
66 TC
* *
80340196 AAAACATCACCAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
1 AAAACAGCACAAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
80340261 -C
66 TC
* * * *
80340262 CAAACAGCACAAAAATAGCATCACCAAAA-A-CACCAAAATAGCACAAAAA
1 AAAACAGCAC-AAAA-A-CAACAACAAAACAGCACCAAAATAGCATAAAAA
80340311 ACCTGCAAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
66 40 0.40
67 50 0.50
68 2 0.02
69 9 0.09
ACGTcount: A:0.61, C:0.26, G:0.07, T:0.06
Consensus pattern (67 bp):
AAAACAGCACAAAAACAACAACAAAACAGCACCAAAATAGCATAAAAATAGCACAAAAAACAGCA
TC
Found at i:80340303 original size:23 final size:24
Alignment explanation
Indices: 80340247--80340304 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
80340237 ATAAAAATAG
* *
80340247 CACAAAAA-A-CAGCACCAAACAG
1 CACAAAAATAGCATCACCAAACAA
80340269 CACAAAAATAGCATCACCAAA-AA
1 CACAAAAATAGCATCACCAAACAA
*
80340292 CACCAAAATAGCA
1 CACAAAAATAGCA
80340305 CAAAAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 14 0.45
24 9 0.29
ACGTcount: A:0.59, C:0.29, G:0.07, T:0.05
Consensus pattern (24 bp):
CACAAAAATAGCATCACCAAACAA
Found at i:80340305 original size:44 final size:42
Alignment explanation
Indices: 80340130--80340309 Score: 148
Period size: 44 Copynumber: 4.1 Consensus size: 42
80340120 CCTAAGTATA
* * * * *
80340130 AAAACAGCACCAAAACAGCAACAAAACAGCACC-AAACAGCATA
1 AAAACAGCACAAAAATAGCATCAAAA-AACACCAAAACAGCA-C
* * *
80340173 AAAATAGCACAAAAAATAGCATCAAAACATCACCAAAACAACAAC
1 AAAACAGCAC-AAAAATAGCATCAAAA-AACACCAAAACAGC-AC
* *
80340218 AAAACAGCACCAAAATAGCAT-AAAAATAGCACAAAAAACAGCAC
1 AAAACAGCACAAAAATAGCATCAAAAA-A-CAC-CAAAACAGCAC
* *
80340262 CAAACAGCACAAAAATAGCATCACCAAAAACACCAAAATAGCAC
1 AAAACAGCACAAAAATAGCATCA--AAAAACACCAAAACAGCAC
80340306 AAAA
1 AAAA
80340310 AACCTGCAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 13 0.12
44 65 0.59
45 26 0.23
46 2 0.02
47 4 0.04
ACGTcount: A:0.61, C:0.26, G:0.07, T:0.06
Consensus pattern (42 bp):
AAAACAGCACAAAAATAGCATCAAAAAACACCAAAACAGCAC
Found at i:80340468 original size:9 final size:9
Alignment explanation
Indices: 80340454--80340486 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
80340444 ATCGAAGAAA
80340454 CATCATCCT
1 CATCATCCT
80340463 CATCATCCT
1 CATCATCCT
*
80340472 CATCGTCCT
1 CATCATCCT
80340481 CATCAT
1 CATCAT
80340487 TCTTGCAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.21, C:0.42, G:0.03, T:0.33
Consensus pattern (9 bp):
CATCATCCT
Found at i:80347721 original size:21 final size:22
Alignment explanation
Indices: 80347697--80347749 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
80347687 TCCAATGGAG
* *
80347697 TAAAGAAATCTTGTA-ATGAAA
1 TAAAGAAAACTTGAACATGAAA
*
80347718 TAAAAAAAACTTGAACATGAAA
1 TAAAGAAAACTTGAACATGAAA
*
80347740 AAAATGAAAA
1 TAAA-GAAAA
80347750 TTATTCTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 12 0.48
22 9 0.36
23 4 0.16
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (22 bp):
TAAAGAAAACTTGAACATGAAA
Found at i:80361120 original size:6 final size:6
Alignment explanation
Indices: 80361111--80361148 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
80361101 TTGCTTTTCC
80361111 TTTTAT TTTTAT TTTTAT TTTTA- TTTT-T TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
80361149 CAGGTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTAT
Found at i:80361125 original size:17 final size:17
Alignment explanation
Indices: 80361084--80361125 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
80361074 TTTGAGTCCA
80361084 TTTATTTTCACTTTTTT
1 TTTATTTTCACTTTTTT
**
80361101 TTGCTTTTC-CTTTTATT
1 TTTATTTTCACTTTT-TT
80361118 TTTATTTT
1 TTTATTTT
80361126 TATTTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTTCACTTTTTT
Found at i:80361126 original size:28 final size:28
Alignment explanation
Indices: 80361084--80361148 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
80361074 TTTGAGTCCA
* *
80361084 TTTATTTTCACTTTT-TTTTGCTTTTCCT
1 TTTATTTTTACTTTTATTTTGATTTT-CT
* * *
80361112 TTTATTTTTATTTTTATTTTTATTTTTT
1 TTTATTTTTACTTTTATTTTGATTTTCT
80361140 TTTATTTTT
1 TTTATTTTT
80361149 CAGGTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.11, C:0.08, G:0.02, T:0.80
Consensus pattern (28 bp):
TTTATTTTTACTTTTATTTTGATTTTCT
Found at i:80365786 original size:25 final size:25
Alignment explanation
Indices: 80365734--80365815 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
80365724 GTACATGTAT
* * *
80365734 GCTCTTACGAGC-CATAATCGATAA
1 GCTCATACGAGCTAATAATCGGTAA
*
80365758 GCTCATACGAGCTGA-AATACGGTAA
1 GCTCATACGAGCTAATAAT-CGGTAA
* *
80365783 GCTCCTACGAGCTAATAATTGGTAA
1 GCTCATACGAGCTAATAATCGGTAA
80365808 GCTCATAC
1 GCTCATAC
80365816 AATCTGTGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.29
25 31 0.65
26 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTAATAATCGGTAA
Found at i:80380912 original size:54 final size:54
Alignment explanation
Indices: 80380830--80381097 Score: 205
Period size: 54 Copynumber: 5.0 Consensus size: 54
80380820 CCACCTTCGC
* * * *
80380830 GAGCTTGGCTCGCCAAAAGACATCTGCAAGCATGGCTCGCTAAAACATATTTGT
1 GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTGT
* * * * * *
80380884 GAGCTTAGCTCGCCAAAACATATCTGCAAGCTTGGCTCGCCAATATATACCTGC
1 GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTGT
* * * * ** ** *
80380938 GATCTTGGCTCGCCAAAGCATATCTACCAGCATATCTCGTTAATACATATCTGT
1 GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTGT
* * ** * *** * *
80380992 GAACGTGGCTTACCAAAACATATTTATGAGCTTGGCTTGCCAAAACATATCTGT
1 GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTGT
* * * * * **
80381046 GATCTTGGCTCGCCAAAGCATATTTGCGAGCATGACTCATCAAAA-ATATCTG
1 GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTG
80381098 CATATCATGT
Statistics
Matches: 164, Mismatches: 50, Indels: 1
0.76 0.23 0.00
Matches are distributed among these distances:
53 7 0.04
54 157 0.96
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (54 bp):
GAGCTTGGCTCGCCAAAACATATCTGCAAGCATGGCTCGCCAAAACATATCTGT
Found at i:80380915 original size:27 final size:27
Alignment explanation
Indices: 80380831--80381099 Score: 146
Period size: 27 Copynumber: 10.0 Consensus size: 27
80380821 CACCTTCGCG
* *
80380831 AGCTTGGCTCGCCAAAAGACATCTGCA
1 AGCTTGGCTCGCCAAAACATATCTGCA
* * * **
80380858 AGCATGGCTCGCTAAAACATATTTGTG
1 AGCTTGGCTCGCCAAAACATATCTGCA
*
80380885 AGCTTAGCTCGCCAAAACATATCTGCA
1 AGCTTGGCTCGCCAAAACATATCTGCA
* * * *
80380912 AGCTTGGCTCGCCAATATATACCTGCG
1 AGCTTGGCTCGCCAAAACATATCTGCA
* * * *
80380939 ATCTTGGCTCGCCAAAGCATATCTACC
1 AGCTTGGCTCGCCAAAACATATCTGCA
* ** ** * *
80380966 AGCATATCTCGTTAATACATATCTGTGA
1 AGCTTGGCTCGCCAAAACATATCTG-CA
* ** * ***
80380994 A-CGTGGCTTACCAAAACATATTTATG
1 AGCTTGGCTCGCCAAAACATATCTGCA
* **
80381020 AGCTTGGCTTGCCAAAACATATCTGTG
1 AGCTTGGCTCGCCAAAACATATCTGCA
* * * *
80381047 ATCTTGGCTCGCCAAAGCATATTTGCG
1 AGCTTGGCTCGCCAAAACATATCTGCA
* * **
80381074 AGCATGACTCATCAAAA-ATATCTGCA
1 AGCTTGGCTCGCCAAAACATATCTGCA
80381100 TATCATGTTT
Statistics
Matches: 175, Mismatches: 65, Indels: 5
0.71 0.27 0.02
Matches are distributed among these distances:
26 8 0.05
27 166 0.95
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (27 bp):
AGCTTGGCTCGCCAAAACATATCTGCA
Found at i:80386937 original size:20 final size:20
Alignment explanation
Indices: 80386912--80386949 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80386902 GTCACATATA
80386912 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
80386932 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
80386950 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:80392613 original size:18 final size:19
Alignment explanation
Indices: 80392579--80392616 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
