Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 303 of 444
Found at i:87290009 original size:29 final size:27
Alignment explanation
Indices: 87289933--87290046 Score: 90
Period size: 28 Copynumber: 4.1 Consensus size: 27
87289923 ATTTTTATTA
**
87289933 AAACCTCTAAACCCTAAATAATAAACCAT
1 AAACC-CTAAACCCTAAACCATAAA-CAT
*
87289962 AAACCCTAAAACC-ATAACCACTAAACAT
1 AAACCCTAAACCCTA-AACCA-TAAACAT
*
87289990 GAAACCCTAAACCCTAAACCATAAACTCT
1 -AAACCCTAAACCCTAAACCATAAAC-AT
** *
87290019 AAACTTTAAATCCTAAACC-TAAA-AT
1 AAACCCTAAACCCTAAACCATAAACAT
87290044 AAA
1 AAA
87290047 ATATTTATTG
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
25 4 0.06
27 5 0.07
28 34 0.48
29 27 0.38
30 1 0.01
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.19
Consensus pattern (27 bp):
AAACCCTAAACCCTAAACCATAAACAT
Found at i:87290028 original size:14 final size:14
Alignment explanation
Indices: 87289954--87290015 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
87289944 CCCTAAATAA
87289954 TAAACCATAAACCC
1 TAAACCATAAACCC
87289968 TAAAACCAT-AACCAC
1 T-AAACCATAAACC-C
87289983 TAAA-CATGAAACCC
1 TAAACCAT-AAACCC
* *
87289997 TAAACCCTAAACCA
1 TAAACCATAAACCC
87290011 TAAAC
1 TAAAC
87290016 TCTAAACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 3 0.07
14 23 0.56
15 15 0.37
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.15
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:87290419 original size:84 final size:83
Alignment explanation
Indices: 87290286--87290457 Score: 256
Period size: 84 Copynumber: 2.1 Consensus size: 83
87290276 AGTAAAAACA
*
87290286 CCACTAAAACTTAATTCCCTATAGTGAAACGATGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
1 CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
87290351 CGGCGTTTATGAAAAATG
66 CGGCGTTTATGAAAAATG
* * * * *
87290369 CCACTAAAAATTTAATTCCCTGTAGTGAAACGACG-TCGTCTAGGGCAAATTGGTATTGCAATTT
1 CCACT-AAAACTTAATTCCCTATAGTGAAACGACGCT-GCCCAAGGCAAATTGGTATTGCAATTT
*
87290433 TGTGGCGTTTATGAAAAATG
64 TGCGGCGTTTATGAAAAATG
87290453 CCACT
1 CCACT
87290458 GATACATAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
83 6 0.08
84 74 0.93
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (83 bp):
CCACTAAAACTTAATTCCCTATAGTGAAACGACGCTGCCCAAGGCAAATTGGTATTGCAATTTTG
CGGCGTTTATGAAAAATG
Found at i:87290683 original size:124 final size:126
Alignment explanation
Indices: 87290362--87290709 Score: 333
Period size: 126 Copynumber: 2.8 Consensus size: 126
87290352 GGCGTTTATG
* * *
87290362 AAAAATGCCACTAAAAATTTAATTCCCTGTAGTGAAACGACGTCGTCTAGGGCAAATTGGTATTG
1 AAAAATGCCACTAAAAATTTAATTCCCTGTAGTGAAACGTCGTCGTTTAAGGCAAATTGGTATTG
* * *
87290427 CAATTTTGTGGCGTTTATGAAAAATGCCACTGATACATAACATTTGCGACGTTTTCTATAA
66 CAATTTTGCGGCGTTTATGAAAAACGCCACTAATACATAACATTTGCGACGTTTTCTATAA
* * * * * * * * * * *
87290488 AAAAATGCCACTAAAAAATTAATGCTCTGTAATGAAAGGAT-GCCATTTAAGTCGATTTGCTATT
1 AAAAATGCCACTAAAAATTTAATTCCCTGTAGTGAAACG-TCGTCGTTTAAGGCAAATTGGTATT
* * ** * * * ** * *
87290552 TCAATTTTGCGGCGTTTATGAAAAGCGCCACTAATGTATCACCTTTGTGGTGTTTTC-GT-C
65 GCAATTTTGCGGCGTTTATGAAAAACGCCACTAATACATAACATTTGCGACGTTTTCTATAA
* * * * * *
87290612 CAAAACGCCATTAAAAATTTAATTTCCTGTAGTGAAATGTCGTCGTTTAAGGCAAATGGGTATTG
1 AAAAATGCCACTAAAAATTTAATTCCCTGTAGTGAAACGTCGTCGTTTAAGGCAAATTGGTATTG
* * *
87290677 CAATTTTGCAGCATTTATGAAAAACGGCACTAA
66 CAATTTTGCGGCGTTTATGAAAAACGCCACTAA
87290710 AAATTTAATG
Statistics
Matches: 171, Mismatches: 49, Indels: 6
0.76 0.22 0.03
Matches are distributed among these distances:
123 1 0.01
124 75 0.44
125 1 0.01
126 94 0.55
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (126 bp):
AAAAATGCCACTAAAAATTTAATTCCCTGTAGTGAAACGTCGTCGTTTAAGGCAAATTGGTATTG
CAATTTTGCGGCGTTTATGAAAAACGCCACTAATACATAACATTTGCGACGTTTTCTATAA
Found at i:87295752 original size:21 final size:21
Alignment explanation
Indices: 87295680--87295773 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
87295670 TCCATACGGA
*
87295680 CGTGTGCC-CTAGCCACATGGC
1 CGTGTGCCTCTA-TCACATGGC
* * * *
87295701 CATGTTCCTCTCTTCACACAGG-
1 CGTGTGCCTCT-ATCACA-TGGC
* *
87295723 CGTGAGCCTCTATCACATGGG
1 CGTGTGCCTCTATCACATGGC
*
87295744 TGTGTGCCTCTATCACATGGC
1 CGTGTGCCTCTATCACATGGC
87295765 CGTGTGCCT
1 CGTGTGCCT
87295774 TTTTTTACAC
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
20 2 0.04
21 37 0.67
22 14 0.25
23 2 0.04
ACGTcount: A:0.15, C:0.33, G:0.24, T:0.28
Consensus pattern (21 bp):
CGTGTGCCTCTATCACATGGC
Found at i:87302483 original size:28 final size:28
Alignment explanation
Indices: 87302450--87302508 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
87302440 GAAGTAAGGA
87302450 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCCTCTTATACCCATTCAGGAAAC
87302478 ATTCTCCTCTTATACCCATTCAGGAAAC
1 ATTCTCCTCTTATACCCATTCAGGAAAC
87302506 ATT
1 ATT
87302509 TCTAGATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (28 bp):
ATTCTCCTCTTATACCCATTCAGGAAAC
Found at i:87310221 original size:47 final size:47
Alignment explanation
Indices: 87310163--87310284 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
87310153 GCATTGGCAT
*
87310163 TAAGACAAGGATACCATGTAAGACCGTGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
87310210 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
87310257 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
87310285 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:87310392 original size:55 final size:54
Alignment explanation
Indices: 87310263--87310514 Score: 314
Period size: 55 Copynumber: 4.6 Consensus size: 54
87310253 TTGGTAAGAT
* * *
87310263 AAGGATATCATGTAAGACCATGCCAAGGCATGGTATTGATAAGTTCTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
** * *
87310317 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
*
87310372 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTCATGAGTTACTATAAGGC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
87310427 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
87310480 AAGGATAC-CACGTAAGACCATGTCAAGACATGGCA
1 AAGGAT-CTCATGTAAGACCATGCCAAGGCATGGCA
87310515 ATGGTAAGTT
Statistics
Matches: 178, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
52 4 0.02
53 31 0.17
54 42 0.24
55 97 0.54
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATCTCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:87310455 original size:29 final size:29
Alignment explanation
Indices: 87310367--87310456 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 29
87310357 GAGTTACTAT
87310367 AAGGCAAAGGTCTCATGTAAGACCATGCC
1 AAGGCAAAGGTCTCATGTAAGACCATGCC
* *
87310396 AAGGC-ATGG-CATTCATG--AGTTACTAT---
1 AAGGCAAAGGTC--TCATGTAAG--ACCATGCC
87310422 AAGGCAAAGGTCTCATGTAAGACCATGCC
1 AAGGCAAAGGTCTCATGTAAGACCATGCC
87310451 AAGGCA
1 AAGGCA
87310457 TGGCATTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 22
0.64 0.06 0.31
Matches are distributed among these distances:
26 14 0.30
27 6 0.13
28 6 0.13
29 20 0.43
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (29 bp):
AAGGCAAAGGTCTCATGTAAGACCATGCC
Found at i:87313855 original size:16 final size:18
Alignment explanation
Indices: 87313819--87313858 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
87313809 CTATTATTCA
87313819 GAACAACCTCTACATTGG
1 GAACAACCTCTACATTGG
*
87313837 GAACAA-CTC-ACATTTG
1 GAACAACCTCTACATTGG
87313853 GAACAA
1 GAACAA
87313859 GTCAAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (18 bp):
GAACAACCTCTACATTGG
Found at i:87313909 original size:17 final size:17
Alignment explanation
Indices: 87313877--87313910 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87313867 TATCATTATT
**
87313877 CAAGAACAACTCTCATC
1 CAAGAACAACAATCATC
87313894 CAAGAACAACAATCATC
1 CAAGAACAACAATCATC
87313911 TTGTGTTTCA
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:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (17 bp):
CAAGAACAACAATCATC
Found at i:87316462 original size:23 final size:22
Alignment explanation
Indices: 87316390--87316516 Score: 166
Period size: 22 Copynumber: 5.7 Consensus size: 22
87316380 TCACCCACCG
*
87316390 AACACAACCAATTTACCCTCCA
1 AACACAACCAATATACCCTCCA
*
87316412 AACACAACCAATTTACCCTCCA
1 AACACAACCAATATACCCTCCA
*
87316434 AACACAACCAAGTATAACCTCCA
1 AACACAACCAA-TATACCCTCCA
*
87316457 AGCACAACCAAATATACCCTCC-
1 AACACAACC-AATATACCCTCCA
87316479 AACACAACCAAATATACCCTCCA
1 AACACAACC-AATATACCCTCCA
* *
87316502 AACACATCCACTATA
1 AACACAACCAATATA
87316517 TGTGTACTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
22 59 0.62
23 34 0.36
24 2 0.02
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.16
Consensus pattern (22 bp):
AACACAACCAATATACCCTCCA
Found at i:87316463 original size:45 final size:44
Alignment explanation
Indices: 87316390--87316507 Score: 166
Period size: 45 Copynumber: 2.6 Consensus size: 44
87316380 TCACCCACCG
* *
87316390 AACACAACCAATTTACCCTCCAAACACAACC-AATTTACCCTCC
1 AACACAACCAATATACCCTCCAAACACAACCAAATATACCCTCC
* *
87316433 AAACACAACCAAGTATAACCTCCAAGCACAACCAAATATACCCTCC
1 -AACACAACCAA-TATACCCTCCAAACACAACCAAATATACCCTCC
87316479 AACACAACCAAATATACCCTCCAAACACA
1 AACACAACC-AATATACCCTCCAAACACA
87316508 TCCACTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
44 11 0.17
45 41 0.63
46 13 0.20
ACGTcount: A:0.45, C:0.39, G:0.02, T:0.14
Consensus pattern (44 bp):
AACACAACCAATATACCCTCCAAACACAACCAAATATACCCTCC
Found at i:87316704 original size:15 final size:15
Alignment explanation
Indices: 87316684--87316713 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87316674 TCATATTCAG
87316684 TCATAAACACATAAC
1 TCATAAACACATAAC
87316699 TCATAAACACATAAC
1 TCATAAACACATAAC
87316714 ATTTTCATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
TCATAAACACATAAC
Found at i:87317333 original size:3 final size:3
Alignment explanation
Indices: 87317325--87317391 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
87317315 TGTGTGTTCT
