Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 219 of 226
Found at i:68496676 original size:44 final size:43
Alignment explanation
Indices: 68496531--68496669 Score: 122
Period size: 44 Copynumber: 3.1 Consensus size: 43
68496521 TTGGCAGCGA
*
68496531 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAACAG
1 AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGC-AGAG
* * * * * * *
68496575 AGCAGA-CTGAAGATAACAGATCTTG-CCTTCCTGTA-TTGGTAGCG
1 AGCAGATC-GAAGACACCAG--CCTGACCTCCCTG-AGTTTGCAGAG
68496619 AAGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGTAG
1 -AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAG-AG
68496664 AGCAGA
1 AGCAGA
68496670 CTGAAGATAG
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
43 5 0.07
44 35 0.49
45 26 0.37
46 5 0.07
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (43 bp):
AGCAGATCGAAGACACCAGCCTGACCTCCCTGAGTTTGCAGAG
Found at i:68496855 original size:100 final size:100
Alignment explanation
Indices: 68496730--68496987 Score: 356
Period size: 100 Copynumber: 2.6 Consensus size: 100
68496720 GACACCAGCC
* *
68496730 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAA
1 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAA
* * *
68496795 TCTTACTT-CTCTGGCGGTGCAGTGGAACAGATTGA
66 TCTTACTTCCT-TGGCAGTGCAGTGGAACAAATTAA
* * * *
68496830 AGCTATAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAATAGCGAA
1 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAA
*
68496895 TCTTACTTCCTTGGCAGTGTAGTGGAACAAATTAA
66 TCTTACTTCCTTGGCAGTGCAGTGGAACAAATTAA
* * * * * *
68496930 AGCTACAATGGCGAATTTTGCTTCCCCAACATTGCAATTAAAATGATTGAAGCTACAA
1 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
68496988 GTCTTATCTC
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 136 0.99
101 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (100 bp):
AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGAA
TCTTACTTCCTTGGCAGTGCAGTGGAACAAATTAA
Found at i:68496877 original size:50 final size:50
Alignment explanation
Indices: 68496730--68496987 Score: 194
Period size: 50 Copynumber: 5.2 Consensus size: 50
68496720 GACACCAGCC
*
68496730 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
1 AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGA
** * * * * ** * ** *
68496780 AGCCGCAACGGCGAATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTGA
1 AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGA
* *
68496830 AGCTATAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTAA
1 AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGA
* ** * ** * * * * * * *
68496880 AGCCACAATAGCGAATCTTACTTCCTTGGCAGTGTAGTGGAACAA-ATTAA
1 AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAAT-TAAAAAGATTGA
* * * * * *
68496930 AGCTACAATGGCGAATTTTGCTTCCCCAACATTGCAATTAAAATGATTGA
1 AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGA
68496980 AGCTACAA
1 AGCTACAA
68496988 GTCTTATCTC
Statistics
Matches: 151, Mismatches: 55, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
49 3 0.02
50 144 0.95
51 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGA
Found at i:68497054 original size:45 final size:45
Alignment explanation
Indices: 68496990--68497201 Score: 219
Period size: 45 Copynumber: 4.7 Consensus size: 45
68496980 AGCTACAAGT
*
68496990 CTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAAATAACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAACAAAC
* * * * **
68497035 CTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAGATACCGAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTGAAAATAACAAAC
* * * *
68497080 CTTAGCTCCATGAAGTTGTAGTGGAGCAGACTGAAGATAACTAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAACAAAC
* ** * * *
68497125 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAAATAAATAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-GAAAAT-AACAAAC
* *
68497172 CTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGA
68497202 TTAAAGCTAT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 99 0.72
46 5 0.04
47 32 0.23
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAATAACAAAC
Found at i:68497103 original size:90 final size:90
Alignment explanation
Indices: 68496987--68497152 Score: 278
Period size: 90 Copynumber: 1.8 Consensus size: 90
68496977 TGAAGCTACA
* *
68496987 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAAATAACAAACCTTATCTCCCTGAAGTT
1 AGTCTTAGCTCCATAAAGTTGTAGTGGAGCAGACTGAAAATAACAAACCTTATCTCCCTGAAGTT
*
68497052 GTAGTGGAGCAAGTTGAAGATACCG
66 GCAGTGGAGCAAGTTGAAGATACCG
* * *
68497077 AGTCTTAGCTCCATGAAGTTGTAGTGGAGCAGACTGAAGATAACTAACCTTATCTCCCTGAAGTT
1 AGTCTTAGCTCCATAAAGTTGTAGTGGAGCAGACTGAAAATAACAAACCTTATCTCCCTGAAGTT
68497142 GCAGTGGAGCA
66 GCAGTGGAGCA
68497153 GGTTAAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (90 bp):
AGTCTTAGCTCCATAAAGTTGTAGTGGAGCAGACTGAAAATAACAAACCTTATCTCCCTGAAGTT
GCAGTGGAGCAAGTTGAAGATACCG
Found at i:68497243 original size:51 final size:47
Alignment explanation
Indices: 68496989--68497253 Score: 184
Period size: 45 Copynumber: 5.7 Consensus size: 47
68496979 AAGCTACAAG
* * * * *
68496989 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACT-GAAAAT-AACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAATAAATAAA
* * * * *** *
68497034 CCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTT-GAAGAT-ACCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAAAATAAATAAA
* * * * * * *
68497079 TCTTAGCTCCATGAAGTTGTAGTGGAGCAGACT-GAAGATAACT-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAATAAATAAA
* *
68497124 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAAAATAAATAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAATAAATAAA
* ** *
68497171 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACCGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AAATAAA-TA--AA
* *
68497222 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
68497254 CATATCAGGT
Statistics
Matches: 180, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.01
45 97 0.54
46 10 0.06
47 35 0.19
48 5 0.03
49 2 0.01
51 30 0.17
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (47 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAATAAATAAA
Found at i:68497324 original size:45 final size:45
Alignment explanation
Indices: 68497262--68497376 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
68497252 ATCATATCAG
*
68497262 GTCTTATCCTCCT-GAAGTTGCAGTGGGA-CAGACTAAAGATAGTGA
1 GTCTTAT-CTCCTCGAAGTTGCAGTGGGAGCAGACTAAAGATACT-A
* *
68497307 GTCTTATCTCCTCGAAGTTGCAGT-GGAGCAGACTGAAGCTACTA
1 GTCTTATCTCCTCGAAGTTGCAGTGGGAGCAGACTAAAGATACTA
* *
68497351 ATCCTATCTCC-CTGAAGTTGCAGTGG
1 GTCTTATCTCCTC-GAAGTTGCAGTGG
68497377 AACGGATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.02
44 29 0.48
45 31 0.51
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (45 bp):
GTCTTATCTCCTCGAAGTTGCAGTGGGAGCAGACTAAAGATACTA
Found at i:68497361 original size:44 final size:46
Alignment explanation
Indices: 68497270--68497377 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 46
68497260 AGGTCTTATC
* * *
68497270 CTCCT-GAAGTTGCAGTGG-GACAGACTAAAGATAGTGAGTCTTAT
1 CTCCTCGAAGTTGCAGTGGAGACAGACTAAAGATACTGAATCCTAT
* *
68497314 CTCCTCGAAGTTGCAGTGGAG-CAGACTGAAGCTACT-AATCCTAT
1 CTCCTCGAAGTTGCAGTGGAGACAGACTAAAGATACTGAATCCTAT
68497358 CTCC-CTGAAGTTGCAGTGGA
1 CTCCTC-GAAGTTGCAGTGGA
68497378 ACGGATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 1 0.02
44 29 0.52
45 25 0.45
46 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (46 bp):
CTCCTCGAAGTTGCAGTGGAGACAGACTAAAGATACTGAATCCTAT
Found at i:68498499 original size:39 final size:39
Alignment explanation
Indices: 68498445--68498561 Score: 131
Period size: 39 Copynumber: 3.1 Consensus size: 39
68498435 AAAAAAACCC
68498445 AAATCAGGTATAAATATTTCAAAAAGGAGATCTAAACAA
1 AAATCAGGTATAAATATTTCAAAAAGGAGATCTAAACAA
**
68498484 AAATCAGGTATAAATATTT-ACAAAA--A-A---AAACCC