80392569 CGTTGAAGAA
80392579 ATGAGACAAGAGCTGAATT
1 ATGAGACAAGAGCTGAATT
80392598 ATGAGA-AAGA-CATGAATT
1 ATGAGACAAGAGC-TGAATT
80392616 A
1 A
80392617 CAATCTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 11 0.61
19 6 0.33
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.21
Consensus pattern (19 bp):
ATGAGACAAGAGCTGAATT
Found at i:80395831 original size:91 final size:91
Alignment explanation
Indices: 80395717--80395901 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
80395707 TCATTTCCTG
80395717 TTAACTTATTAAAAGTGATAACAGTAACATGAAAACAATAAAGGAAAGCAAAAATAAAATGATCA
1 TTAACTTATTAAAAGTGATAACAGTAACATGAAAACAATAAAGGAAAGCAAAAATAAAATGATCA
80395782 AATAATTTATTCATAACCTCAAGAGC
66 AATAATTTATTCATAACCTCAAGAGC
80395808 TTAACTTATTAAAAGTGATAACAGTAACATGAAAACAATAAAGGAAAGCAAAAATAAAATGATCA
1 TTAACTTATTAAAAGTGATAACAGTAACATGAAAACAATAAAGGAAAGCAAAAATAAAATGATCA
80395873 AATAATTTATTCATAACCTCAAGAGC
66 AATAATTTATTCATAACCTCAAGAGC
80395899 TTA
1 TTA
80395902 TTATATAGGC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (91 bp):
TTAACTTATTAAAAGTGATAACAGTAACATGAAAACAATAAAGGAAAGCAAAAATAAAATGATCA
AATAATTTATTCATAACCTCAAGAGC
Found at i:80403439 original size:19 final size:20
Alignment explanation
Indices: 80403405--80403445 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
80403395 ACAAATAAAT
* *
80403405 AAAATTCATAATTTTTTTTA
1 AAAATTAATAATTTTTATTA
80403425 AAAATTAATAA-TTTTATTA
1 AAAATTAATAATTTTTATTA
80403444 AA
1 AA
80403446 CCAGTTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTAATAATTTTTATTA
Found at i:80404959 original size:21 final size:20
Alignment explanation
Indices: 80404911--80404967 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
80404901 TGGATATTAT
* *
80404911 TTTTAATAATTTTTAAATAAT
1 TTTT-ATAAATTTTAAATAAA
80404932 TTCTTATAAATTTTAAATAAAA
1 TT-TTATAAATTTTAAAT-AAA
*
80404954 TTTTATAACTTTTA
1 TTTTATAAATTTTA
80404968 GAATTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATAAATTTTAAATAAA
Found at i:80406919 original size:7 final size:6
Alignment explanation
Indices: 80406892--80406917 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
80406882 TATTATTATA
80406892 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
80406918 TAATGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:80407769 original size:12 final size:12
Alignment explanation
Indices: 80407753--80407818 Score: 80
Period size: 12 Copynumber: 5.5 Consensus size: 12
80407743 TTGATAATCA
80407753 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
80407765 CTTCTTTTCGTC
1 TTTCTTTTCATC
80407777 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
80407789 TTTCTTGTCGTC
1 TTTCTTTTCATC
80407801 TTT-TTTGTCATC
1 TTTCTTT-TCATC
80407813 TTTCTT
1 TTTCTT
80407819 CTCTTCTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.05, C:0.24, G:0.06, T:0.65
Consensus pattern (12 bp):
TTTCTTTTCATC
Found at i:80407780 original size:24 final size:24
Alignment explanation
Indices: 80407753--80407827 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
80407743 TTGATAATCA
* *
80407753 TTTCTTTTCATCCTTCTTTTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
80407777 TTTCTTTTCATCTTTCTTGTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
80407801 TTT-TTTGTCATCTTTCTTCTCTTC
1 TTTCTTT-TCATCTTTCTTCTCGTC
80407825 TTT
1 TTT
80407828 AGCAGGTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.04, C:0.25, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTCTTTTCATCTTTCTTCTCGTC
Found at i:80414682 original size:35 final size:35
Alignment explanation
Indices: 80414636--80414705 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
80414626 TTATAGACAG
80414636 AATGCGTTCTCTTGTTGCTAATGGTTTACCACTTT
1 AATGCGTTCTCTTGTTGCTAATGGTTTACCACTTT
80414671 AATGCGTTCTCTTGTTGCTAATGGTTTACCACTTT
1 AATGCGTTCTCTTGTTGCTAATGGTTTACCACTTT
80414706 TACTTTCTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (35 bp):
AATGCGTTCTCTTGTTGCTAATGGTTTACCACTTT
Found at i:80414802 original size:51 final size:51
Alignment explanation
Indices: 80414743--80414845 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
80414733 TTATCTCAAC
*
80414743 AACAATTATGTCTTTCTCATATTATTAGAGCTACTGATTGGACTTTTGCAG
1 AACAATTATGTCTTTCTCATATTATGAGAGCTACTGATTGGACTTTTGCAG
*
80414794 AACAATTATGTCTTTCTCATATTATGAGAGCTACTGATTGGACTTTTTCAG
1 AACAATTATGTCTTTCTCATATTATGAGAGCTACTGATTGGACTTTTGCAG
80414845 A
1 A
80414846 TAATTCGTCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (51 bp):
AACAATTATGTCTTTCTCATATTATGAGAGCTACTGATTGGACTTTTGCAG
Found at i:80420592 original size:20 final size:20
Alignment explanation
Indices: 80420550--80420593 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
80420540 AAAAACTTTG
*
80420550 AATTATTTTCATAAAAAATA
1 AATTATTTTCAGAAAAAATA
*
80420570 AATTATTTTGAGAAAGAAA-A
1 AATTATTTTCAGAAA-AAATA
80420590 AATT
1 AATT
80420594 GGGTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
AATTATTTTCAGAAAAAATA
Found at i:80421245 original size:37 final size:38
Alignment explanation
Indices: 80421170--80421245 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
80421160 AATTATTTTC
*
80421170 GTATTTTATTTTGAAGGTGAGATATTTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
80421208 GTATTTTATTTTGAAGGTGAGACA-TTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
80421245 G
1 G
80421246 AAACTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (38 bp):
GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
Found at i:80421344 original size:24 final size:24
Alignment explanation
Indices: 80421308--80421354 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
80421298 TTGATTATTT
*
80421308 TTTTCACCCTTCTTTTCGTCTTTC
1 TTTTCACCCTTCTTCTCGTCTTTC
* * *
80421332 TTTTCATCTTTCTTCTCTTCTTT
1 TTTTCACCCTTCTTCTCGTCTTT
80421355 AGCAGGTCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTCACCCTTCTTCTCGTCTTTC
Found at i:80421741 original size:28 final size:28
Alignment explanation
Indices: 80421701--80421757 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
80421691 TTCTGATGAG
80421701 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
80421729 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
80421757 A
1 A
80421758 CTGAAGCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAACTAATTCTAAAGGGAAACCAAAGT
Found at i:80429554 original size:6 final size:6
Alignment explanation
Indices: 80429543--80429604 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
80429533 GTTAGCGAAC
* * * *
80429543 AAATAT AAATAT AAATAC AAATAT AAATATT AAATAT AAGATTT GAATAA
1 AAATAT AAATAT AAATAT AAATAT AAATA-T AAATAT AA-ATAT AAATAT
80429593 ATAATAT AAATA
1 A-AATAT AAATA
80429605 AATATTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 30 0.67
7 15 0.33
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:80429564 original size:12 final size:12
Alignment explanation
Indices: 80429543--80429604 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 12
80429533 GTTAGCGAAC
80429543 AAATATAAATAT
1 AAATATAAATAT
*
80429555 AAATACAAATAT
1 AAATATAAATAT
80429567 AAATATTAAATAT
1 AAATA-TAAATAT
* * *
80429580 AAGATTTGAATAA
1 AA-ATATAAATAT
80429593 ATAATATAAATA
1 A-AATATAAATA
80429605 AATATTTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
12 16 0.40
13 21 0.52
14 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (12 bp):
AAATATAAATAT
Found at i:80429564 original size:18 final size:19
Alignment explanation
Indices: 80429541--80429578 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
80429531 ATGTTAGCGA
80429541 ACAAATATAAATA-TAAAT
1 ACAAATATAAATATTAAAT
80429559 ACAAATATAAATATTAAAT
1 ACAAATATAAATATTAAAT
80429578 A
1 A
80429579 TAAGATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ACAAATATAAATATTAAAT