87317325 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87317372 TTA TT- TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
87317392 TTTCACAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 8 0.13
3 52 0.87
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:87321822 original size:3 final size:3
Alignment explanation
Indices: 87321814--87321858 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
87321804 TGTGTGTTCT
87321814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87321859 TTTTCACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:87323173 original size:16 final size:19
Alignment explanation
Indices: 87323152--87323195 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 19
87323142 AGCATCACCA
87323152 AGAACAACTCT-TAC-TT-
1 AGAACAACTCTCTACATTG
87323168 AGAACAACT-TCTACATTG
1 AGAACAACTCTCTACATTG
87323186 AGAACAACTC
1 AGAACAACTC
87323196 ATGTTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.50
17 2 0.08
18 9 0.38
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (19 bp):
AGAACAACTCTCTACATTG
Found at i:87323259 original size:17 final size:17
Alignment explanation
Indices: 87323227--87323260 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87323217 AATCATTTTT
**
87323227 CAAGAACAACTTTCATC
1 CAAGAACAACCATCATC
87323244 CAAGAACAACCATCATC
1 CAAGAACAACCATCATC
87323261 TTGCGTTTCA
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:0.44, C:0.32, G:0.06, T:0.18
Consensus pattern (17 bp):
CAAGAACAACCATCATC
Found at i:87324174 original size:16 final size:16
Alignment explanation
Indices: 87324153--87324183 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87324143 AGATGGGATA
87324153 TATTACATTCAAATTT
1 TATTACATTCAAATTT
*
87324169 TATTACATTTAAATT
1 TATTACATTCAAATT
87324184 ACCTTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTACATTCAAATTT
Found at i:87325586 original size:16 final size:15
Alignment explanation
Indices: 87325565--87325594 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
87325555 ATTACTCACA
87325565 TATTTAAATTTAATTC
1 TATTTAAA-TTAATTC
87325581 TATTTAAATTAATT
1 TATTTAAATTAATT
87325595 ACATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTAAATTAATTC
Found at i:87326153 original size:6 final size:6
Alignment explanation
Indices: 87326144--87326199 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
87326134 GTTAAATTTT
* * **
87326144 ATATTA ATATTA ATATTT ATATTA ATGTTAA ATAAAA ATAATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATT-A ATATTA AT-ATTA ATATTA
87326193 ATATTA A
1 ATATTA A
87326200 ATAAATAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 3 0.08
6 32 0.82
7 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
ATATTA
Found at i:87326183 original size:25 final size:25
Alignment explanation
Indices: 87326155--87326204 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
87326145 TATTAATATT
* *
87326155 AATATTTATATTAATGTTAAATAAA
1 AATAATTATATTAATATTAAATAAA
87326180 AATAATTATATTAATATTAAATAAA
1 AATAATTATATTAATATTAAATAAA
87326205 TAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AATAATTATATTAATATTAAATAAA
Found at i:87326908 original size:13 final size:13
Alignment explanation
Indices: 87326890--87326914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87326880 ATGTCCATTT
87326890 CAAATACAGATAA
1 CAAATACAGATAA
87326903 CAAATACAGATA
1 CAAATACAGATA
87326915 TGTAGAATCC
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
CAAATACAGATAA
Found at i:87344783 original size:15 final size:15
Alignment explanation
Indices: 87344738--87344795 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
87344728 TCGGCCCAAC
* *
87344738 AAAACAAACAAATCA
1 AAAACAAAAAAATAA
*
87344753 TAAACAACAAAAATAA
1 AAAACAA-AAAAATAA
*
87344769 AAAACAAATAAATAA
1 AAAACAAAAAAATAA
87344784 AAATA-AAAAAAA
1 AAA-ACAAAAAAA
87344796 GGTCCATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 22 0.63
16 13 0.37
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACAAAAAAATAA
Found at i:87345973 original size:33 final size:35
Alignment explanation
Indices: 87345906--87345973 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 35
87345896 TATACTTTTC
* **
87345906 TATTTTATTTTAATTTGATCCTTTATGTTCTATTT
1 TATTTTATTTTAATTTGATACTTTAAATTCTATTT
*
87345941 TATTTT-TTTTAATTT-ATACTTTAAATTTTATTT
1 TATTTTATTTTAATTTGATACTTTAAATTCTATTT
87345974 CACTTTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 14 0.48
34 9 0.31
35 6 0.21
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (35 bp):
TATTTTATTTTAATTTGATACTTTAAATTCTATTT
Found at i:87351367 original size:17 final size:17
Alignment explanation
Indices: 87351345--87351377 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87351335 CTTTTCAACA
87351345 TCAAATCAAT-ACATATT
1 TCAAAT-AATCACATATT
87351362 TCAAATAATCACATAT
1 TCAAATAATCACATAT
87351378 AATCATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAATAATCACATATT
Found at i:87354949 original size:6 final size:5
Alignment explanation
Indices: 87354909--87354973 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
87354899 TTATATATCT
* * *
87354909 ATATA TATATT ATATA ATATA ATATA GTGTA ATATTA ATATA ATAATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATA-TA ATATA AT-ATA
*
87354957 A-ATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
87354974 AAAATCTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
4 4 0.08
5 31 0.65
6 13 0.27
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:87354973 original size:31 final size:33
Alignment explanation
Indices: 87354913--87354973 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
87354903 ATATCTATAT
* *
87354913 ATATATTATATAATATAATATAGTGTAATATTA
1 ATATAATATATAATATAATATAGTATAATATTA
*
87354946 ATATAATA-ATAA-ATAATATATTATAATA
1 ATATAATATATAATATAATATAGTATAATA
87354974 AAAATCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.56
32 4 0.16
33 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATAATATATAATATAATATAGTATAATATTA
Found at i:87364122 original size:5 final size:5
Alignment explanation
Indices: 87364109--87364141 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
87364099 ATACACTATG
*
87364109 AATCC AATCT AATCC AATCC AATCC AATCC AAT
1 AATCC AATCC AATCC AATCC AATCC AATCC AAT
87364142 AGCAAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (5 bp):
AATCC
Found at i:87368656 original size:20 final size:20
Alignment explanation
Indices: 87368631--87368674 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
87368621 CGGGTAGGGG
87368631 ACACGGACATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
*
87368651 ACACGGGCATGTCCCAAAGC
1 ACACGGACATGTCCCAAAGC
87368671 ACAC
1 ACAC
87368675 AGGCGTGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.20, T:0.09
Consensus pattern (20 bp):
ACACGGACATGTCCCAAAGC
Found at i:87372529 original size:46 final size:46
Alignment explanation
Indices: 87372462--87372677 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
87372452 GGCAACCTGA
87372462 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
87372508 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
87372554 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
87372600 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
87372646 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
87372678 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:87372657 original size:138 final size:130
Alignment explanation
Indices: 87372412--87372677 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
87372402 AGTGTGCTCT
*
87372412 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
87372477 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
87372542 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
87372607 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
87372672 ATGGCA
123 ATGGCA
87372678 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:87375328 original size:2 final size:2
Alignment explanation
Indices: 87375321--87375348 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87375311 TTATTGTTAT
87375321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87375349 AAGTAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87377238 original size:45 final size:45
Alignment explanation
Indices: 87377174--87377266 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
87377164 CTGTTACCGC
* *
87377174 TACTGCTACTGTTATCGATTCAGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
* * *
87377219 TACTGCTACCGTTACCGATTCGGTACTTTGTGTGTCGGATATTGT
1 TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
87377264 TAC
1 TAC
87377267 CGTACTGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGCTACCGTTACCGATTCAGCACTTTGTGTGTCGAATATTGT
Found at i:87377361 original size:59 final size:59
Alignment explanation
Indices: 87377269--87377399 Score: 235
Period size: 59 Copynumber: 2.2 Consensus size: 59
87377259 ATTGTTACCG
*
87377269 TACTGTTACTGTTGCTGTTCCGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC
* *
87377328 TACTGTTACTGTTACTGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCGTACTGC
1 TACTGTTACTGTTACTGTTCCGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC
87377387 TACTGTTACTGTT
1 TACTGTTACTGTT
87377400 CCGGCTTCGG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTCCGGATTTATTCTGATGAGGTACTCTGTGTACCATACTGC
Found at i:87377645 original size:36 final size:36
Alignment explanation
Indices: 87377605--87377678 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
87377595 ATAACCGATC
* * *
87377605 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATCGATACCGAATAACTGATTATTACTGAAT
* * *
87377641 AATTGATTGTTACCGAATAACTGATTGTTACTGAAT
1 AATTGATCGATACCGAATAACTGATTATTACTGAAT
87377677 AA
1 AA
87377679 ATAATTGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (36 bp):
AATTGATCGATACCGAATAACTGATTATTACTGAAT
Found at i:87377685 original size:18 final size:18
Alignment explanation
Indices: 87377615--87377691 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