1 AAATCAGGTATAAATATTTCA-AAAAGGAGATCTAAACAA
* *
68498517 AAATCAGGTATAAATAACTACAAAAAGGAGATCTAAACAA
1 AAATCAGGTATAAAT-ATTTCAAAAAGGAGATCTAAACAA
68498557 AAATC
1 AAATC
68498562 TTAGGTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
33 19 0.30
34 6 0.10
35 1 0.02
36 2 0.03
37 2 0.03
38 1 0.02
39 23 0.37
40 9 0.14
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (39 bp):
AAATCAGGTATAAATATTTCAAAAAGGAGATCTAAACAA
Found at i:68498526 original size:33 final size:33
Alignment explanation
Indices: 68498433--68498542 Score: 114
Period size: 33 Copynumber: 3.2 Consensus size: 33
68498423 TTGGTTCCAA
68498433 AAAAAAAAACCCAAATCAGGTATAAATATTT-C
1 AAAAAAAAACCCAAATCAGGTATAAATATTTAC
**
68498465 AAAAAGGAGATCTAAACAAAAATCAGGTATAAATATTTAC
1 -AAAA--A-A---AAACCCAAATCAGGTATAAATATTTAC
**
68498505 AAAAAAAAACCCAAATCAGGTATAAATAACTAC
1 AAAAAAAAACCCAAATCAGGTATAAATATTTAC
68498538 AAAAA
1 AAAAA
68498543 GGAGATCTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
33 32 0.50
35 1 0.02
36 2 0.03
37 1 0.02
39 27 0.42
40 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (33 bp):
AAAAAAAAACCCAAATCAGGTATAAATATTTAC
Found at i:68499328 original size:23 final size:21
Alignment explanation
Indices: 68499286--68499326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68499276 CCTGCATACG
68499286 TTTTTATAATATACATATATT
1 TTTTTATAATATACATATATT
* *
68499307 TTTTTATAATTTATATATAT
1 TTTTTATAATATACATATAT
68499327 ATACATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATAATATACATATATT
Found at i:68509135 original size:96 final size:96
Alignment explanation
Indices: 68509026--68509272 Score: 386
Period size: 96 Copynumber: 2.6 Consensus size: 96
68509016 ACGCGGTCAC
* * * **
68509026 CTTTTTATTATTTTTATGATGGATAATTAATTATGACGAGTCTTCGCCACTTTTGCTAGTGGGAC
1 CTTTTTATTATTTTTATGATGAATAATTAATTATGAAGAGTCTTCACCACTTTTGCTACAGGGAC
*
68509091 AGGCATCGTTGATGAATTATTGATGCTGTTA
66 AGGCATCGTTGATGAATTATTGATGCTGCTA
* *
68509122 CTTTTTATTATTTTTATGATGAATAATTAATTATCAAGAGTCTTCACCACTTTCGCTACAGGGAC
1 CTTTTTATTATTTTTATGATGAATAATTAATTATGAAGAGTCTTCACCACTTTTGCTACAGGGAC
*
68509187 AGGCATCGTTGATGGATTATTGATGCTGCTA
66 AGGCATCGTTGATGAATTATTGATGCTGCTA
* * *
68509218 CTTGTTACTATTTTTATGATGAATAATTAAGTATGAAGAGTCTTCACCACTTTTG
1 CTTTTTATTATTTTTATGATGAATAATTAATTATGAAGAGTCTTCACCACTTTTG
68509273 AATAATTAAG
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 137 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (96 bp):
CTTTTTATTATTTTTATGATGAATAATTAATTATGAAGAGTCTTCACCACTTTTGCTACAGGGAC
AGGCATCGTTGATGAATTATTGATGCTGCTA
Found at i:68509427 original size:11 final size:11
Alignment explanation
Indices: 68509386--68509439 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
68509376 TTTAATCTCT
68509386 AAAATTATATG
1 AAAATTATATG
*
68509397 AAAATGTTATATT
1 AAAA--TTATATG
**
68509410 ACGATTATATG
1 AAAATTATATG
68509421 AAAATTATATG
1 AAAATTATATG
*
68509432 AAAGTTAT
1 AAAATTAT
68509440 TCCATTATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 26 0.76
13 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (11 bp):
AAAATTATATG
Found at i:68512856 original size:17 final size:18
Alignment explanation
Indices: 68512830--68512867 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
68512820 GTATTGATAA
*
68512830 TAATAATAAATTAA-TAG
1 TAATAATAAACTAATTAG
*
68512847 TAATATTAAACTAATTAG
1 TAATAATAAACTAATTAG
68512865 TAA
1 TAA
68512868 GAAACACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (18 bp):
TAATAATAAACTAATTAG
Found at i:68515906 original size:41 final size:41
Alignment explanation
Indices: 68515791--68515906 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
68515781 GGTGCTAATC
* * * *
68515791 GAAAAATGCCACAAAAGGTTAGAGCTTTAGCAGCGTTTATGA
1 GAAAAATGCCACAAAAGGTCA-AGCATTAGCGGCGTCTATGA
* *
68515833 GAAAAATGCCATAAAAGGTCAAGCAATAGCGGCGTCTATGA
1 GAAAAATGCCACAAAAGGTCAAGCATTAGCGGCGTCTATGA
* * *
68515874 GAAAAATGCCACAAAAAGTGAAGCATTGGCGGC
1 GAAAAATGCCACAAAAGGTCAAGCATTAGCGGC