Found at i:80431787 original size:87 final size:87
Alignment explanation
Indices: 80431636--80431810 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
80431626 ACCCCTTATG
*
80431636 TTAAAAGAGATTTTGAGAGGTGGGATCGTTCAAATCAGAGGATGAGTTTTATGATCCCAAAATTA
1 TTAAAAGAGATTTTGAGAGGTGGGATCATTCAAATCAGAGGATGAGTTTTATGATCCCAAAATTA
80431701 AAACTATTTTTGAGACAAGAAT
66 AAACTATTTTTGAGACAAGAAT
*
80431723 TTAAAAGAGATTTTGAGAGGTGGGATCATTCAAATCAGAGGATGAGTTTTATGATCCCAGAATTA
1 TTAAAAGAGATTTTGAGAGGTGGGATCATTCAAATCAGAGGATGAGTTTTATGATCCCAAAATTA
80431788 AAACTATTTTTGAGACAAGAAT
66 AAACTATTTTTGAGACAAGAAT
80431810 T
1 T
80431811 GCAACATTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (87 bp):
TTAAAAGAGATTTTGAGAGGTGGGATCATTCAAATCAGAGGATGAGTTTTATGATCCCAAAATTA
AAACTATTTTTGAGACAAGAAT
Found at i:80434353 original size:30 final size:30
Alignment explanation
Indices: 80434319--80434378 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
80434309 TTTCAATTGA
80434319 TTTTTAAAACATAAAAATAAAAATAAAAAG
1 TTTTTAAAACATAAAAATAAAAATAAAAAG
80434349 TTTTTAAAACATAAAAATAAAAATAAAAAG
1 TTTTTAAAACATAAAAATAAAAATAAAAAG
80434379 AAAGTTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
TTTTTAAAACATAAAAATAAAAATAAAAAG
Found at i:80434533 original size:14 final size:13
Alignment explanation
Indices: 80434501--80434529 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
80434491 TTTTTATTTC
80434501 ATTAAATAAAAAA
1 ATTAAATAAAAAA
80434514 ATTAAATAAAAAA
1 ATTAAATAAAAAA
80434527 ATT
1 ATT
80434530 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATTAAATAAAAAA
Found at i:80434558 original size:26 final size:24
Alignment explanation
Indices: 80434527--80434576 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
80434517 AAATAAAAAA
*
80434527 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
80434553 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
80434577 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:80434596 original size:21 final size:21
Alignment explanation
Indices: 80434547--80434605 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
80434537 ATAATAAATC
*
80434547 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
80434567 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
80434589 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
80434606 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:80440310 original size:60 final size:61
Alignment explanation
Indices: 80440242--80440363 Score: 201
Period size: 61 Copynumber: 2.0 Consensus size: 61
80440232 ACCGTATTTG
* *
80440242 TTTCAGGTAAGGTTACAATTCTACC-GCCACTTTTGTTTGAGTTGCATCATTTGCTCCCTT
1 TTTCAGGTAAGGTTACAATTCTACCGGCCACTTTTGATTGAGCTGCATCATTTGCTCCCTT
**
80440302 TTTCAGGTAAGGTTACAATTCTACCGGCTGCTTTTGATTGAGCTGCATCATTTGCTCCCTT
1 TTTCAGGTAAGGTTACAATTCTACCGGCCACTTTTGATTGAGCTGCATCATTTGCTCCCTT
80440363 T
1 T
80440364 GGTTCAGCGG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 25 0.44
61 32 0.56
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (61 bp):
TTTCAGGTAAGGTTACAATTCTACCGGCCACTTTTGATTGAGCTGCATCATTTGCTCCCTT
Found at i:80445080 original size:54 final size:54
Alignment explanation
Indices: 80445019--80445128 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
80445009 AAAAAGAAAA
80445019 AGGGGGGGGGGGTGGAAATGAAGCTCAAAGTATATGCAGATCGAATGTCTCAGCC
1 AGGGGGGGGGGG-GGAAATGAAGCTCAAAGTATATGCAGATCGAATGTCTCAGCC
80445074 AGGGGGGGGGGGGGAAATGAAGCTCAAAGTATATGCAGATCGAATGTCTCAGCC
1 AGGGGGGGGGGGGGAAATGAAGCTCAAAGTATATGCAGATCGAATGTCTCAGCC
80445128 A
1 A
80445129 TGTCGTGCTG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 43 0.78
55 12 0.22
ACGTcount: A:0.30, C:0.15, G:0.38, T:0.17
Consensus pattern (54 bp):
AGGGGGGGGGGGGGAAATGAAGCTCAAAGTATATGCAGATCGAATGTCTCAGCC
Found at i:80452361 original size:16 final size:16
Alignment explanation
Indices: 80452326--80452363 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
80452316 AGGTTTAAGA
80452326 AATAAAACAATTATGT
1 AATAAAACAATTATGT
80452342 -ATAAAA-AATTATGT
1 AATAAAACAATTATGT
80452356 GAATAAAA
1 -AATAAAA
80452364 GGTTAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 6 0.30
16 6 0.30
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (16 bp):
AATAAAACAATTATGT
Found at i:80452481 original size:20 final size:19
Alignment explanation
Indices: 80452437--80452486 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
80452427 ATATGTATTT
* *
80452437 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
80452456 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
80452476 TTAAAAAATAT
1 TTAAAAAATAT
80452487 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:80456006 original size:26 final size:27
Alignment explanation
Indices: 80455977--80456051 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
80455967 CAAGATGAAT
80455977 ATATAATTATTTTTAATAAA-TAAAA-A
1 ATATAATTATTTTTAA-AAATTAAAATA
** *
80456003 ATATATAAAATTATTAAAAATTAAAATA
1 ATATA-ATTATTTTTAAAAATTAAAATA
80456031 ATATAATATAATTTTTAAAAA
1 ATATAAT-T-ATTTTTAAAAA
80456052 AAATAGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
26 8 0.21
27 14 0.37
28 6 0.16
29 10 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
ATATAATTATTTTTAAAAATTAAAATA
Found at i:80456006 original size:28 final size:29
Alignment explanation
Indices: 80455974--80456051 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
80455964 TATCAAGATG
*
80455974 AATATATAATTATTTTTAATAAA-TAAAA-
1 AATATATAATAATTTTTAA-AAATTAAAAT
*
80456002 AATATATAA-AATTATTAAAAATTAAAAT
1 AATATATAATAATTTTTAAAAATTAAAAT
80456030 AATATA-ATATAATTTTTAAAAA
1 AATATATA-ATAATTTTTAAAAA
80456052 AAATAGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 16 0.37
29 11 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AATATATAATAATTTTTAAAAATTAAAAT
Found at i:80463426 original size:22 final size:20
Alignment explanation
Indices: 80463386--80463425 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
80463376 ATTATTTGAC
80463386 TTATTCTTTTCTTACTTTTA
1 TTATTCTTTTCTTACTTTTA
80463406 TTATATCTATTTCTT-CTTTT
1 TTAT-TCT-TTTCTTACTTTT
80463426 TTTGTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTCTTTTCTTACTTTTA
Found at i:80465307 original size:12 final size:11
Alignment explanation
Indices: 80465277--80465307 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
80465267 TTATCATTTC
80465277 ATATCATTCAA
1 ATATCATTCAA
80465288 ATATCATTCAA
1 ATATCATTCAA
80465299 ATCATCATT
1 AT-ATCATT
80465308 TTAAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATCATTCAA
Found at i:80465817 original size:16 final size:16
Alignment explanation
Indices: 80465783--80465835 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
80465773 ATGGCATTAG
80465783 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
80465799 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
80465815 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
80465831 TCATG
1 TCATG
80465836 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:80466079 original size:40 final size:40
Alignment explanation
Indices: 80466024--80466130 Score: 187
Period size: 40 Copynumber: 2.7 Consensus size: 40
80466014 ACTAGTTTGG
80466024 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
1 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
* * *
80466064 CACCCAGTGTCTCATAGGATAATTCGACGTAGTAAATTGA
1 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
80466104 CACCCAATGCCTCATAGGATAATTCGA
1 CACCCAATGCCTCATAGGATAATTCGA
80466131 AGTGTCTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (40 bp):
CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
Found at i:80473379 original size:6 final size:6
Alignment explanation