87377605 AATTGATCGA
* * *
87377615 TACTGAATAACTGGTTAT
1 TACTGAATAAATGATTGT
* *
87377633 TATTGAATAATTGATTGT
1 TACTGAATAAATGATTGT
* *
87377651 TACCGAATAACTGATTGT
1 TACTGAATAAATGATTGT
*
87377669 TACTGAATAAATAATTGT
1 TACTGAATAAATGATTGT
87377687 T-CTGA
1 TACTGA
87377692 GTGTTAATGA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
17 4 0.08
18 45 0.92
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (18 bp):
TACTGAATAAATGATTGT
Found at i:87377686 original size:36 final size:36
Alignment explanation
Indices: 87377619--87377687 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
87377609 GATCGATACT
* * * *
87377619 GAATAACTGGTTATTATTGAATAATTGATTGTTACC
1 GAATAACTGATTATTACTGAATAAATAATTGTTACC
*
87377655 GAATAACTGATTGTTACTGAATAAATAATTGTT
1 GAATAACTGATTATTACTGAATAAATAATTGTT
87377688 CTGAGTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (36 bp):
GAATAACTGATTATTACTGAATAAATAATTGTTACC
Found at i:87381462 original size:12 final size:12
Alignment explanation
Indices: 87381445--87381469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87381435 CAGTTGGGTA
87381445 TACGGATTGGAT
1 TACGGATTGGAT
87381457 TACGGATTGGAT
1 TACGGATTGGAT
87381469 T
1 T
87381470 GAATCCCCTG
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TACGGATTGGAT
Found at i:87381684 original size:2 final size:2
Alignment explanation
Indices: 87381677--87381707 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87381667 TGGAACAAAA
87381677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87381708 GTTATCCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87387541 original size:47 final size:47
Alignment explanation
Indices: 87387481--87387602 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
87387471 GCATTGGCAC
*
87387481 TAAGACCAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
87387528 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
87387575 TAAGATATGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
87387603 CTAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:87387710 original size:55 final size:54
Alignment explanation
Indices: 87387583--87387777 Score: 225
Period size: 55 Copynumber: 3.6 Consensus size: 54
87387573 GGTAAGATAT
* * *
87387583 GGATATCATGTAAGACCATG-CTAAGGCATGGCATTGATAAGTTCTATAAGGTAA
1 GGATACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCTATAAGGCAA
* * * *
87387637 GGAAATCATGTACGACCATGTCAAGATATGGCATTGATAAGTTACTATAAGGCAAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGGC-AA
* * * * *
87387693 GG-TCCCATGTAAGACCATGCCAAGCCATGGCATTGGTGAGTTC-ATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAA
*
87387745 GGATACCATATAAGACCATGTCAAGACATGGCA
1 GGATACCATGTAAGACCATGTCAAGACATGGCA
87387778 ATGGTAAATT
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 33 0.28
54 38 0.32
55 40 0.34
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGCAA
Found at i:87391648 original size:8 final size:8
Alignment explanation
Indices: 87391635--87391659 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87391625 CACAGTGATA
87391635 ATTATTTG
1 ATTATTTG
87391643 ATTATTTG
1 ATTATTTG
87391651 ATTATTTG
1 ATTATTTG
87391659 A
1 A
87391660 GAAGTACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTATTTG
Found at i:87394524 original size:23 final size:22
Alignment explanation
Indices: 87394498--87394684 Score: 180
Period size: 23 Copynumber: 8.2 Consensus size: 22
87394488 GCTACAATAG
*
87394498 AGTGGTAGCTTTGGCTACATCTC
1 AGTGGTAGCTTCGGCTACAT-TC
87394521 AGTGGTAGCTTCGGCTACAATAT-
1 AGTGGTAGCTTCGGCTAC-AT-TC
**
87394544 AGTGGTAGCTTCGATTACATCTC
1 AGTGGTAGCTTCGGCTACAT-TC
* *
87394567 AGTGGTAGCTTCAGCTACAATAC
1 AGTGGTAGCTTCGGCTAC-ATTC
*
87394590 AGT-GTAGCTTCGGCTACAATAC
1 AGTGGTAGCTTCGGCTAC-ATTC
**
87394612 AGTGGTAGCTTCGGCTACAACAC
1 AGTGGTAGCTTCGGCTAC-ATTC
*
87394635 AGTGGTAGCTTCGGCTACGTTAC
1 AGTGGTAGCTTCGGCTACATT-C
* *
87394658 AGTGATAGCTTCGGCTATATTAC
1 AGTGGTAGCTTCGGCTACATT-C
87394681 AGTG
1 AGTG
87394685 TGGCACTTTG
Statistics
Matches: 142, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
22 24 0.17
23 113 0.80
24 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (22 bp):
AGTGGTAGCTTCGGCTACATTC
Found at i:87394554 original size:46 final size:45
Alignment explanation
Indices: 87394487--87394684 Score: 245
Period size: 46 Copynumber: 4.3 Consensus size: 45
87394477 GGAATCTATA
* *
87394487 GGCTACAATAGAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGCTACAT-TCAGTGGTAGCTTC
* **
87394533 GGCTACAATATAGTGGTAGCTTCGATTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGCTACAT-TCAGTGGTAGCTTC
* *
87394579 AGCTACAATACAGT-GTAGCTTCGGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGCTAC-ATTCAGTGGTAGCTTC
* * *
87394624 GGCTACAACACAGTGGTAGCTTCGGCTACGTTACAGTGATAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGCTACATT-CAGTGGTAGCTTC
* *
87394670 GGCTATATTACAGTG
1 GGCTACAATACAGTG
87394685 TGGCACTTTG
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.29
46 94 0.71
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (45 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACATTCAGTGGTAGCTTC
Found at i:87394661 original size:91 final size:91
Alignment explanation
Indices: 87394488--87394685 Score: 247
Period size: 91 Copynumber: 2.2 Consensus size: 91
87394478 GAATCTATAG
* * * * *
87394488 GCTACAATAGAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGC
1 GCTACAATACAGT-GTAGCTTCGGCTACATCACAGTGGTAGCTTCGGCTACAACACAGTGGTAGC
* *
87394553 TTCGATTACATCTCAGTGGTAGCTTCA
65 TTCGACTACATCTCAGTGATAGCTTCA
87394580 GCTACAATACAGTGTAGCTTCGGCTACAAT-ACAGTGGTAGCTTCGGCTACAACACAGTGGTAGC
1 GCTACAATACAGTGTAGCTTCGGCTAC-ATCACAGTGGTAGCTTCGGCTACAACACAGTGGTAGC
* * *
87394644 TTCGGCTACGT-TACAGTGATAGCTTCG
65 TTCGACTACATCT-CAGTGATAGCTTCA
* *
87394671 GCTATATTACAGTGT
1 GCTACAATACAGTGT
87394686 GGCACTTTGT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 77 0.84
92 14 0.15
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (91 bp):
GCTACAATACAGTGTAGCTTCGGCTACATCACAGTGGTAGCTTCGGCTACAACACAGTGGTAGCT
TCGACTACATCTCAGTGATAGCTTCA
Found at i:87397338 original size:40 final size:40
Alignment explanation
Indices: 87397279--87397447 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
87397269 CGGGACTTTA
* * *
87397279 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
87397319 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
87397359 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
87397399 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
87397439 CCCGGATAT
1 CCCGGATAT
87397448 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:87411140 original size:71 final size:71
Alignment explanation
Indices: 87411019--87411152 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
87411009 GTTTTCCAAG
* * * *
87411019 AAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
87411084 GTTTCA
66 GTTTCA
* * *
87411090 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
87411153 CTGCTTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:87411193 original size:160 final size:160
Alignment explanation
Indices: 87410928--87411767 Score: 1350
Period size: 160 Copynumber: 5.4 Consensus size: 160
87410918 TTGTTTTTTC
*
87410928 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
87410993 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
87411058 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
87411088 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
87411153 CTGCTTTTTAGTTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
87411218 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* *
87411248 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTCAA-TT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
87411311 C--C-TATTAA---A-----T-C--TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-A
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
87411361 GGCACGCTGAGGTAATTTCAATTTA--TTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
87411389 C-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
87411453 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
87411518 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
87411548 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
87411613 CTGCTTTTTAGTTCATG-TTTCCAAG-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
87411676 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * *
87411706 C-AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTCAATT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
87411768 CCTATTAAAT
Statistics
Matches: 633, Mismatches: 27, Indels: 44
0.90 0.04 0.06
Matches are distributed among these distances:
140 36 0.06
141 25 0.04
142 3 0.00
143 24 0.04
144 37 0.06
145 5 0.01
146 1 0.00
147 1 0.00
148 1 0.00
152 1 0.00
153 1 0.00
154 1 0.00
155 4 0.01
156 59 0.09
157 59 0.09
158 71 0.11
159 33 0.05
160 271 0.43
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTACTTTTTAATTCATGTTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:87411342 original size:73 final size:68
Alignment explanation
Indices: 87411179--87411452 Score: 390
Period size: 73 Copynumber: 3.9 Consensus size: 68
87411169 GTTTTCCAAG
* * *
87411179 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTTA-
87411244 GTTTC
65 -TTTC
* *
87411249 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTCAATTCC
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATT--
87411313 TATTAAATC
63 TATT---TC
87411322 TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGCACGCTGAGGTAATTTCAATTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTTA
87411386 TTTC
65 TTTC
* *
87411390 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTT
87411453 CTACTTTTTA
Statistics
Matches: 187, Mismatches: 10, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
67 37 0.20
68 25 0.13
70 23 0.12
71 39 0.21
72 2 0.01