68515907 ATTTATATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 44 0.70
42 19 0.30
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (41 bp):
GAAAAATGCCACAAAAGGTCAAGCATTAGCGGCGTCTATGA
Found at i:68516193 original size:21 final size:22
Alignment explanation
Indices: 68516156--68516203 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
68516146 CATTTGAAAG
68516156 TAAAAATATAGAAAAATATATGT
1 TAAAAATATAGAAAAATATAT-T
*
68516179 TAAAAATA-A-AAAAATTTATT
1 TAAAAATATAGAAAAATATATT
68516199 TAAAA
1 TAAAA
68516204 TAATTTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 1 0.04
23 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
TAAAAATATAGAAAAATATATT
Found at i:68516643 original size:19 final size:19
Alignment explanation
Indices: 68516619--68516672 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
68516609 AATCTTCAAG
*
68516619 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAC
68516638 GATATGCAATCTTAGATAC
1 GATATGCAATCTTAGATAC
68516657 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
68516673 AGATATGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAC
Found at i:68519786 original size:16 final size:16
Alignment explanation
Indices: 68519765--68519797 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68519755 TTTGAAAGAG
68519765 TTTCAAATATATATGC
1 TTTCAAATATATATGC
*
68519781 TTTCAAATTTATATGC
1 TTTCAAATATATATGC
68519797 T
1 T
68519798 CTAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGC
Found at i:68520589 original size:14 final size:14
Alignment explanation
Indices: 68520570--68520597 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
68520560 GTTGGTTTCA
68520570 CTTCTTTTTCTTTT
1 CTTCTTTTTCTTTT
68520584 CTTCTTTTTCTTTT
1 CTTCTTTTTCTTTT
68520598 AGAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTCTTTTTCTTTT
Found at i:68520989 original size:2 final size:2
Alignment explanation
Indices: 68520982--68521022 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
68520972 AGAAGAGAAG
68520982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68521023 TTGTAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:68524499 original size:4 final size:4
Alignment explanation
Indices: 68524490--68524514 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
68524480 ATAATTTAAA
68524490 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
68524515 TATTAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:68527106 original size:16 final size:16
Alignment explanation
Indices: 68527085--68527117 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
68527075 TTTGAAAGAG
68527085 TTTCAAATATATATGC
1 TTTCAAATATATATGC
*
68527101 TTTCAAATTTATATGC
1 TTTCAAATATATATGC
68527117 T
1 T
68527118 CTAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGC
Found at i:68527194 original size:22 final size:23
Alignment explanation
Indices: 68527166--68527212 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
68527156 TTGATATGTT
68527166 TAATTTT-TTAATATAACTCAAA
1 TAATTTTATTAATATAACTCAAA
* *
68527188 TAATTTTACTTGATATGACTCAAA
1 TAATTTTA-TTAATATAACTCAAA
68527212 T
1 T
68527213 TTTATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (23 bp):
TAATTTTATTAATATAACTCAAA
Found at i:68528021 original size:5 final size:5
Alignment explanation
Indices: 68528011--68528036 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68528001 CTCTGAAAGT
68528011 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
68528037 GTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:68528762 original size:5 final size:5
Alignment explanation
Indices: 68528739--68528774 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
68528729 GGTTTCACTT
68528739 TTTTA TGTTTA TGTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TTTT
68528775 TAGAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:68536652 original size:29 final size:29
Alignment explanation
Indices: 68536619--68536699 Score: 117