Indices: 80473368--80473394 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
80473358 ATGTGCCGAC
80473368 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
80473395 CGATTCGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:80473438 original size:6 final size:6
Alignment explanation
Indices: 80473419--80473449 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
80473409 GTGCGTCGAA
*
80473419 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
80473450 TCGAATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:80473495 original size:6 final size:6
Alignment explanation
Indices: 80473484--80473514 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
80473474 CTGTGTACCG
80473484 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
80473515 CCGGCTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:80482567 original size:14 final size:15
Alignment explanation
Indices: 80482518--80482567 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
80482508 GTATCTTGGG
*
80482518 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
80482533 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
80482548 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
80482562 TTTCTT
1 TTTCTT
80482568 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:80486237 original size:7 final size:7
Alignment explanation
Indices: 80486225--80486250 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
80486215 TAAAATAAAT
80486225 TTAAAAA
1 TTAAAAA
80486232 TTAAAAA
1 TTAAAAA
80486239 TTAAAAA
1 TTAAAAA
80486246 TTAAA
1 TTAAA
80486251 TCAAATTATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:80487710 original size:14 final size:14
Alignment explanation
Indices: 80487677--80487721 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
80487667 ATAGGTTAAT
*
80487677 AATAATGTAATATAG
1 AATAATG-AATAAAG
*
80487692 TATAATGAATAAAG
1 AATAATGAATAAAG
*
80487706 AATAATGAGTAAAG
1 AATAATGAATAAAG
80487720 AA
1 AA
80487722 ACATAGAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.27
Consensus pattern (14 bp):
AATAATGAATAAAG
Found at i:80488774 original size:61 final size:61
Alignment explanation
Indices: 80488679--80488800 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
80488669 TATAAATATT
80488679 TTTATAAATATTTATGGAGTGTCATTGAGTTAGTATTAAAGTTTCATTAGAAAATTTTAAC
1 TTTATAAATATTTATGGAGTGTCATTGAGTTAGTATTAAAGTTTCATTAGAAAATTTTAAC
*
80488740 TTTATAAATATTTATGGAGTGTCATTGAGTTAGTATTAAAGTTTCGTTAGAAAATTTTAAC
1 TTTATAAATATTTATGGAGTGTCATTGAGTTAGTATTAAAGTTTCATTAGAAAATTTTAAC
80488801 GTTTGGATGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (61 bp):
TTTATAAATATTTATGGAGTGTCATTGAGTTAGTATTAAAGTTTCATTAGAAAATTTTAAC
Found at i:80489230 original size:108 final size:108
Alignment explanation
Indices: 80489041--80489257 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
80489031 TCTAGACATT
80489041 TCTTCATATTTTCTCAGCCAAAACGCCATAGAAGGTCTGGAGAAAGCTGTTTTTTCATATTTTTA
1 TCTTCATATTTTCTCAGCCAAAACGCCATAGAAGGTCTGGAGAAAGCTGTTTTTTCATATTTTTA
80489106 CATCATGTGAGTTTAATTCTTACTTTTCTTAATAATTCTTATG
66 CATCATGTGAGTTTAATTCTTACTTTTCTTAATAATTCTTATG
80489149 TCTTCATATTTTCTCAGCCAAAACGCCATAGAAGGTCTGGAGAAAGCTGTTTTTTCATATTTTTA
1 TCTTCATATTTTCTCAGCCAAAACGCCATAGAAGGTCTGGAGAAAGCTGTTTTTTCATATTTTTA
*
80489214 CATCATGTGAGTTTAATTCTTACTTTTCTTAATAATTTTTATG
66 CATCATGTGAGTTTAATTCTTACTTTTCTTAATAATTCTTATG
80489257 T
1 T
80489258 TTTATGACTT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (108 bp):
TCTTCATATTTTCTCAGCCAAAACGCCATAGAAGGTCTGGAGAAAGCTGTTTTTTCATATTTTTA
CATCATGTGAGTTTAATTCTTACTTTTCTTAATAATTCTTATG
Found at i:80490123 original size:53 final size:54
Alignment explanation
Indices: 80489967--80490132 Score: 216
Period size: 53 Copynumber: 3.1 Consensus size: 54
80489957 GACGAAAAAT
* **
80489967 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAG-CTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
80490019 ATGTGATAATGTGACTCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
* * *
80490072 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTAT-A
80490126 TATGTGA
1 -ATGTGA
80490133 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
51 4 0.04
52 12 0.12
53 79 0.77
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
Found at i:80497591 original size:53 final size:54
Alignment explanation
Indices: 80497435--80497600 Score: 216
Period size: 53 Copynumber: 3.1 Consensus size: 54
80497425 GACGAAAAAT
* **
80497435 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAG-CTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
80497487 ATGTGATAATGTGACTCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
* * *
80497540 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTAT-A
80497594 TATGTGA
1 -ATGTGA
80497601 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
51 4 0.04
52 12 0.12
53 79 0.77
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATA
Found at i:80505608 original size:47 final size:47
Alignment explanation
Indices: 80505544--80505654 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
80505534 GACATTGAGT
* *
80505544 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
80505591 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
*
80505638 CGTTGAAGCACTATGTG
1 CGATGAAGCACTATGTG
80505655 CTTATCCTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:80508384 original size:7 final size:7
Alignment explanation
Indices: 80508374--80508491 Score: 236
Period size: 7 Copynumber: 16.9 Consensus size: 7
80508364 TGTATTTTTT
80508374 ATATTTA
1 ATATTTA
80508381 ATATTTA
1 ATATTTA
80508388 ATATTTA
1 ATATTTA
80508395 ATATTTA
1 ATATTTA
80508402 ATATTTA
1 ATATTTA
80508409 ATATTTA
1 ATATTTA
80508416 ATATTTA
1 ATATTTA
80508423 ATATTTA
1 ATATTTA
80508430 ATATTTA
1 ATATTTA
80508437 ATATTTA
1 ATATTTA
80508444 ATATTTA
1 ATATTTA
80508451 ATATTTA
1 ATATTTA
80508458 ATATTTA
1 ATATTTA
80508465 ATATTTA
1 ATATTTA
80508472 ATATTTA
1 ATATTTA
80508479 ATATTTA
1 ATATTTA
80508486 ATATTT
1 ATATTT
80508492 GATTTTTATT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 111 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATTTA
Found at i:80512201 original size:75 final size:75
Alignment explanation
Indices: 80512074--80512221 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
80512064 TGCTCGCCAA
* *
80512074 GAATGTTATAATATAATTTTGTTGCTTGTATTTCCATTCTAGGACGGTGTAGTTACACTAACTGC
1 GAATGTTATAATATAATTTTGTTGCTCGTATTTCCATTCTAGGACCGTGTAGTTACACTAACTGC
80512139 TGTAGCCCAG
66 TGTAGCCCAG
80512149 GAATGTTATAATATAATTTTGTTGCTCGTATTTCCATTCTAGGACACG-GTAGTTACACTAACTG
1 GAATGTTATAATATAATTTTGTTGCTCGTATTTCCATTCTAGGAC-CGTGTAGTTACACTAACTG
80512213 CTGTAGCCC
65 CTGTAGCCC
80512222 TAACATTTAG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 69 0.99
76 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (75 bp):
GAATGTTATAATATAATTTTGTTGCTCGTATTTCCATTCTAGGACCGTGTAGTTACACTAACTGC
TGTAGCCCAG
Found at i:80537024 original size:12 final size:12
Alignment explanation
Indices: 80537007--80537031 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80536997 CAGAGGCTAT
80537007 TAACAATATTTA
1 TAACAATATTTA
80537019 TAACAATATTTA
1 TAACAATATTTA
80537031 T
1 T
80537032 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:80539585 original size:21 final size:20
Alignment explanation
Indices: 80539556--80539594 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
80539546 ACGCCTACGA
80539556 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
80539576 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
80539595 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:80539787 original size:15 final size:15
Alignment explanation