73 61 0.33
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGGCACGCTGAGGTAATTTCAATTTAT
TTC
Found at i:87411600 original size:71 final size:71
Alignment explanation
Indices: 87411479--87411612 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
87411469 GTTTTCCAAG
* * *
87411479 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
87411544 GTTTCA
66 GTTTCA
* * *
87411550 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
87411613 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:87411697 original size:87 final size:85
Alignment explanation
Indices: 87411542--87411699 Score: 253
Period size: 87 Copynumber: 1.8 Consensus size: 85
87411532 ATTTCAATTT
* * *
87411542 ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
1 ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
87411607 CAATTTCTGCTTTTTAGTTC
66 CAATTTCTGCTTTTTAGTTC
* *
87411627 ATGTTTCCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 ATGTTT-CAA-AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
87411692 TTCAATTT
64 TTCAATTT
87411700 ATGTTTCAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
85 6 0.09
86 3 0.05
87 57 0.86
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (85 bp):
ATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTGCTTTTTAGTTC
Found at i:87411800 original size:73 final size:70
Alignment explanation
Indices: 87411638--87411842 Score: 279
Period size: 73 Copynumber: 2.9 Consensus size: 70
87411628 TGTTTCCAAG
* * * *
87411638 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTATG
*
87411703 TTTCA
66 TATCA
* *
87411708 AAATCAACTCATATCGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTCAATTCCTA
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATT--TA
87411772 T-TAAATCTA
64 TGT--ATC-A
*
87411781 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTT
87411843 CTACTTTTTA
Statistics
Matches: 119, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
69 21 0.18
70 34 0.29
71 3 0.03
72 3 0.03
73 35 0.29
74 23 0.19
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTATG
TATCA
Found at i:87411833 original size:390 final size:391
Alignment explanation
Indices: 87411242--87412242 Score: 1731
Period size: 390 Copynumber: 2.6 Consensus size: 391
87411232 ATTTCAATTT
* * * * *
87411242 ATGTTT-CAA-AAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAAT
1 ATGTTTCCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
* * * * *
87411304 TTCAATTCCTAT-TAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGCACGC
66 TTCAATT--TATGT--TTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGCACGC
87411368 TGAGGTAATTTCAATT--TATT---TC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
127 TGAGGTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
87411427 AGGGCACGCTGAGGTATTTTCAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCAT
192 AGGGCACGCTGAGGTATTTTCAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCAT
87411492 ATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCA
257 ATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCA
87411557 ACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTT
322 ACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTT
87411622 AGTTC
387 AGTTC
87411627 ATGTTTCCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 ATGTTTCCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
87411692 TTCAATTTATGTTTC-AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGCACGCTGAG
66 TTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGCACGCTGAG
87411756 GTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
131 GTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
87411821 CACGCTGAGGTATTTTCAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTG
196 CACGCTGAGGTATTTTCAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTG
87411886 CGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTC
261 CGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTC
87411951 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAGTT
326 ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAGTT
87412016 C
391 C
87412017 ATGTTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ATGTTTCCAAG-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
87412082 TTTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTG
65 TTTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTC-GGGCACGCTG
*
87412147 AGGTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TG
129 AGGTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
* *
87412211 CGGCACGCTAAGGTATTTTCAAATTCTA-TTTT
194 -GGCACGCTGAGGTATTTTCAATTTCTACTTTT
87412243 CAAAAGTTAA
Statistics
Matches: 590, Mismatches: 12, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
384 58 0.10
385 8 0.01
386 10 0.02
387 35 0.06
388 21 0.04
389 2 0.00
390 248 0.42
391 69 0.12
392 42 0.07
393 97 0.16
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (391 bp):
ATGTTTCCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
TTCAATTTATGTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGCACGCTGAG
GTAATTTCAATTCCTATTAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
CACGCTGAGGTATTTTCAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTG
CGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTC
ATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAGTT
C
Found at i:87411990 original size:71 final size:71
Alignment explanation
Indices: 87411869--87412002 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
87411859 GTTTTCCAAG
* * *
87411869 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
87411934 GTTTCA
66 GTTTCA
* * *
87411940 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
87412003 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:87412101 original size:159 final size:160
Alignment explanation
Indices: 87411707--87412160 Score: 716
Period size: 159 Copynumber: 2.8 Consensus size: 160
87411697 TTTATGTTTC
* * * * * *
87411707 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTC-GGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT--T
* *
87411771 AT-TAAATCTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
64 ATGT--TTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
87411835 TTCAATTTCTACTTTTTAATTCATGTTTTCCAAG
127 TTCAATTTCTACTTTTTAATTCATGTTTTCCAAG
*
87411869 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
87411934 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
* *
87411999 ATTTCTGCTTTTTAGTTCATG-TTTCCAAG
131 ATTTCTACTTTTTAATTCATGTTTTCCAAG
87412028 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * * *
87412093 GTTTCAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCA
66 GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
87412158 ATT
131 ATT
87412161 CCTATTAAAT
Statistics
Matches: 274, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
159 136 0.50
160 80 0.29
161 3 0.01
162 34 0.12
163 21 0.08
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (160 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTACTTTTTAATTCATGTTTTCCAAG
Found at i:87412149 original size:71 final size:71
Alignment explanation
Indices: 87412028--87412280 Score: 294
Period size: 74 Copynumber: 3.5 Consensus size: 71
87412018 TGTTTCCAAG
* * * *
87412028 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
87412092 TGTTTCA
66 T-TTTCA
* * *
87412099 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATT-CT
* *
87412164 ATTAAATCT
65 ATT--TTCA
* * * *
87412173 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AATTCT
87412238 ATTTTCA
65 ATTTTCA
* * *
87412245 AAAGTTAATTCATATTGCGA-AAGGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCT
87412281 TTAATTTTCG
Statistics
Matches: 156, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
71 57 0.37
72 33 0.21
73 3 0.02
74 59 0.38
75 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
TTTTCA
Found at i:87412337 original size:67 final size:65
Alignment explanation
Indices: 87412226--87412467 Score: 281
Period size: 67 Copynumber: 3.6 Consensus size: 65
87412216 CGCTAAGGTA
* * * *
87412226 TTTTCAAATTCTATTTTCAAAAGTTAATTCATATTGCGAAAGGTGAGTTGAGCCTTTAATTTTCG
1 TTTTCAAAATCTATTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG
87412291 T
65 T
87412292 TTTTCAAAATCTACTTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTCAAAATCTA-TTTTCAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
87412357 GT
64 GT
* * *
87412359 TTCTCAAAATCTACTTTTCAAATTATTAACTCATGTTGCGAGAGGTGAGTTGAGCCTTTTAA-TT
1 TTTTCAAAATCTA-TTTTCAAA--ATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTT
*
87412423 TCTGC
62 TC-GT
** *
87412428 TTTT-AATTTCTATGTTTCAAAAATCAACCCATATTGCGAG
1 TTTTCAAAATCTAT-TTTC-AAAATCAACTCATATTGCGAG
87412468 GAATATGTTG
Statistics
Matches: 154, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
66 12 0.08
67 85 0.55
68 45 0.29
69 12 0.08
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (65 bp):
TTTTCAAAATCTATTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGT
Found at i:87412432 original size:13 final size:13
Alignment explanation
Indices: 87412414--87412438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87412404 TGAGTTGAGC
87412414 CTTTTAATTTCTG
1 CTTTTAATTTCTG
87412427 CTTTTAATTTCT
1 CTTTTAATTTCT
87412439 ATGTTTCAAA
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:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:87418454 original size:89 final size:89
Alignment explanation
Indices: 87418361--87418523 Score: 224
Period size: 89 Copynumber: 1.8 Consensus size: 89
87418351 GCCATCTTTA
* * *
87418361 ATCTGCTCCACTACT-GCTT-AGAGAGACAAGATATACAATCTTTAATCTGCTCCCTTGCT-TCC
1 ATCTGCCCCACTACTAGCTTGAG-GAGACAAGATATAC-ATCATCAATCTGCTCCCTTGCTAT-C
87418423 TCAGGAAGATAAGTCTCACCATTTTCG
63 TCAGGAAGATAAGTCTCACCATTTTCG
* * *
87418450 ATCTGCCCCACTACTATCTTGAGGAGACAAGATCTACATCATCAGTCTGCTCCCTTGCTATCTCA
1 ATCTGCCCCACTACTAGCTTGAGGAGACAAGATATACATCATCAATCTGCTCCCTTGCTATCTCA