Period size: 30 Copynumber: 2.8 Consensus size: 29
68536609 TTACATTTCA
* *
68536619 ACCCCTAAACTTTCTCAAAATTCATCTTG
1 ACCCCTTAACTTTCTAAAAATTCATCTTG
* *
68536648 ACCCCTTAACTTTCTTAAAATTTCATTTTG
1 ACCCCTTAACTTTC-TAAAAATTCATCTTG
68536678 ACCCCTTAACTTTCTAAAAATT
1 ACCCCTTAACTTTCTAAAAATT
68536700 ACATTTTGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 20 0.43
30 26 0.57
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (29 bp):
ACCCCTTAACTTTCTAAAAATTCATCTTG
Found at i:68536679 original size:30 final size:30
Alignment explanation
Indices: 68536606--68536735 Score: 147
Period size: 29 Copynumber: 4.4 Consensus size: 30
68536596 CAAAAAATAT
** * *
68536606 AAATTACATTTCAACCCCTAAACTTTCTCA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
*
68536636 AAATT-CATCTTGACCCCTTAACTTTCTTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
* *
68536665 AAATTTCATTTTGACCCCTTAACTTTCTAA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
** * *
68536695 AAATTACATTTTGGTCCCGT-ATTTTCTTA
1 AAATTACATTTTGACCCCTTAACTTTCTTA
68536724 AAATTACATTTT
1 AAATTACATTTT
68536736 CCCCCAGAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
29 43 0.50
30 43 0.50
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTTAACTTTCTTA
Found at i:68536735 original size:59 final size:59
Alignment explanation
Indices: 68536606--68536735 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
68536596 CAAAAAATAT
* * *
68536606 AAATTACATTTCAACCCCTAAACTTTCTCAAAATTCATCTTGACCCCTTAACTTTCTTA
1 AAATTACATTTTAACCCCTAAACTTTCTAAAAATTCATCTTGACCCCGTAACTTTCTTA
* * * * ** *
68536665 AAATTTCATTTTGACCCCTTAACTTTCTAAAAATTACATTTTGGTCCCGT-ATTTTCTTA
1 AAATTACATTTTAACCCCTAAACTTTCTAAAAATT-CATCTTGACCCCGTAACTTTCTTA
68536724 AAATTACATTTT
1 AAATTACATTTT
68536736 CCCCCAGAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 49 0.83
60 10 0.17
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (59 bp):
AAATTACATTTTAACCCCTAAACTTTCTAAAAATTCATCTTGACCCCGTAACTTTCTTA
Found at i:68538922 original size:21 final size:22
Alignment explanation
Indices: 68538900--68538943 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
68538890 TTAATTTTTA
68538900 TTTAATATT-ATATATAT-TATA
1 TTTAAT-TTAATATATATATATA
*
68538921 TTTACTTTAATATATATATATA
1 TTTAATTTAATATATATATATA
68538943 T
1 T
68538944 ATAACACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 13 0.65
22 5 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAATTTAATATATATATATA
Found at i:68538952 original size:25 final size:27
Alignment explanation
Indices: 68538900--68538959 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
68538890 TTAATTTTTA
**
68538900 TTTAATAT-TATATATATTATATTTAC
1 TTTAATATATATATATATTATATACAC
68538926 TTTAATATATATATATA-TATA-ACAC
1 TTTAATATATATATATATTATATACAC
68538951 -TTAAT-TATA
1 TTTAATATATA
68538960 GCTAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 4 0.13
24 5 0.16
25 2 0.06
26 12 0.39
27 8 0.26
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTAATATATATATATATTATATACAC
Found at i:68539116 original size:27 final size:25
Alignment explanation
Indices: 68539065--68539128 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
68539055 TTATAAAAAT
*
68539065 ATTCAAAAAA-AT-AAAAAATTGAA
1 ATTCAAAAAATATAAAAAAATTAAA
68539088 ATTCAAAAAATATAAAAAAATCATAAA
1 ATTCAAAAAATATAAAAAAAT--TAAA
68539115 ATT-AATAAAATATA
1 ATTCAA-AAAATATA
68539129 GCATGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 10 0.29
24 2 0.06
25 7 0.20
26 2 0.06
27 14 0.40
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (25 bp):
ATTCAAAAAATATAAAAAAATTAAA
Found at i:68557782 original size:2 final size:2
Alignment explanation
Indices: 68557775--68557802 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
68557765 TAGTATTATT
68557775 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68557803 TATATATATC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:68563322 original size:16 final size:16