Indices: 80539767--80539805 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
80539757 TATCATTTCA
80539767 ATATATAATTTAAAT
1 ATATATAATTTAAAT
80539782 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
80539798 ATAT-TAAT
1 ATATATAAT
80539806 AATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:80544697 original size:64 final size:63
Alignment explanation
Indices: 80544597--80544722 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 63
80544587 CAACATGGGC
*
80544597 ATTCTTCTTAGCAAGAATTATTGCAGTAGGATAATGGCTAGGAGGATTTGAAAGGCATTATGT
1 ATTCTTCTTAGCAAGAATTATTGCAATAGGATAATGGCTAGGAGGATTTGAAAGGCATTATGT
80544660 ATTCTTCTTAGCAAAGAATTATTGCAATAGGATAATGGCTAGGAGGATTTGAAAGGCATTATG
1 ATTCTTCTTAGC-AAGAATTATTGCAATAGGATAATGGCTAGGAGGATTTGAAAGGCATTATG
80544723 GCATTAAGAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 12 0.20
64 49 0.80
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (63 bp):
ATTCTTCTTAGCAAGAATTATTGCAATAGGATAATGGCTAGGAGGATTTGAAAGGCATTATGT
Found at i:80544858 original size:24 final size:24
Alignment explanation
Indices: 80544826--80544874 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
80544816 AGTCATGATG
*
80544826 ATATTACTGAGGAACGTCTTTATC
1 ATATTACTGAAGAACGTCTTTATC
80544850 ATATTACTGAAGAACGTCTTTATC
1 ATATTACTGAAGAACGTCTTTATC
80544874 A
1 A
80544875 GAATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (24 bp):
ATATTACTGAAGAACGTCTTTATC
Found at i:80546326 original size:323 final size:323
Alignment explanation
Indices: 80545738--80546384 Score: 1242
Period size: 323 Copynumber: 2.0 Consensus size: 323
80545728 TTCGATTCAT
80545738 TTTCAATTAGGCCTTGCTCTAGCTTCTTTAGGGGTTATTACGTCCTTGGTAGCTCAACACATGTA
1 TTTCAATTAGGCCTTGCTCTAGCTTCTTTAGGGGTTATTACGTCCTTGGTAGCTCAACACATGTA
80545803 CTCTTTACCTGCTTATGCGTTCATAGCACAAGACTTTACTACTCAAGCTGCGTTATATACCCATC
66 CTCTTTACCTGCTTATGCGTTCATAGCACAAGACTTTACTACTCAAGCTGCGTTATATACCCATC
*
80545868 ACCAATACATCGCAGGATTCATCATGACAGGAGCTTTTGCCCACGGAGCTATATTTTTTTATTCG
131 ACCAATACATCGCAGGATTCATCATGACAGGAGCTTTTGCCCACGGAGCTATATTTTTTTATTAG
*
80545933 AGATTACAATCCGGAACAGAATGAGGATAATTATTGGCAAGAATGTTAGACCATAAAGAAGCTAT
196 AGATTACAATCCGGAACAGAATGAGGATAATTATTGGCAAGAATGCTAGACCATAAAGAAGCTAT
*
80545998 CATATCCCATTTAAGTTGGGCCAGCCTCTTTCTGGGATTCCATACTTTGGTACTTTATGTGCA
261 CATATCCCATTTAAGTTGGGCCAGCCTCTTTCTGGGATTCCATACTTTGGGACTTTATGTGCA
80546061 TTTCAATTAGGCCTTGCTCTAGCTTCTTTAGGGGTTATTACGTCCTTGGTAGCTCAACACATGTA
1 TTTCAATTAGGCCTTGCTCTAGCTTCTTTAGGGGTTATTACGTCCTTGGTAGCTCAACACATGTA
80546126 CTCTTTACCTGCTTATGCGTTCATAGCACAAGACTTTACTACTCAAGCTGCGTTATATACCCATC
66 CTCTTTACCTGCTTATGCGTTCATAGCACAAGACTTTACTACTCAAGCTGCGTTATATACCCATC
80546191 ACCAATACATCGCAGGATTCATCATGACAGGAGCTTTTGCCCACGGAGCTATA-TTTTTTATTAG
131 ACCAATACATCGCAGGATTCATCATGACAGGAGCTTTTGCCCACGGAGCTATATTTTTTTATTAG
*
80546255 AGATTACAATCCGGAACAGAATGAGGATAATGTATTGGCAAGAATGCTAGACCATAAAGAAGTTA
196 AGATTACAATCCGGAACAGAATGAGGATAAT-TATTGGCAAGAATGCTAGACCATAAAGAAGCTA
80546320 TCATATCCCATTTAAGTTGGGCCAGCCTCTTTCTGGGATTCCATACTTTGGGACTTTATGTGCA
260 TCATATCCCATTTAAGTTGGGCCAGCCTCTTTCTGGGATTCCATACTTTGGGACTTTATGTGCA
80546384 T
1 T
80546385 AATGATGTCA
Statistics
Matches: 319, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
322 41 0.13
323 278 0.87
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (323 bp):
TTTCAATTAGGCCTTGCTCTAGCTTCTTTAGGGGTTATTACGTCCTTGGTAGCTCAACACATGTA
CTCTTTACCTGCTTATGCGTTCATAGCACAAGACTTTACTACTCAAGCTGCGTTATATACCCATC
ACCAATACATCGCAGGATTCATCATGACAGGAGCTTTTGCCCACGGAGCTATATTTTTTTATTAG
AGATTACAATCCGGAACAGAATGAGGATAATTATTGGCAAGAATGCTAGACCATAAAGAAGCTAT
CATATCCCATTTAAGTTGGGCCAGCCTCTTTCTGGGATTCCATACTTTGGGACTTTATGTGCA
Found at i:80548392 original size:26 final size:25
Alignment explanation
Indices: 80548349--80548397 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
80548339 TTATATTTAT
* *
80548349 ATTAATTGCTAATAATTTGTAATTTG
1 ATTAATTGATAAGAATTTG-AATTTG
*
80548375 ATTAATTGATAAGCATTTGAATT
1 ATTAATTGATAAGAATTTGAATT
80548398 GTTATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (25 bp):
ATTAATTGATAAGAATTTGAATTTG
Found at i:80554349 original size:100 final size:100
Alignment explanation
Indices: 80554173--80554371 Score: 362
Period size: 100 Copynumber: 2.0 Consensus size: 100
80554163 GAAGAGCCAT
80554173 TTTCAAGTAGTGTTCGATCGATTACGTATTAATCAATATTCGATTGATTGGTCTTCAATTCCCAT
1 TTTCAAGTAGTGTTCGATCGATTACGTATTAATCAATATTCGATTGATTGGTCTTCAATTCCCAT
*
80554238 TCTCAATCCATGACCAATATGAACTCGAAGTTTCC
66 TCTCAACCCATGACCAATATGAACTCGAAGTTTCC
* *
80554273 TTTCAAGTAGTGTTCGATCGATTACGTATTAATCAATATTTGATTGATTGGTCTTCAATTCCCGT
1 TTTCAAGTAGTGTTCGATCGATTACGTATTAATCAATATTCGATTGATTGGTCTTCAATTCCCAT
*
80554338 TCTCAACCCATGACTAATATGAACTCGAAGTTTC
66 TCTCAACCCATGACCAATATGAACTCGAAGTTTC
80554372 ATTCGTAACC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (100 bp):
TTTCAAGTAGTGTTCGATCGATTACGTATTAATCAATATTCGATTGATTGGTCTTCAATTCCCAT
TCTCAACCCATGACCAATATGAACTCGAAGTTTCC
Found at i:80557864 original size:44 final size:41
Alignment explanation
Indices: 80557769--80557874 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 41
80557759 AGAAAATCAA
80557769 GATGAAAACCCGAAAAAGGGCATCTTAAAAAAAAGGATTAAG
1 GATGAAAACCCG-AAAAGGGCATCTTAAAAAAAAGGATTAAG
*
80557811 G-TGAAAACCCGAAAAGGGCGTCTTGATTAACACAAAA-GATT-AG
1 GATGAAAACCCGAAAAGGGCATCTT-A--AA-A-AAAAGGATTAAG
80557854 GATGAAAACCC-AAAAGGGCAT
1 GATGAAAACCCGAAAAGGGCAT
80557875 TCTAATGAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
40 12 0.21
41 11 0.20
42 1 0.02
43 14 0.25
44 14 0.25
45 4 0.07
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (41 bp):
GATGAAAACCCGAAAAGGGCATCTTAAAAAAAAGGATTAAG
Found at i:80559029 original size:86 final size:86
Alignment explanation
Indices: 80558736--80559030 Score: 350
Period size: 86 Copynumber: 3.4 Consensus size: 86
80558726 CTGCTTTTTG
* * *
80558736 AAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTTAGG--ACACGCTGAGGTAA-TTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGTCACACGCTGAGG-AATTTTCAATT
80558798 TCTGTTTCTCAATTTC-TACTTTTCAA
64 TCTGTTT-T-AA-TTCATACTTTTC-A
* * * * *
80558824 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACACACTGAGGTATTTCCAAAT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACACGCTGAGGAATTTTCAATT
80558889 TCTG-TTTAATTCATACTTTTCA
64 TCTGTTTTAATTCATACTTTTCA
* * *
80558911 AAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGAATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACACGCTGAGGAATTTTCAATTT
* *
80558976 CTGTTTTAGTTCAT-GTTTTCA
65 CTGTTTTAATTCATACTTTTCA
80558997 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
80559031 TTTTAATTTC
Statistics
Matches: 179, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.01
86 95 0.53
87 13 0.07
88 11 0.06
89 35 0.20
90 3 0.02
91 20 0.11
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (86 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCTGAGGAATTTTCAATTTC
TGTTTTAATTCATACTTTTCA
Found at i:80560051 original size:37 final size:36
Alignment explanation
Indices: 80559988--80560059 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
80559978 AATTCAGAAA
*
80559988 CCCACTAACCCATACCTACTAACCTAAACCAACCTAG
1 CCCACTAACCCATACCAACTAACCT-AACCAACCTAG
* *
80560025 CCCACTAACCCATACCCAAC-ACCCTAACCACCCTA
1 CCCACTAACCCATA-CCAACTAACCTAACCAACCTA
80560060 ACCCTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.29
37 18 0.58
38 4 0.13
ACGTcount: A:0.36, C:0.49, G:0.01, T:0.14
Consensus pattern (36 bp):
CCCACTAACCCATACCAACTAACCTAACCAACCTAG
Found at i:80560715 original size:86 final size:86
Alignment explanation
Indices: 80560570--80560776 Score: 335
Period size: 86 Copynumber: 2.4 Consensus size: 86
80560560 TTTAATCTGT
* * *
80560570 AAATAGTGTGGTTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAACATGTTGTGTACTC
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
80560635 ACAACAAGTGGCAGTAACTGC
66 ACAACAAGTGGCAGTAACTGC
* * *
80560656 AAATAGTGTGGTTTGATAATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGCACTC
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
*
80560721 ACAACAAGTGGCAGTAACTGT
66 ACAACAAGTGGCAGTAACTGC
*
80560742 AAATA-TGTGGTTCGATCATGAACCAAGTGGTAGTT
1 AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTT
80560777 AATTTGCAAA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 28 0.25
86 84 0.75
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (86 bp):
AAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTGTTTAATCTGCAAACATGTTGTGCACTC
ACAACAAGTGGCAGTAACTGC
Found at i:80560810 original size:80 final size:82
Alignment explanation
Indices: 80560566--80560825 Score: 310
Period size: 86 Copynumber: 3.1 Consensus size: 82
80560556 ATAGTTTAAT
* * * *
80560566 CTGTAAATAGTGTGGTTCGATTATGAACCAAGTGTTAGTTTGTTTAATCTGCAAACATGTTGTGT
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTG---G-TAGTTTAATCTGCAAATATGTTGTGC
80560631 ACTCACAACAAGTGGCAGTAA
62 ACTCACAACAAGTGGCAGTAA
* * *
80560652 CTGCAAATAGTGTGGTTTGATAATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGC
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTA----GTTTAATCTGCAAATATGTTGTGC
80560717 ACTCACAACAAGTGGCAGTAA
62 ACTCACAACAAGTGGCAGTAA
* * *
80560738 CTGTAAATA-TGTGGTTCGATCATGAACCAAGTGGTAG-TTAATTTGCAAATATATTGTGCAC-C
1 CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTAATCTGCAAATATGTTGTGCACTC
* *
80560800 TACAACAAGTGACAGTTA
66 -ACAACAAGTGGCAGTAA
80560818 CTGTAAAT
1 CTGTAAAT
80560826 CTGCGGTGGT
Statistics
Matches: 154, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
79 1 0.01
80 44 0.29
81 1 0.01
82 1 0.01
83 1 0.01
85 25 0.16
86 81 0.53
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (82 bp):
CTGTAAATAGTGTGGTTCGATAATGAACCAAGTGGTAGTTTAATCTGCAAATATGTTGTGCACTC
ACAACAAGTGGCAGTAA
Found at i:80584928 original size:13 final size:13
Alignment explanation
Indices: 80584910--80584935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80584900 AAAAGCGTGA
80584910 AGGACAAAAGAGC
1 AGGACAAAAGAGC
80584923 AGGACAAAAGAGC
1 AGGACAAAAGAGC
80584936 GGTTGATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.31, T:0.00
Consensus pattern (13 bp):
AGGACAAAAGAGC
Found at i:80589529 original size:26 final size:26
Alignment explanation
Indices: 80589485--80589542 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
80589475 AAAAGGCAGT
* *
80589485 TTTCT-TCTTTTCTTGACTTAAAATC
1 TTTCTCTCTTCTCTTAACTTAAAATC
80589510 TTTCTCTCTTCTCTTAACTTAAAATC
1 TTTCTCTCTTCTCTTAACTTAAAATC
80589536 TTTCTCT
1 TTTCTCT
80589543 AAGTATGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTCTCTCTTCTCTTAACTTAAAATC
Found at i:80600687 original size:15 final size:15
Alignment explanation
Indices: 80600667--80600697 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
80600657 CCACTTGGAG
*
80600667 ACTTGGGATTTCAGC
1 ACTTGGGATTCCAGC
80600682 ACTTGGGATTCCAGC
1 ACTTGGGATTCCAGC
80600697 A
1 A
80600698 GGAAATGCGA
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:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (15 bp):
ACTTGGGATTCCAGC
Found at i:80606929 original size:24 final size:24
Alignment explanation
Indices: 80606897--80606945 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
80606887 CAACGGATTC
* *
80606897 CTCACCCTCAGGAGCCCGAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
* *
80606921 CTCATCCTCATCAGCCCCAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
80606945 C
1 C
80606946 GAATCCGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.41, G:0.14, T:0.16
Consensus pattern (24 bp):
CTCACCCTCAGCAGCCCCAAGTAA
Found at i:80608584 original size:18 final size:18
Alignment explanation
Indices: 80608561--80608596 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
80608551 TAAGGTATTA
80608561 AGGAACTACTAAAACCGC
1 AGGAACTACTAAAACCGC
*
80608579 AGGAACTACTAATACCGC
1 AGGAACTACTAAAACCGC
80608597 TCTTCCCGGG
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:0.42, C:0.28, G:0.17, T:0.14
Consensus pattern (18 bp):
AGGAACTACTAAAACCGC
Found at i:80620827 original size:9 final size:9
Alignment explanation
Indices: 80620813--80620837 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
80620803 ATGGGAACTC
80620813 AAATAAAAT
1 AAATAAAAT
80620822 AAATAAAAT
1 AAATAAAAT
80620831 AAATAAA
1 AAATAAA
80620838 TTGTATCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:80628511 original size:18 final size:17
Alignment explanation
Indices: 80628478--80628511 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
80628468 TGAGTGAATC
*
80628478 TCGTAGGCTTTTTTCTT
1 TCGTAGGCTATTTTCTT
80628495 TCGTAGGCCTATTTTCT
1 TCGTAGG-CTATTTTCT
80628512 GTAAGCGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.53
Consensus pattern (17 bp):
TCGTAGGCTATTTTCTT
Found at i:80672818 original size:51 final size:51
Alignment explanation
Indices: 80672742--80672844 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
80672732 AGCTTGTTAA
*
80672742 TGATGCATGTGATGGTGGCTTGATGATTCTTGAACCTCCTTTTTAGCATTT
1 TGATGCATGTGATGGTGCCTTGATGATTCTTGAACCTCCTTTTTAGCATTT
* *
80672793 TGATGCATGTGATTGTGCCTTGATGATTCTTGAACCTCTTTTTTAGCATTT
1 TGATGCATGTGATGGTGCCTTGATGATTCTTGAACCTCCTTTTTAGCATTT
80672844 T
1 T
80672845 TGAGTGAGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (51 bp):
TGATGCATGTGATGGTGCCTTGATGATTCTTGAACCTCCTTTTTAGCATTT
Found at i:80673734 original size:166 final size:166
Alignment explanation
Indices: 80673460--80673792 Score: 589
Period size: 166 Copynumber: 2.0 Consensus size: 166
80673450 GAATGATAAA
80673460 TGTCTTGTGTTTGAGTTTTGCTAACGAAAATGATATACGAATGGGCCATGATTTATTGTTAAATG
1 TGTCTTGTGTTTGAGTTTTGCTAACGAAAATGATATACGAATGGGCCATGATTTATTGTTAAATG
80673525 TGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGT-GACC-ATATC
66 TGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTAGACCAAT-TC
*
80673588 CAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
130 CAGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
80673626 TGTCTTGTGTTTGAGTTTTGCTAACGAAAATGATATACGAATGGGCCATGATTTATTGTTAAATG
1 TGTCTTGTGTTTGAGTTTTGCTAACGAAAATGATATACGAATGGGCCATGATTTATTGTTAAATG
* *
80673691 TGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTATACTAATTCC
66 TGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTAGACCAATTCC
* *
80673756 GGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
131 AGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673792 T
1 T
80673793 CCGGGCTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
166 147 0.92
167 11 0.07
168 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (166 bp):
TGTCTTGTGTTTGAGTTTTGCTAACGAAAATGATATACGAATGGGCCATGATTTATTGTTAAATG
TGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTAGACCAATTCC
AGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:80673799 original size:39 final size:39
Alignment explanation
Indices: 80673712--80674671 Score: 1768
Period size: 39 Copynumber: 24.5 Consensus size: 39
80673702 TTGAATGATG
*
80673712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAG-ATACTAAT