87418515 GGAAGATAA
66 GGAAGATAA
87418524 AAATACAACC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
89 46 0.71
90 17 0.26
91 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (89 bp):
ATCTGCCCCACTACTAGCTTGAGGAGACAAGATATACATCATCAATCTGCTCCCTTGCTATCTCA
GGAAGATAAGTCTCACCATTTTCG
Found at i:87418642 original size:44 final size:43
Alignment explanation
Indices: 87418394--87418826 Score: 202
Period size: 44 Copynumber: 9.7 Consensus size: 43
87418384 AGACAAGATA
* * *
87418394 TACAATCTTTAATCTGCTCCCTTGCTTCCTCAGGAAGATAAGTC
1 TACAATC-TTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
* * * * * * * *
87418438 TCACCATTTTCGATCTGC-CCCACTACTATCTTGAGG-AGACAAGATC
1 T-ACAATCTTAG-TCTGCTCCC-TTGCTA-CCTCAGGAAGATAAGA-C
* * * *
87418484 TAC-ATCATCAGTCTGCTCCCTTGCTATCTCAGGAAGATAAAAA
1 TACAATC-TTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
* * * *
87418527 TACAACCATTAGCCTGTTCCCCTTGCTACCTCAGG-A-ATGAGAC
1 TACAATC-TTAGTCTGCT-CCCTTGCTACCTCAGGAAGATAAGAC
87418570 TACAATCTGAATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
1 TACAATC----T--T-AGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
* * * *
87418620 TACAATCATTAGCCTGCTCCCTTGCTACCTTAGGGAGATAAGGC
1 TACAATC-TTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
**** * * *
87418664 TAGTGGCTAAAATCTGCTCGCTTGCTACCTC-GAGAAGATAAGATC
1 TACAATCT-TAGTCTGCTCCCTTGCTACCTCAG-GAAGATAAGA-C
* * * * *
87418709 TGTC-ATCTTTGATCTGCT---TCGCTACTGCTTAGGGAGATAAGATC
1 T-ACAATCTTAG-TCTGCTCCCTTGCTAC--CTCAGGAAGATAAGA-C
*
87418753 TACAATCTTCAGTCTGCTCCTTTGCTACCTCAGGAAGATAAGAC
1 TACAATCTT-AGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
* * *
87418797 TATAATCTTCAGCCTGCTCTCTTGCTACCT
1 TACAATCTT-AGTCTGCTCCCTTGCTACCT
87418827 TAGAGAGATA
Statistics
Matches: 290, Mismatches: 68, Indels: 62
0.69 0.16 0.15
Matches are distributed among these distances:
42 6 0.02
43 20 0.07
44 144 0.50
45 66 0.23
46 9 0.03
47 8 0.03
48 17 0.06
49 7 0.02
50 13 0.04
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
TACAATCTTAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGAC
Found at i:87418783 original size:177 final size:175
Alignment explanation
Indices: 87418579--87419102 Score: 646
Period size: 177 Copynumber: 3.0 Consensus size: 175
87418569 CTACAATCTG
*
87418579 AATCATCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTG
1 AATCTTCAGTCTGCT-CCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTG
87418644 CTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCGCTTGCTACCTCGAGAAGATAAGA-T
65 CTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCGC-TGCTACCTCG-GAAGATAAGATT
* * * * * *
87418708 CTGTCATCTTTGATCTGCTTCGCTACT-GCTTAGGGAGATAAGATCTAC
128 C-GCCATCTTTAATCTACTCCACTACTAGCTTAGGGAGACAAGATCTAC
* *
87418756 AATCTTCAGTCTGCTCCTTTGCTACCTCAGGAAGATAAGACTATAATC-TTCAGCCTGCTCTCTT
1 AATCTTCAGTCTGCTCC-TTGCTACCTCAGGAAGATAAGACTACAATCATT-AGCCTGCTCCCTT
* *
87418820 GCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTG-TACGCTGCTACCTCGGGAAGATAAGAT
64 GCTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCT-CGCTGCTACCTC-GGAAGATAAGAT
* ** **
87418884 TCGCCTTCTTTAATCTACTCCACTGTTATTTTAGGGAGACAAGATCTAC
127 TCGCCATCTTTAATCTACTCCACTACTAGCTTAGGGAGACAAGATCTAC
* ** *
87418933 AATCTTCAGTCTGCTTCCTTGCTACCTTAAAAAGATAAGACTACAATCATTAGCCTGCTTCCTTG
1 AATCTTCAGTCTGC-TCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTG
* * * *
87418998 TTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACTTCGGAAAGATAAGATT
65 CTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCT-CGCTGCTACCTCGG-AAGATAAGATT
* * * *
87419063 CGCCAT-TTTCGATTTGCTCCACTACT-GCTTAGAGAGACAA
128 CGCCATCTTT-AATCTACTCCACTACTAGCTTAGGGAGACAA
87419103 ACTCTGAATT
Statistics
Matches: 298, Mismatches: 38, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
176 41 0.14
177 214 0.72
178 43 0.14
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (175 bp):
AATCTTCAGTCTGCTCCTTGCTACCTCAGGAAGATAAGACTACAATCATTAGCCTGCTCCCTTGC
TACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCGCTGCTACCTCGGAAGATAAGATTCGC
CATCTTTAATCTACTCCACTACTAGCTTAGGGAGACAAGATCTAC
Found at i:87419013 original size:44 final size:45
Alignment explanation
Indices: 87418916--87419015 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 45
87418906 CTGTTATTTT
* * *
87418916 AGGGAGACAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTT
1 AGGGAGATAAGATCTACAATCTTCAGCCTGCTTCCTTGCTACCTC
*** *
87418961 AAAAAGATAAGA-CTACAATCATT-AGCCTGCTTCCTTGTTACCTC
1 AGGGAGATAAGATCTACAATC-TTCAGCCTGCTTCCTTGCTACCTC
87419005 AGGGAGATAAG
1 AGGGAGATAAG
87419016 GCTAGTGGCT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
44 34 0.77
45 10 0.23
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
AGGGAGATAAGATCTACAATCTTCAGCCTGCTTCCTTGCTACCTC
Found at i:87420799 original size:12 final size:12
Alignment explanation
Indices: 87420782--87420809 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
87420772 CCCAGTAGAA
87420782 GTTCTGACAGAT
1 GTTCTGACAGAT
87420794 GTTCTGACAGAT
1 GTTCTGACAGAT
87420806 GTTC
1 GTTC
87420810 AATAAGCATA
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:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (12 bp):
GTTCTGACAGAT
Found at i:87431667 original size:27 final size:27
Alignment explanation
Indices: 87431633--87431724 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
87431623 GGGCAAAATA
*
87431633 GTCATTTTACCCTAC-AGAGGTATGTCG
1 GTCATTTTACACTACAAG-GGTATGTCG
*
87431660 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* * *
87431687 GTAATTTTATACTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
87431714 ATAATTTTACA
1 GTCATTTTACA
87431725 AAGTAGGAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:87431739 original size:27 final size:26
Alignment explanation
Indices: 87431703--87431962 Score: 252
Period size: 27 Copynumber: 9.7 Consensus size: 26
87431693 TTATACTACA
* *
87431703 AGGGTATTTCGATAATTTTACAAA-G
1 AGGGTGTTTCGGTAATTTTACAAATG
87431728 TAGGAGTGTTTCGGTAATTTTACAAATCG
1 -AGG-GTGTTTCGGTAATTTTACAAAT-G
87431757 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTGTTTCGGTAATTTTACAAA-TG
*
87431784 AGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTGTTTCGGTAATTTTACAAA-TG
*
87431811 AAGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTGTTTCGGTAATTTTACAAAT-G
* * *
87431838 AAGGTGTTTTGGTAATTTCACAAATCG
1 AGGGTGTTTCGGTAATTTTACAAAT-G
* * * *
87431865 GGGGTATTTTGGTAATTTTACAAATTA
1 AGGGTGTTTCGGTAATTTTACAAA-TG
* * * *
87431892 AGGGTATTTCAGTAATTTCACAATTG
1 AGGGTGTTTCGGTAATTTTACAAATG
* *
87431918 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTGTTTCGGTAATTTTACAAA-TG
* * *
87431945 GGGGTATTTCTGTAATTT
1 AGGGTGTTTCGGTAATTT
87431963 CTCTTTATTA
Statistics
Matches: 202, Mismatches: 25, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
26 25 0.12
27 171 0.85
28 5 0.02
29 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
AGGGTGTTTCGGTAATTTTACAAATG
Found at i:87431761 original size:81 final size:80
Alignment explanation
Indices: 87431676--87431962 Score: 294
Period size: 81 Copynumber: 3.6 Consensus size: 80
87431666 TTACACTACA
* * * * *
87431676 AGGGTATTTCGGTAATTTTA-TACTACAAGGGTATTTCGATAATTTTACAAAGTAGGAGTGTTTC
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTGGTAATTTTACAAA-TAGGAGTGTTTC
87431740 GGTAATTTTACAAATCG
64 GGTAATTTTACAAATCG
* * * * *
87431757 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTGTTTTGGTAATTTTACAAATTGAAGGTGTTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATAGGA-GTGTTTCG
87431822 GTAATTTTACAAATCG
65 GTAATTTTACAAATCG
* * * * * *
87431838 AAGGTGTTTTGGTAATTTCACAAATCGGGGGTATTTTGGTAATTTTACAAATTAAGG-GTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAA-T-AGGAGTGTTTC
* * *
87431902 AGTAATTTCAC-AATTG
64 GGTAATTTTACAAATCG
* * *
87431918 AGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCT-GTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT-TGGTAATTT
87431963 CTCTTTATTA
Statistics
Matches: 173, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
80 44 0.25
81 125 0.72
82 3 0.02
83 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATAGGAGTGTTTCGG
TAATTTTACAAATCG
Found at i:87434255 original size:30 final size:30
Alignment explanation
Indices: 87434219--87434349 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
87434209 GACAAGATTG
* * * * *
87434219 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
87434249 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
87434277 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
87434307 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
87434336 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87434350 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:87434310 original size:58 final size:58
Alignment explanation
Indices: 87434219--87434349 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
87434209 GACAAGATTG
* * * * * *
87434219 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
87434277 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
87434336 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87434350 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:87437008 original size:27 final size:26
Alignment explanation
Indices: 87436940--87437008 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
87436930 AAATAATATA
*
87436940 TAAAATAATAATATATAAACGAATCT
1 TAAAATTATAATATATAAACGAATCT
* *
87436966 TAAAATTAGTATTATATGAAAGGAAAT-T
1 TAAAATTA-TAATATAT-AAACG-AATCT
87436994 TAAAATTATAATATA
1 TAAAATTATAATATA
87437009 CAAAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.19
27 13 0.36
28 13 0.36
29 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (26 bp):
TAAAATTATAATATATAAACGAATCT
Found at i:87441439 original size:23 final size:22
Alignment explanation
Indices: 87441397--87441448 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
87441387 ATAAATTTTA