Alignment explanation
Indices: 68563292--68563325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68563282 CTTTCTCTTA
*
68563292 TTTGTTGATGGAACTT
1 TTTGTTGATCGAACTT
*
68563308 TTTGTTGATCTAACTT
1 TTTGTTGATCGAACTT
68563324 TT
1 TT
68563326 CATTGTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.56
Consensus pattern (16 bp):
TTTGTTGATCGAACTT
Found at i:68571119 original size:14 final size:14
Alignment explanation
Indices: 68571100--68571130 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
68571090 GAAAAGAGCA
*
68571100 CACAATTGTCAACG
1 CACAATTATCAACG
68571114 CACAATTATCAACG
1 CACAATTATCAACG
68571128 CAC
1 CAC
68571131 CTGTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (14 bp):
CACAATTATCAACG
Found at i:68590103 original size:13 final size:13
Alignment explanation
Indices: 68590085--68590181 Score: 72
Period size: 13 Copynumber: 7.0 Consensus size: 13
68590075 TTCGGCCGGT
*
68590085 GGAGAATAAAGAA
1 GGAGAAGAAAGAA
68590098 GGAGAAGAAA-AA
1 GGAGAAGAAAGAA
*
68590110 AGAGAGAGAAAGAA
1 GGAGA-AGAAAGAA
68590124 GGAGAAGAAAGAA
1 GGAGAAGAAAGAA
**
68590137 AAAGAAAGAAAACGAAA
1 GGAG-AAG-AAA-G-AA
68590154 GGA-AAGGAAAGGAAA
1 GGAGAA-GAAA-G-AA
68590169 GGAGAAGAAAGAA
1 GGAGAAGAAAGAA
68590182 AAAAAAAGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.09
13 26 0.38
14 10 0.15
15 19 0.28
16 4 0.06
17 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.01
Consensus pattern (13 bp):
GGAGAAGAAAGAA
Found at i:68590122 original size:26 final size:27
Alignment explanation
Indices: 68590092--68590147 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
68590082 GGTGGAGAAT
* *
68590092 AAAGAAGGAGAAGAAA-AAAGAGAGAG
1 AAAGAAGGAGAAGAAAGAAAAAGAAAG
68590118 AAAGAAGGAGAAGAAAGAAAAAGAAAG
1 AAAGAAGGAGAAGAAAGAAAAAGAAAG
68590145 AAA
1 AAA
68590148 ACGAAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAGAAGGAGAAGAAAGAAAAAGAAAG
Found at i:68590143 original size:10 final size:10
Alignment explanation
Indices: 68590106--68590219 Score: 59
Period size: 10 Copynumber: 11.0 Consensus size: 10
68590096 AAGGAGAAGA
*
68590106 AAAAAGAGAG
1 AAAAAGAAAG
*
68590116 AGAAAG-AAG
1 AAAAAGAAAG
* *
68590125 GAGAAGAAAG
1 AAAAAGAAAG
68590135 AAAAAGAAAG
1 AAAAAGAAAG
*
68590145 AAAACGAAAGG
1 AAAAAGAAA-G
68590156 AAAGGAAAGGAAAG
1 -AA--AAA-GAAAG
* *
68590170 GAGAAGAAAG
1 AAAAAGAAAG
*
68590180 AAAAAAAAAG
1 AAAAAGAAAG
*
68590190 AAAAGGAAAG
1 AAAAAGAAAG
* *
68590200 GAGAAGAAAG
1 AAAAAGAAAG
* *
68590210 GAAAGGAAAG
1 AAAAAGAAAG
68590220 GAGAAGAAGA
Statistics
Matches: 77, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
9 5 0.06
10 59 0.77
11 3 0.04
12 2 0.03
13 1 0.01
14 3 0.04
15 4 0.05
ACGTcount: A:0.68, C:0.01, G:0.32, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:68590160 original size:5 final size:5
Alignment explanation
Indices: 68590130--68590221 Score: 80
Period size: 5 Copynumber: 18.4 Consensus size: 5
68590120 AGAAGGAGAA
* * * *
68590130 GAAAG AAAAA GAAAG AAAAC GAAAG GAAAG GAAAG GAAAG GAGAA- GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG GAAAG
* * * *
68590180 AAAAA AAAAG AAAAG GAAAG GAGAA- GAAAG GAAAG GAAAG GA
1 GAAAG GAAAG GAAAG GAAAG GA-AAG GAAAG GAAAG GAAAG GA
68590222 GAAGAAGAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
4 4 0.06
5 63 0.89
6 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:68590163 original size:20 final size:20
Alignment explanation
Indices: 68590130--68590227 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
68590120 AGAAGGAGAA
* * *
68590130 GAAAGAAAAAGAAAGAAAAC
1 GAAAGGAAAGGAAAGAAAAG
*
68590150 GAAAGGAAAGGAAAGGAAAG
1 GAAAGGAAAGGAAAGAAAAG
* *
68590170 GAGAA-GAAAGAAAAAAAAAG
1 GA-AAGGAAAGGAAAGAAAAG
*
68590190 AAAAGGAAAGGAGAAG-AAAG
1 GAAAGGAAAGGA-AAGAAAAG
68590210 GAAAGGAAAGGAGAAGAA
1 GAAAGGAAAGGA-AAGAA
68590228 GAAGAGGGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
19 2 0.03
20 56 0.89
21 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (20 bp):