80673753 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673792 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673831 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673870 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673909 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673948 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80673987 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674026 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674065 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674104 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674143 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674182 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674221 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674260 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674299 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674338 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674377 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674416 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674455 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674494 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
80674533 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
80674572 TCC-GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACT-AAT
*
80674611 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
80674649 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGCTAAG-CCCGAAGGCA
80674672 CTTGAACGAG
Statistics
Matches: 905, Mismatches: 7, Indels: 15
0.98 0.01 0.02
Matches are distributed among these distances:
38 34 0.04
39 801 0.89
40 52 0.06
41 18 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:80679939 original size:23 final size:23
Alignment explanation
Indices: 80679911--80679962 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
80679901 AAAAACTATA
80679911 TAATAAAGTATAAAATCACATTT
1 TAATAAAGTATAAAATCACATTT
** *
80679934 TAATAATTTCTAAAATCACATTT
1 TAATAAAGTATAAAATCACATTT
80679957 TAATAA
1 TAATAA
80679963 TTTCTATCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (23 bp):
TAATAAAGTATAAAATCACATTT
Found at i:80679963 original size:23 final size:23
Alignment explanation
Indices: 80679921--80679968 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
80679911 TAATAAAGTA
80679921 TAAAATCACATTTTAATAATTTC
1 TAAAATCACATTTTAATAATTTC
80679944 TAAAATCACATTTTAATAATTTC
1 TAAAATCACATTTTAATAATTTC
80679967 TA
1 TA
80679969 TCTCCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAATCACATTTTAATAATTTC
Found at i:80684829 original size:15 final size:15
Alignment explanation
Indices: 80684796--80684829 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
80684786 AGTTATGTCT
*
80684796 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
80684811 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
80684826 ATGT
1 ATGT
80684830 TAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:80695338 original size:60 final size:62
Alignment explanation
Indices: 80695221--80695343 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 62
80695211 AAGGAGCATG
80695221 GGCATAAAATAATAAAAGGGAATATGATGAAAACAAAACAAAAAAAAGAATGTGTGGTTGTTT
1 GGCATAAAATAATAAAAGGGAATATGATGAAAACAAAACAAAAAAAAGAA-GTGTGGTTGTTT
80695284 GGCATAAAATAATAAAAGGGAATATGATGAAAACAAAA-AAAAAAAAGAA-TGTGGTTGTTT
1 GGCATAAAATAATAAAAGGGAATATGATGAAAACAAAACAAAAAAAAGAAGTGTGGTTGTTT
80695344 CCCCCCATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
60 11 0.18
62 11 0.18
63 38 0.63
ACGTcount: A:0.54, C:0.04, G:0.20, T:0.22
Consensus pattern (62 bp):
GGCATAAAATAATAAAAGGGAATATGATGAAAACAAAACAAAAAAAAGAAGTGTGGTTGTTT
Found at i:80696591 original size:40 final size:39
Alignment explanation
Indices: 80696547--80696651 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
80696537 AGTGACCATA
*
80696547 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
80696587 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
80696625 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
80696652 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:80696608 original size:39 final size:40
Alignment explanation
Indices: 80696507--80696651 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
80696497 TTGAATGATG
* *
80696507 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
80696547 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
80696586 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
80696626 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
80696652 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:80696665 original size:40 final size:39
Alignment explanation
Indices: 80696508--80696670 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
80696498 TGAATGATGT
** * * *
80696508 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
80696548 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
80696588 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
80696627 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
80696667 CCGG
1 CCGG
80696671 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:80696670 original size:79 final size:80
Alignment explanation
Indices: 80696507--80696657 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
80696497 TTGAATGATG
*
80696507 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
80696572 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
80696587 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
80696649 TTGAACGAG
64 TTGAACGAG
80696658 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:80718329 original size:27 final size:27
Alignment explanation
Indices: 80718299--80718476 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
80718289 ATATTGAGCC
*
80718299 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
** *
80718326 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
*
80718353 CGCACACTTAGTGCTATATAGTCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
* *** ** *
80718381 CGCACACTTAGAGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* **
80718408 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * *
80718435 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
80718462 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80718477 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:80718438 original size:82 final size:81
Alignment explanation
Indices: 80718320--80718472 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 81
80718310 TGCTATATAA
* * *
80718320 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTATATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
80718385 CACTTAGAGCCGCATGG
65 CACTTAGAGCCGCATGG
* * **
80718402 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
80718466 CACTTAG
65 CACTTAG
80718473 TGCTGTACAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 13 0.21
82 50 0.79
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGAGCCGCATGG
Found at i:80718459 original size:54 final size:54
Alignment explanation
Indices: 80718299--80718476 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
80718289 ATATTGAGCC
* * * *
80718299 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* * ** * *
80718353 CGCACACTTAGTGCTATATAGTCAAACTCGCACACTTAGAGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
80718408 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
80718462 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80718477 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
54 61 0.59
55 43 0.41
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:80719052 original size:13 final size:13
Alignment explanation
Indices: 80719034--80719058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80719024 TACTAAATTT
80719034 TCATGGATTCAAG
1 TCATGGATTCAAG
80719047 TCATGGATTCAA
1 TCATGGATTCAA
80719059 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:80719842 original size:21 final size:21
Alignment explanation
Indices: 80719815--80719857 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
80719805 TATTCATCCT
* *
80719815 TTCTTTTCTTTT-TAATTCAC
1 TTCTTTTTTTTTCTAATCCAC
80719835 TTCTTTTTTTTTCTAATCCAC