87441397 AAATAAAAAGCAAGACAATAAT
1 AAATAAAAAGCAAGACAATAAT
*
87441419 AAATAAATAAGTAAGTA-AATAAT
1 AAATAAA-AAGCAAG-ACAATAAT
87441442 -AATAAAA
1 AAATAAAA
87441449 GAAAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 13 0.48
23 12 0.44
24 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (22 bp):
AAATAAAAAGCAAGACAATAAT
Found at i:87444404 original size:19 final size:18
Alignment explanation
Indices: 87444382--87444424 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
87444372 AAATTATAAA
*
87444382 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
* *
87444401 AAAATTCCAAATATTTAT
1 AAAAATCAAAATATTTAT
87444419 AAAAAT
1 AAAAAT
87444425 TTCAAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:87444436 original size:18 final size:18
Alignment explanation
Indices: 87444369--87444454 Score: 50
Period size: 19 Copynumber: 4.7 Consensus size: 18
87444359 TCTCTCTCAA
**
87444369 CAAAAATTATAAAAAAAAT
1 CAAAAATTAT-AAAAATTT
* * *
87444388 CAAAATAATTTTTAAAATTC
1 C-AAA-AATTATAAAAATTT
*
87444408 CAAATATTTATAAAAATTT
1 CAAA-AATTATAAAAATTT
* *
87444427 CAAAAATTATATATATTT
1 CAAAAATTATAAAAATTT
87444445 -AAAAA-TATAA
1 CAAAAATTATAA
87444455 TATTTTAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
16 4 0.08
17 5 0.10
18 11 0.21
19 19 0.37
20 8 0.15
21 5 0.10
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
CAAAAATTATAAAAATTT
Found at i:87444453 original size:16 final size:16
Alignment explanation
Indices: 87444423--87444465 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
87444413 ATTTATAAAA
87444423 ATTTCAAAAATTATATAT
1 ATTT-AAAAATTATA-AT
87444441 ATTTAAAAA-TATAAT
1 ATTTAAAAATTATAAT
87444456 ATTTTAAAAA
1 A-TTTAAAAA
87444466 AATCTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 5 0.21
18 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAAAATTATAAT
Found at i:87447560 original size:31 final size:31
Alignment explanation
Indices: 87447517--87447582 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
87447507 AACCCTTCCT
* * *
87447517 GCATTAAATCCAACAAAAAATAGCAAATATA
1 GCATGAAATCCAACAAAAAACAACAAATATA
* *
87447548 GCATGAAATCCAACCAAAAACAACAAATGTA
1 GCATGAAATCCAACAAAAAACAACAAATATA
87447579 GCAT
1 GCAT
87447583 AAAAAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.20, G:0.09, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACAAAAAACAACAAATATA
Found at i:87453359 original size:9 final size:9
Alignment explanation
Indices: 87453345--87453456 Score: 104
Period size: 9 Copynumber: 12.7 Consensus size: 9
87453335 TAACTCTAAT
87453345 TAAGTTATG
1 TAAGTTATG
87453354 TAAGTTATG
1 TAAGTTATG
* * *
87453363 ATATGATATA
1 -TAAGTTATG
*
87453373 T-ATTTATG
1 TAAGTTATG
87453381 T-A-TTATG
1 TAAGTTATG
87453388 TAAGTTATG
1 TAAGTTATG
*
87453397 TAAATTATG
1 TAAGTTATG
* *
87453406 TAACTTCTG
1 TAAGTTATG
87453415 TAAGTTATG
1 TAAGTTATG
*
87453424 TGAGTTATG
1 TAAGTTATG
*
87453433 TGAGTTATG
1 TAAGTTATG
*
87453442 TGAGTTATG
1 TAAGTTATG
87453451 TAAGTT
1 TAAGTT
87453457 CAAGTATATA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
7 6 0.07
8 6 0.07
9 68 0.79
10 6 0.07
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:87453771 original size:29 final size:28
Alignment explanation
Indices: 87453727--87453855 Score: 98
Period size: 29 Copynumber: 4.3 Consensus size: 28
87453717 ATCACATGGA
* *
87453727 AAAAAATTTATTTTAATTAAATAGTATTT
1 AAAAAA-TTATATTAATTAAATAATATTT
*
87453756 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
* * * *
87453785 AAATAAATTA-ATCCAAATTATATTATTAATT
1 AAA-AAATTATAT--TAATTA-AATAATATTT
*
87453816 AATCCAAATTATATTAATTAAATAATATTT
1 AA--AAAATTATATTAATTAAATAATATTT
87453846 AAATAAATTA
1 AAA-AAATTA
87453856 ATCCAAATTA
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
28 4 0.05
29 33 0.43
30 18 0.23
31 14 0.18
32 6 0.08
33 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:87453817 original size:22 final size:23
Alignment explanation
Indices: 87453790--87453875 Score: 98
Period size: 22 Copynumber: 4.1 Consensus size: 23
87453780 TATTTAAATA
87453790 AATTAATCCAAATTATATT-ATT
1 AATTAATCCAAATTATATTAATT
87453812 AATTAATCCAAATTATATTAATT
1 AATTAATCCAAATTATATTAATT
* *
87453835 AAATAAT----ATT-TA--AATA
1 AATTAATCCAAATTATATTAATT
87453851 AATTAATCCAAATTATATTAATT
1 AATTAATCCAAATTATATTAATT
87453874 AA
1 AA
87453876 AATAAGATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 9 0.17
18 2 0.04
19 3 0.06
20 3 0.06
21 2 0.04
22 19 0.37
23 14 0.27
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAATCCAAATTATATTAATT
Found at i:87453830 original size:61 final size:62
Alignment explanation
Indices: 87453760--87453875 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 62
87453750 GTATTTATAA
*
87453760 AAATTATATTAATTTAATAATATTTAAATAAATTAATCCAAATTATATT-ATTAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAATTAATCC
87453821 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAA
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAA
87453876 AATAAGATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 48 0.91
62 5 0.09
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (62 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATTAATTAATTAATCC
Found at i:87453832 original size:19 final size:20
Alignment explanation
Indices: 87453763--87453875 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 20
87453753 TTTATAAAAA
87453763 TTATATTAATTTAAT--AATAT
1 TTATATTAA-TTAATCCAA-AT
* *
87453783 TTAAATAAATTAATCCAAAT
1 TTATATTAATTAATCCAAAT
87453803 TATATTATTAATTAATCCAAA-
1 T-TA-TATTAATTAATCCAAAT
87453824 TTATATTAATTAAAT--AATAT
1 TTATATTAATT-AATCCAA-AT
* *
87453844 TTAAATAAATTAATCCAAA-
1 TTATATTAATTAATCCAAAT
87453863 TTATATTAATTAA
1 TTATATTAATTAA
87453876 AATAAGATTG
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.03
19 28 0.37
20 25 0.33
21 7 0.09
22 14 0.18
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATATTAATTAATCCAAAT
Found at i:87453841 original size:27 final size:26
Alignment explanation
Indices: 87453783--87453841 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 26
87453773 TTAATAATAT
87453783 TTAAATAAATTAATCCAAATTATATTA
1 TTAAAT-AATTAATCCAAATTATATTA
87453810 -T---TAATTAATCCAAATTATATTAA
1 TTAAATAATTAATCCAAATTATATT-A
87453833 TTAAATAAT
1 TTAAATAAT
87453842 ATTTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
22 19 0.70
23 2 0.07
24 1 0.04
26 1 0.04
27 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAAATAATTAATCCAAATTATATTA
Found at i:87454134 original size:24 final size:24
Alignment explanation
Indices: 87454091--87454137 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
87454081 TTAACTTAAA
* **
87454091 TGATAAAACGGACGTTAATATTTG
1 TGATAAAACGAACGAGAATATTTG
87454115 TGATAAAACGAACGAGAATATTT
1 TGATAAAACGAACGAGAATATTT
87454138 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (24 bp):
TGATAAAACGAACGAGAATATTTG
Found at i:87455821 original size:38 final size:38
Alignment explanation
Indices: 87455779--87455879 Score: 184
Period size: 38 Copynumber: 2.7 Consensus size: 38
87455769 ATCTCTTTGG
* *
87455779 GGGAAATTATAGCGGATTTCTGAAATTTTGGAAGTAAT
1 GGGAAATTTTAGGGGATTTCTGAAATTTTGGAAGTAAT
87455817 GGGAAATTTTAGGGGATTTCTGAAATTTTGGAAGTAAT
1 GGGAAATTTTAGGGGATTTCTGAAATTTTGGAAGTAAT
87455855 GGGAAATTTTAGGGGATTTCTGAAA
1 GGGAAATTTTAGGGGATTTCTGAAA
87455880 CAGATGAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.35
Consensus pattern (38 bp):
GGGAAATTTTAGGGGATTTCTGAAATTTTGGAAGTAAT
Found at i:87455822 original size:19 final size:19
Alignment explanation
Indices: 87455800--87455864 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
87455790 GCGGATTTCT
87455800 GAAATTTTGGAAGTAATGG
1 GAAATTTTGGAAGTAATGG
* * **
87455819 GAAATTTTAGG--GGATTTCT
1 GAAATTTT-GGAAGTA-ATGG
87455838 GAAATTTTGGAAGTAATGG
1 GAAATTTTGGAAGTAATGG
87455857 GAAATTTT
1 GAAATTTT
87455865 AGGGGATTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
18 4 0.12
19 26 0.76
20 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.37
Consensus pattern (19 bp):
GAAATTTTGGAAGTAATGG
Found at i:87455889 original size:38 final size:38
Alignment explanation
Indices: 87455779--87455891 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 38
87455769 ATCTCTTTGG
* * ***
87455779 GGGAAATTATAGCGGATTTCTGAAATTTTGGAAGTAAT
1 GGGAAATTTTAGGGGATTTCTGAAAAGATGGAAGTAAT
***
87455817 GGGAAATTTTAGGGGATTTCTGAAATTTTGGAAGTAAT
1 GGGAAATTTTAGGGGATTTCTGAAAAGATGGAAGTAAT
87455855 GGGAAATTTTAGGGGATTTCTGAAACAGAT-GAAGTAA
1 GGGAAATTTTAGGGGATTTCTGAAA-AGATGGAAGTAA
87455892 AGGAAAAGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 68 0.99
39 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (38 bp):
GGGAAATTTTAGGGGATTTCTGAAAAGATGGAAGTAAT
Found at i:87456235 original size:74 final size:75
Alignment explanation
Indices: 87456114--87456259 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 75
87456104 TGGCGTTTAT
* *
87456114 AAAAGCGCCACTAATAAAAGGCTATAAAACGATGACGTTTTGAAATCTCTT-TAGATGTTTTGTG
1 AAAAGCGCCACTAATAAAAGGCTATAAAACGACGACGTTTTGAAATCTATTATAGATG-TTTGTG
87456178 GCATTTTTGCA
65 GCATTTTTGCA
* * *
87456189 AAAAGCGCCACTAATAACAAGG-TA-ATAACGACGCCGTTTTGCAATCTATTAATAGATGTTTGT
1 AAAAGCGCCACTAATAA-AAGGCTATAAAACGACGACGTTTTGAAATCTATT-ATAGATGTTTGT
*
87456252 GGCGTTTT
64 GGCATTTT
87456260 CTAGTGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
74 21 0.34
75 31 0.50
76 10 0.16
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (75 bp):
AAAAGCGCCACTAATAAAAGGCTATAAAACGACGACGTTTTGAAATCTATTATAGATGTTTGTGG
CATTTTTGCA
Found at i:87456302 original size:188 final size:189
Alignment explanation
Indices: 87455984--87456323 Score: 451
Period size: 188 Copynumber: 1.8 Consensus size: 189
87455974 TTCAAAAATA
* *
87455984 TTTGTGGCATTTTTATAAAGCGCCACTTATTAGAAAGGCTATAAACGACGCAGTTTTTGCAATCT
1 TTTGTGGCATTTTTAAAAAGCGCCACTTAATAGAAAGGCTATAAACGACGCAGTTTTTGCAATCT
* *** * * *
87456049 ATTAATAGATTTTTGTGGCGTTTCTAGCGAAAATGTCGGTATTTCACATCTTTTGTGGCGTTTAT