GAAAGGAAAGGAAAGAAAAG
Found at i:68590171 original size:45 final size:45
Alignment explanation
Indices: 68590122--68590216 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
68590112 AGAGAGAAAG
*
68590122 AAGGAGAAGAAAGAAAAAGAAAGAAAACGAAAGGA-AAGGAAAGGA
1 AAGGAGAAGAAAGAAAAAAAAAGAAAACGAAAGGAGAA-GAAAGGA
*
68590167 AAGGAGAAGAAAGAAAAAAAAAGAAAAGGAAAGGAGAAGAAAGGA
1 AAGGAGAAGAAAGAAAAAAAAAGAAAACGAAAGGAGAAGAAAGGA
68590212 AAGGA
1 AAGGA
68590217 AAGGAGAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (45 bp):
AAGGAGAAGAAAGAAAAAAAAAGAAAACGAAAGGAGAAGAAAGGA
Found at i:68590605 original size:26 final size:26
Alignment explanation
Indices: 68590576--68590625 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
68590566 ATATTCACCG
* *
68590576 AAAATAATAAAATCCGAAAATAATGT
1 AAAATAATAAAATACAAAAATAATGT
68590602 AAAATAATAAAATACAAAAATAAT
1 AAAATAATAAAATACAAAAATAAT
68590626 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAATAATAAAATACAAAAATAATGT
Found at i:68590751 original size:155 final size:156
Alignment explanation
Indices: 68590592--68591310 Score: 949
Period size: 155 Copynumber: 4.7 Consensus size: 156
68590582 ATAAAATCCG
*
68590592 AAAATAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG
* * *
68590656 AAAAAAA-A-GAACAAAGGGCCGAAGTAAAGGTTATTTTTTG-AAATTTATTTAAAAGATACTGT
65 AAAAAAATACGAACAAAGGGCCGAAGTAAGGGTT-TTTTTTGTAAATTTATTTAAAAAATAC-AT
68590718 AAATTAATACATTTCAAACATAATGTACT
128 AAATTAATACATTTCAAACATAATGTACT
* *
68590747 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATA--TTT-TT-AAAGTAATAAAATCCGGAG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTC-GAG
* ** *
68590808 AAAAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTACTAAA-TTATTTTAACAAAACACAA
65 AAAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTA-TTTAA-AAAATAC-A
*
68590871 TTAATTAATACATTTCAAACATAATGTACT
127 TAAATTAATACATTTCAAACATAATGTACT
* *
68590901 AAAATAATG-----TAATAAAATTATAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
68590961 AAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTTTGTAAATTTATTTAAAAAATACACT
66 AAAAAATACGAACAAAGGGCCGAAGTAAGGG--TTTTTTTTGTAAATTTATTTAAAAAATACA-T
*
68591026 AAATTAATACATTTCAAATATAATGTACT
128 AAATTAATACATTTCAAACATAATGTACT
* * *
68591055 AAACTAATGTAAAATAATAAAATTAGAAAATAATAT-TTTTTATTGAAAGTAATAAAATTCGGGG
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
*
68591119 AAAAAATACGAACAAAGGGTCGAAGTAAGGG-TTTTTTTGTAAATTTATTTAAAAAAGATAC-TA
66 AAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTT-AAAAA-ATACAT-
* *
68591182 AAATT-ATACATTTCAAATATAATGTAAT
128 AAATTAATACATTTCAAACATAATGTACT
* * *
68591210 AAACTAATGTAAAATAATAAAATTAGAAAATAATAT-TTTTTATTGAAGGTAATAAAA-TCCAGT
1 AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG-
*
68591273 AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
65 AAAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTT
68591311 ACTAAACTTA
Statistics
Matches: 505, Mismatches: 33, Indels: 51
0.86 0.06 0.09
Matches are distributed among these distances:
149 21 0.04
151 17 0.03
152 55 0.11
153 28 0.06
154 108 0.21
155 174 0.34
156 20 0.04
157 4 0.01
158 57 0.11
159 21 0.04
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (156 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGA
AAAAAATACGAACAAAGGGCCGAAGTAAGGGTTTTTTTTGTAAATTTATTTAAAAAATACATAAA
TTAATACATTTCAAACATAATGTACT
Found at i:68595570 original size:43 final size:43
Alignment explanation
Indices: 68595518--68595702 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 43
68595508 TTTTATAAAT
* * *
68595518 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCATTTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCTCAC
* * * *
68595561 AAACGCCGCTATAGAACATGAGCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCTCAC
* * * *
68595604 AAACGCCGCTAAAGATCAAGACCTTTAACGACGCTTTAAC-CAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTT-TCTCAC
* * *