1 TTCTTTTTTTTTCTAATCCAC
80719856 TT
1 TT
80719858 ACCAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCTTTTTTTTTCTAATCCAC
Found at i:80721355 original size:29 final size:29
Alignment explanation
Indices: 80721313--80721370 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
80721303 TATCTTCTAT
* *
80721313 TAGGATTAGCGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
*
80721342 TAGGAATAGCGTTTCGATATGATACTAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
80721371 AATGGGTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (29 bp):
TAGGAATAGCGTTTCGATATGATAATAAA
Found at i:80724344 original size:12 final size:12
Alignment explanation
Indices: 80724324--80724361 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
80724314 TTTTTATATG
*
80724324 TTATATGTTATT
1 TTATCTGTTATT
80724336 TTATCTGTTATT
1 TTATCTGTTATT
80724348 TTATC--TTATT
1 TTATCTGTTATT
80724358 TTAT
1 TTAT
80724362 GTTGTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATCTGTTATT
Found at i:80724369 original size:10 final size:10
Alignment explanation
Indices: 80724327--80724369 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
80724317 TTATATGTTA
80724327 TATGTTATTT
1 TATGTTATTT
80724337 TATCTGTTATTT
1 TA--TGTTATTT
*
80724349 TATCTTATTT
1 TATGTTATTT
*
80724359 TATGTTGTTT
1 TATGTTATTT
80724369 T
1 T
80724370 GTAAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 18 0.64
12 10 0.36
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (10 bp):
TATGTTATTT
Found at i:80724511 original size:16 final size:16
Alignment explanation
Indices: 80724486--80724518 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
80724476 ACGGTATTCT
*
80724486 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
80724502 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
80724518 A
1 A
80724519 AGGAATAATA
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:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:80727268 original size:23 final size:23
Alignment explanation
Indices: 80727242--80727309 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 23
80727232 GATGGATTAT
80727242 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
80727265 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
*
80727293 ATTATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
80727310 TGGTTGGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.45
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:80727268 original size:28 final size:27
Alignment explanation
Indices: 80727215--80727298 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 27
80727205 CACTTTGTGC
80727215 TATTCTGGTGTGCTTTGGATGGATTATAT
1 TATTCTGGTGTG-TTTGGA-GGATTATAT
80727244 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTT-GGAGGATTATAT
* *
80727272 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
80727299 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:80730732 original size:23 final size:23
Alignment explanation
Indices: 80730706--80730756 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
80730696 AATTAAGGGA
*
80730706 TTAAATTTATATGTTTAAAATCC
1 TTAAATTTATACGTTTAAAATCC
80730729 TTAAATTTATACGTTTAAAATCC
1 TTAAATTTATACGTTTAAAATCC
*
80730752 CTAAA
1 TTAAA
80730757 GAGTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAAATTTATACGTTTAAAATCC
Found at i:80735247 original size:17 final size:17
Alignment explanation
Indices: 80735225--80735259 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
80735215 CGATTGACTG
80735225 TGTTGGATCTGGTTTCC
1 TGTTGGATCTGGTTTCC
80735242 TGTTGGATCTGGTTTCC
1 TGTTGGATCTGGTTTCC
80735259 T
1 T
80735260 AAGTGTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.29, T:0.49
Consensus pattern (17 bp):
TGTTGGATCTGGTTTCC
Found at i:80745174 original size:30 final size:30
Alignment explanation
Indices: 80745138--80745197 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
80745128 CCAAAATGAG
80745138 ATCAATAGTGTGGTGACGATCCTCGACTAT
1 ATCAATAGTGTGGTGACGATCCTCGACTAT
80745168 ATCAATAGTGTGGTGACGATCCTCGACTAT
1 ATCAATAGTGTGGTGACGATCCTCGACTAT
80745198 CCTCGAGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (30 bp):
ATCAATAGTGTGGTGACGATCCTCGACTAT
Found at i:80745658 original size:42 final size:43
Alignment explanation
Indices: 80745612--80745718 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
80745602 TTGATGCCTT
* *
80745612 TGTCCCAGACAGGGTCTTACACG-AAATC-AAATACGATGCCGA
1 TGTCCCAGACACGGTCTTACACGTAAATCTAAAT-CGAGGCCGA
* * * * *
80745654 TGTCCTAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTA
1 TGTCCCAGACACGGTCTTACACGTAAATCTAAATCGAGGCCGA
*
80745697 TGTCCCAGATACGGTCTTACAC
1 TGTCCCAGACACGGTCTTACAC
80745719 AATGTCTCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 20 0.38
43 30 0.57
44 3 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACACGGTCTTACACGTAAATCTAAATCGAGGCCGA
Found at i:80751363 original size:28 final size:28
Alignment explanation
Indices: 80751300--80751509 Score: 323
Period size: 28 Copynumber: 7.5 Consensus size: 28
80751290 ATATTAAGTC
*
80751300 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
80751327 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80751355 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80751383 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80751411 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80751439 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
80751467 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
80751496 CGCACACTTAGTGC
1 CGCACACTTAGTGC
80751510 CAATCTCATG
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 22 0.13
28 127 0.76
29 19 0.11
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:80755199 original size:40 final size:39
Alignment explanation
Indices: 80755162--80755253 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
80755152 GCTACTCGTT
*
80755162 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
80755202 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
80755241 CAAATGCCTTCGG
1 CAAATGCCTTCGG
80755254 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:80755233 original size:39 final size:40
Alignment explanation
Indices: 80755143--80755306 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
80755133 CGGAATTTAA
** *
80755143 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
80755183 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
80755222 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
80755262 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
80755302 CCGGA
1 CCGGA
80755307 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:80764514 original size:55 final size:55
Alignment explanation
Indices: 80764440--80764604 Score: 321
Period size: 55 Copynumber: 3.0 Consensus size: 55
80764430 GCAGACGTAG
80764440 GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
1 GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
80764495 GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
1 GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
*
80764550 GAAAACTGAACTACATAAACAAATCCTTGGTGTTTTTTGTTTTGGTTTGCACAGT
1 GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
80764605 TGTAAAACCT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
GAAAACTGAACTACATAAACAAATCCTTGGTGTTCTTTGTTTTGGTTTGCACAGT
Found at i:80767720 original size:12 final size:12
Alignment explanation
Indices: 80767703--80767734 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
80767693 ATTTGTACCA
80767703 AAAATTAATTTT
1 AAAATTAATTTT
80767715 AAAATTAATTTT
1 AAAATTAATTTT
*
80767727 AAATTTAA
1 AAAATTAA
80767735 ATACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAAATTAATTTT
Done.