66 ATTAATAGATGTTTGTGGCGTTTCTAGCGAAAACACCGGTATTTCACACCTGTTGCGGCGTTTAT
*
87456114 AAAAGCGCCACTAATAA-AAGGCTATAAAACGATGACGTTTTGAAATCTCTTTAGATGT
131 AAAAGCACCACTAATAACAAGGCTATAAAACGATGACGTTTTGAAATCTCTTTAGATGT
*
87456172 TTTGTGGCATTTTTGCAAAAAGCGCCAC-TAATA-ACAAGG-TA-ATAACGACGCCG-TTTTGCA
1 TTTGTGGCATTTTT--AAAAAGCGCCACTTAATAGA-AAGGCTATA-AACGACGCAGTTTTTGCA
* *
87456232 ATCTATTAATAGATGTTTGTGGCGTTTTCTAGTGAAAACACCGGTAATTT-ACACCTGTTGCGGT
62 ATCTATTAATAGATGTTTGTGGCG-TTTCTAGCGAAAACACCGGT-ATTTCACACCTGTTGCGGC
*
87456296 GTTTATAGAAGCACCACTAATAACAAGG
125 GTTTATAAAAGCACCACTAATAACAAGG
87456324 ATGTAAATGA
Statistics
Matches: 131, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
187 31 0.24
188 73 0.56
189 16 0.12
190 11 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (189 bp):
TTTGTGGCATTTTTAAAAAGCGCCACTTAATAGAAAGGCTATAAACGACGCAGTTTTTGCAATCT
ATTAATAGATGTTTGTGGCGTTTCTAGCGAAAACACCGGTATTTCACACCTGTTGCGGCGTTTAT
AAAAGCACCACTAATAACAAGGCTATAAAACGATGACGTTTTGAAATCTCTTTAGATGT
Found at i:87456504 original size:3 final size:3
Alignment explanation
Indices: 87456498--87456562 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
87456488 TTTTTCTCTT
87456498 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87456546 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
87456563 TACTATTAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87456952 original size:21 final size:21
Alignment explanation
Indices: 87456926--87456986 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
87456916 AGTTTAAGGT
**
87456926 TTTATGATTTTGGATTTAGGG
1 TTTATGATTTAAGATTTAGGG
*
87456947 TTTATGGTTTAAGATTTAGGG
1 TTTATGATTTAAGATTTAGGG
* *
87456968 TTTATAGTTTTAAGTTTTA
1 TTTAT-GATTTAAGATTTA
87456987 TAATTTAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 23 0.68
22 11 0.32
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (21 bp):
TTTATGATTTAAGATTTAGGG
Found at i:87457622 original size:7 final size:7
Alignment explanation
Indices: 87457549--87457622 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
87457539 ATAATCTCCA
*
87457549 AAACCTT
1 AAACCAT
*
87457556 AAATCAT
1 AAACCAT
*
87457563 AAAACAT
1 AAACCAT
87457570 AAACCAT
1 AAACCAT
87457577 CAAA-CAT
1 -AAACCAT
*
87457584 AAACCCT
1 AAACCAT
* *
87457591 AACCCTT
1 AAACCAT
87457598 AAACCCAT
1 AAA-CCAT
*
87457606 AATCCAT
1 AAACCAT
*
87457613 AAACCTT
1 AAACCAT
87457620 AAA
1 AAA
87457623 ATAGTTTAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 3 0.06
7 41 0.79
8 8 0.15
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCAT
Found at i:87457901 original size:40 final size:40
Alignment explanation
Indices: 87457751--87457910 Score: 143
Period size: 40 Copynumber: 4.0 Consensus size: 40
87457741 TCTTTAATCT
* *
87457751 TTTAGCGGCGTTT-TTAAAAAAGCGCCGCT-ATAGATTGACC
1 TTTAGCGGCGTTTCTT-AAAAAGCGCCGCTAAT-GCTTGATC
* *
87457791 TATAGCGGCGCTTTCTT-AAAA-CCCCGCTAATG-TTCGATC
1 TTTAGCGGCG-TTTCTTAAAAAGCGCCGCTAATGCTT-GATC
* *
87457830 TTTAGCGGCCGTTTCTTAAAAA-TGCCACTAATGCTTGATC
1 TTTAGCGG-CGTTTCTTAAAAAGCGCCGCTAATGCTTGATC
* * * *
87457870 TTTAGCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATC
1 TTTAGCGGCGTTTCTTAAAAAGCGCCGCTAATGCTTGATC
87457910 T
1 T
87457911 ATTCGATTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
38 2 0.02
39 35 0.35
40 55 0.56
41 5 0.05
42 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCGTTTCTTAAAAAGCGCCGCTAATGCTTGATC
Found at i:87460371 original size:18 final size:18
Alignment explanation
Indices: 87460346--87460387 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
87460336 AAAAATCCAA
87460346 AAAAAAAAATTA-AAAAC
1 AAAAAAAAATTAGAAAAC
*
87460363 AAAAGAAAATTAGAAAAC
1 AAAAAAAAATTAGAAAAC
87460381 AATAAAA
1 AA-AAAA
87460388 CTAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 7 0.33
19 3 0.14
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAAAAATTAGAAAAC
Found at i:87465388 original size:54 final size:53
Alignment explanation
Indices: 87465202--87465394 Score: 210
Period size: 55 Copynumber: 3.6 Consensus size: 53
87465192 ATCTTACCAT
* * * * * *
87465202 TGCCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATAT-TTTGCCTTATAGAACTCATCAA
* *
87465255 TGTCATGCCTTGGCATGGTCTTACATGAGACATTTT-CCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACAT--GATATTTTGCCTTATAG-AACTCATCAA
* * * *
87465310 TGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATT-TTGCCTTATAGAACTCATCAA
*
87465364 TGCCATGCCTTGGCATGGTGTTACATGATAT
1 TGCCATGCCTTGGCATGGTCTTACATGATAT
87465395 CCTTATCTTA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
53 32 0.28
54 41 0.35
55 43 0.37
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATTTTGCCTTATAGAACTCATCAA
Found at i:87468973 original size:40 final size:39
Alignment explanation
Indices: 87468805--87468975 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
87468795 AGAAATTGAA
* *
87468805 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
87468845 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
87468885 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
87468925 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
87468965 TGATATCCGGG
1 TGATATCCGGG
87468976 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:87484946 original size:2 final size:2
Alignment explanation
Indices: 87484939--87484984 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
87484929 CACATTGGAA
*
87484939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87484980 AT AT A
1 AT AT A
87484985 ACACTCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:87485151 original size:25 final size:25
Alignment explanation
Indices: 87485127--87485174 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
87485117 ATGTGGAATA
*
87485127 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
87485151 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
87485175 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:87485185 original size:25 final size:24
Alignment explanation
Indices: 87485135--87485187 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
87485125 TAATGTATAG
**
87485135 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
87485159 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
87485184 AATA
1 AATA
87485188 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:87485949 original size:21 final size:20
Alignment explanation
Indices: 87485917--87485956 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87485907 GAAAAGGTAA
*
87485917 TTTTTTTATTTTTTTTTCTC
1 TTTTTTTATTTTTATTTCTC
*
87485937 TTTTTTTGCTTTTTATTTCT
1 TTTTTTT-ATTTTTATTTCT
87485957 TTATGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTTTATTTTTATTTCTC
Found at i:87488546 original size:5 final size:5
Alignment explanation
Indices: 87488526--87488558 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
87488516 CCGGCTTATT
*
87488526 AATAA AA-AA TATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
87488559 CATATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:87492106 original size:24 final size:24
Alignment explanation
Indices: 87492078--87492129 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
87492068 TTAGCAAGTC
* *
87492078 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
87492102 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87492126 AAAT
1 AAAT
87492130 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87494075 original size:24 final size:24
Alignment explanation
Indices: 87494047--87494095 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
87494037 TTAGCAAGTC
* *
87494047 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
* *
87494071 AAATATATTATACAAATAAATGCT
1 AAATAAACTATACAAATAAATGCT
87494095 A
1 A
87494096 CTTCTAGAAA
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:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACAAATAAATGCT
Found at i:87495039 original size:50 final size:50
Alignment explanation
Indices: 87494980--87495091 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
87494970 GATAATTTGG
* * *
87494980 CATAAAGGCTTTCTAGAAAATTCACCATAAAGGCTTTCCAAATGATACGC
1 CATAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
* ** * **
87495030 CATAGAGGCTTTCCAGGGAATTCATCACAAAAGCTTTCCAAATTCTACGC
1 CATAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
*
87495080 CACAAAGGCTTT
1 CATAAAGGCTTT
87495092 TGAGAGTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (50 bp):
CATAAAGGCTTTCCAGAAAATTCACCACAAAAGCTTTCCAAATGATACGC
Found at i:87495888 original size:24 final size:24
Alignment explanation
Indices: 87495861--87495911 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
87495851 TTTATATTAG
87495861 AATCCTCATTATAGGCATTTTACT
1 AATCCTCATTATAGGCATTTTACT
87495885 AATCCTCATTATAGGCATTTTACT
1 AATCCTCATTATAGGCATTTTACT
87495909 AAT
1 AAT
87495912 ATTTCAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (24 bp):
AATCCTCATTATAGGCATTTTACT
Found at i:87498624 original size:10 final size:10
Alignment explanation
Indices: 87498609--87498651 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
87498599 ACATATTTTT
87498609 TAAAAAATAA
1 TAAAAAATAA
87498619 TAAAAAATCAA
1 TAAAAAAT-AA
87498630 -AAAAAAT-A
1 TAAAAAATAA
87498638 TAAAAAATAA
1 TAAAAAATAA
87498648 -AAAA
1 TAAAA
87498652 TACCCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.03
9 11 0.37
10 16 0.53
11 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:87498632 original size:19 final size:18
Alignment explanation
Indices: 87498610--87498651 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 18
87498600 CATATTTTTT
87498610 AAAAAATAATAAAAAATCAA
1 AAAAAAT-ATAAAAAAT-AA
87498630 AAAAAATATAAAAAATAA
1 AAAAAATATAAAAAATAA
87498648 AAAA
1 AAAA
87498652 TACCCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAATATAAAAAATAA
Found at i:87499253 original size:22 final size:22
Alignment explanation
Indices: 87499215--87499272 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
87499205 ATATTTTTAC
* * *
87499215 TATTATCTATTATTATCATATT
1 TATTATATATTTTTATCATATA
*
87499237 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTT-TATCATATA
87499259 TATTTATATATTTT
1 TA-TTATATATTTT
87499273 ATTTTTAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 15 0.50
23 4 0.13
24 6 0.20
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATATATTTTTATCATATA
Found at i:87499484 original size:3 final size:3
Alignment explanation
Indices: 87499472--87499520 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
87499462 TTTGTTTTCG
* * * *
87499472 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TGT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87499519 TA
1 TA
87499521 ATGTATATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:87499644 original size:25 final size:26
Alignment explanation
Indices: 87499614--87499682 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 26
87499604 TCCTAATATA
87499614 TATATTATGTACAT-TTTTTAAATAC
1 TATATTATGTACATATTTTTAAATAC
* * *
87499639 TATATTATATATATAATTTTTTAATAC
1 TATATTATGTACAT-ATTTTTAAATAC
*
87499666 CATATTATGTACATATT
1 TATATTATGTACATATT
87499683 ATTATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 12 0.33
26 3 0.08
27 21 0.58
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATTATGTACATATTTTTAAATAC
Found at i:87499721 original size:12 final size:12
Alignment explanation
Indices: 87499706--87499817 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
87499696 TTTTTATCCC
87499706 TATTATATTTAT
1 TATTATATTTAT
87499718 TATTA-A--TAT
1 TATTATATTTAT
*
87499727 TAGTATATATT-T
1 TATTATAT-TTAT
*
87499739 TATTATACGTGTA-
1 TATTATA--TTTAT
87499752 TATATATACTTT-T
1 TAT-TATA-TTTAT
87499765 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
87499780 T-TT-TATATAT
1 TATTATATTTAT
*
87499790 CATTATATTTAT
1 TATTATATTTAT
*
87499802 TATTATACTTAT
1 TATTATATTTAT
87499814 TATT
1 TATT
87499818 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:87499784 original size:18 final size:18
Alignment explanation
Indices: 87499761--87499819 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
87499751 ATATATATAC
*
87499761 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
87499779 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
87499797 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
87499816 TTTT
1 TTTT
87499820 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:87499920 original size:20 final size:21
Alignment explanation
Indices: 87499874--87499923 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
87499864 TTTGGTATAC
* *
87499874 ATATAATTTTTTTGTACATAT
1 ATATTATTTTTTTGTACACAT
*
87499895 -TGTTATTTTTTT-TACACAT
1 ATATTATTTTTTTGTACACAT
87499914 ATATTATTTT
1 ATATTATTTT
87499924 ATTATGGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
ATATTATTTTTTTGTACACAT
Found at i:87503626 original size:22 final size:22
Alignment explanation
Indices: 87503600--87503644 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
87503590 ATTCATGACT
87503600 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
87503622 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
87503644 A
1 A
87503645 TTCATCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:87512105 original size:90 final size:89
Alignment explanation
Indices: 87512001--87512249 Score: 367
Period size: 88 Copynumber: 2.8 Consensus size: 89
87511991 TCTATTCTTC
* *
87512001 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTTCACATGCCGAGGTATTTCCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGGTATTTTCAAAT
87512066 TCTGTTTTCAAACTATGTTTTCCAA
65 TCTGTTTTCAAACTATGTTTTCCAA
* *
87512091 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTGG--ACATGCCGAGGTATTTTCAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAATT
***
87512154 CTGTTTTTCAGTTTATGTTTTCCAA
66 CTG-TTTTCAAACTATGTTTTCCAA
* * *
87512179 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGGTATTTTCAAAT
87512244 TCTGTT
65 TCTGTT
87512250 CGTCAAAAAT
Statistics
Matches: 143, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
87 25 0.17
88 56 0.39
90 39 0.27
91 23 0.16
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCCGAGGTATTTTCAAATT
CTGTTTTCAAACTATGTTTTCCAA
Found at i:87512365 original size:74 final size:74
Alignment explanation
Indices: 87512178--87512619 Score: 549
Period size: 74 Copynumber: 6.0 Consensus size: 74
87512168 ATGTTTTCCA
* * *
87512178 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
*
87512243 TTCTGTTCGT
66 TTCTGTT-TT
* * *
87512253 CAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
*
87512318 TCCTGTTTT
66 TTCTGTTTT
** * *
87512327 TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACATGTTGAGGTAATTTT-AA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGT-ATTTTCAA
*
87512389 TTTCTGTTCATCA
65 TTTCTGTT--T-T
* *
87512402 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
87512467 TTCTGTTTT
66 TTCTGTTTT
* ** *
87512476 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT--TGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
87512539 TTCTGTCTTT
66 TTCTGT-TTT
* * *
87512549 CAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTT-A
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGT-ATTTTCA
*
87512611 ATTTTTGTT
64 ATTTCTGTT
87512620 CCTCAATTTA
Statistics
Matches: 324, Mismatches: 31, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
72 43 0.13
73 9 0.03
74 136 0.42
75 109 0.34
76 5 0.02
77 22 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAAT
TTCTGTTTT
Found at i:87512450 original size:149 final size:147
Alignment explanation
Indices: 87512180--87512737 Score: 635
Period size: 149 Copynumber: 3.7 Consensus size: 147
87512170 GTTTTCCAAA
*
87512180 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
* * *
87512244 TCTGTTCGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCGGGTCACATGCCGAGG
63 TCTGTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGG
87512308 TATTTTCAATTCCTGTTTTTT
127 TATTTTCAATTCCTGTTTTTT
* *
87512329 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGTTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
* *
87512393 TGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGT
65 TGTTCTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGT
* **
87512458 ATTTTCAATTTCTGTTTTCA
128 ATTTTCAATTCCTGTTTTTT
* **
87512478 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
87512543 G-TCTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA
66 GTTC-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGT-
*
87512605 ATTTT-AATTTTTGTTCCTCAATTTATGTTT
128 ATTTTCAA------TTCCT---GTT-T-TTT
* * *
87512635 CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTTAAT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
* *
87512700 TTCTGTTTTTCATCAAAATCAACTCATATTGCGAGAGG
62 TTCTGTTCTTCA-AAAAATCAACTCATATTGCGAGAGG
87512738 GTCACGGGCC
Statistics
Matches: 353, Mismatches: 30, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
146 12 0.03
147 28 0.08
148 52 0.15
149 163 0.46
150 2 0.01
152 4 0.01
155 2 0.01
156 1 0.00
157 1 0.00
161 64 0.18
162 24 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTCTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATT
TTCAATTCCTGTTTTTT
Found at i:87512681 original size:87 final size:86
Alignment explanation
Indices: 87512546--87512706 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 86
87512536 AATTTCTGTC
*
87512546 TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
*
87512611 ATTTTTGTTCCTCAATTTATG
66 ATTTCTGTTCCTCAATTTATG
* * *
87512632 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
87512697 AATTTCTGTT
65 AATTTCTGTT
87512707 TTTCATCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 4 0.06
87 65 0.94
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (86 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
ATTTCTGTTCCTCAATTTATG
Found at i:87512833 original size:45 final size:45
Alignment explanation
Indices: 87512765--87512854 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
87512755 TAATAAAGAT
* * *
87512765 TGGAGTTGATCGAAGACACCAGATTTTGTCTCCCTGAAGTTGCAG
1 TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTGAAGTTGCAG
* * * **
87512810 TGGAGCTGATCGAGGATATCAGATCTTGCCTTTCTGAAGTTGCAG
1 TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTGAAGTTGCAG
87512855 AAGAGAAGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
TGGAGCTGATCGAAGACACCAGATCTTGCCTCCCTGAAGTTGCAG
Found at i:87513252 original size:20 final size:20
Alignment explanation
Indices: 87513216--87513258 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
87513206 GGCCTTTTAC
*
87513216 AAAAATAAACCATTACAACT
1 AAAAATAAACCATTACAAAT
*
87513236 AAAATTAAACCCA-TACAAAT
1 AAAAATAAA-CCATTACAAAT
87513256 AAA
1 AAA
87513259 CCCAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAACCATTACAAAT
Found at i:87513461 original size:16 final size:15
Alignment explanation
Indices: 87513419--87513462 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
87513409 TGACCTGTAG
87513419 CACTTGCTCCATCGC
1 CACTTGCTCCATCGC
87513434 CAC-TGTCTCCATCAGC
1 CACTTG-CTCCATC-GC
*
87513450 CACTTGCACCATC
1 CACTTGCTCCATC
87513463 TCGTCGTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 11 0.44
17 2 0.08
ACGTcount: A:0.18, C:0.45, G:0.11, T:0.25
Consensus pattern (15 bp):
CACTTGCTCCATCGC
Found at i:87513774 original size:10 final size:10
Alignment explanation
Indices: 87513759--87513801 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
87513749 ACATATTTTT
87513759 TAAAAAATAA
1 TAAAAAATAA
*
87513769 TAAAAAATCA
1 TAAAAAATAA
87513779 -AAAAAATAA
1 TAAAAAATAA
87513788 TAAAAAATAA
1 TAAAAAATAA
87513798 -AAAA
1 TAAAA
87513802 TACCTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 12 0.40
10 18 0.60
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (10 bp):
TAAAAAATAA
Done.