68595647 AAACGCTGCTAAAGAACATGATCTTTAGCGACGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCTCAC
68595690 AAACGCCGCTAAA
1 AAACGCCGCTAAA
68595703 AGTACAACTC
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
43 119 0.99
44 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCTCAC
Found at i:68595716 original size:86 final size:86
Alignment explanation
Indices: 68595518--68595702 Score: 257
Period size: 86 Copynumber: 2.2 Consensus size: 86
68595508 TTTTATAAAT
* * * *
68595518 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCATTT--CTCACAAACGCCGCTATAGAACATG
1 AAACGCCGCTAAAGATCAAGACCTTTAACGACGC-TTTAAC-CACAAACGCCGCTAAAGAACATG
* *
68595581 AGCTTTAGCGGCGCTTTTCCCAC
64 AGCTTTAGCGACGCTTTTACCAC
* *
68595604 AAACGCCGCTAAAGATCAAGACCTTTAACGACGCTTTAACCACAAACGCTGCTAAAGAACATGAT
1 AAACGCCGCTAAAGATCAAGACCTTTAACGACGCTTTAACCACAAACGCCGCTAAAGAACATGAG
*
68595669 CTTTAGCGACGCTTTTATCAC
66 CTTTAGCGACGCTTTTACCAC
68595690 AAACGCCGCTAAA
1 AAACGCCGCTAAA
68595703 AGTACAACTC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
85 3 0.03
86 84 0.95
87 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCAAGACCTTTAACGACGCTTTAACCACAAACGCCGCTAAAGAACATGAG
CTTTAGCGACGCTTTTACCAC
Found at i:68596703 original size:40 final size:40
Alignment explanation
Indices: 68596640--68596723 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
68596630 TAGCTTGAAC
* * *
68596640 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
68596680 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
68596720 ATCA
1 ATCA
68596724 TGTATAATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:68596888 original size:76 final size:76
Alignment explanation
Indices: 68596753--68596894 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
68596743 CAAAAAATTA
* * * * ** *
68596753 GCAAAAATTAACAATTCATGTATAATGTATTTACCAAAAACTGGACCAACTTGTCAATTTTTATA
1 GCAAAAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTATA
68596818 ACATTTTAAAT
66 ACATTTTAAAT
* * *
68596829 GCAACAAATTAACAATACAAGT-TCATATATTCACCAAAAACCAGACTAAATTTTCAATTTTTAT
1 GCAA-AAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTAT
68596893 AA
65 AA
68596895 AATAAGAGGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 40 0.73
77 15 0.27
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (76 bp):
GCAAAAATTAACAATACAAGTATAATATATTCACCAAAAACCAGACCAAATTGTCAATTTTTATA
ACATTTTAAAT
Found at i:68601122 original size:7 final size:7
Alignment explanation
Indices: 68601112--68601143 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
68601102 ACTAACTATT
68601112 AACCCCA
1 AACCCCA
68601119 AACCCCA
1 AACCCCA
68601126 AACCCCA
1 AACCCCA
68601133 AACCCCA
1 AACCCCA
68601140 AACC
1 AACC
68601144 TCTAATCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:68601247 original size:87 final size:88
Alignment explanation
Indices: 68601127--68601292 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 88
68601117 CAAACCCCAA
* * * *
68601127 ACCCCAAACCCCAAACCTCTAATCCTTAATTAATATAGAAATTAAAA-ATACTAATTAATCTAAA
1 ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAACACACTAATTAATCTAAA
68601191 TCATAAACCCTAACCCTAACCCG
66 TCATAAACCCTAACCCTAACCCG
* * * *
68601214 ACCCCAAATCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAA
1 ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAACACACTAATTAATCTAAA
*
68601279 TCCTAAACCCTAAC
66 TCATAAACCCTAAC
68601293 TTGACACTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
87 40 0.58
88 29 0.42
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.25
Consensus pattern (88 bp):
ACCCCAAACCCCAAACCCCTAAACATTAATTAATATAGAAATTAAAACACACTAATTAATCTAAA
TCATAAACCCTAACCCTAACCCG
Found at i:68601339 original size:14 final size:14
Alignment explanation
Indices: 68601310--68601356 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
68601300 TGAATCTATA
*
68601310 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
68601324 AACTCTTAATCTCT
1 AACCCTTAATCCCT
*
68601338 AACCCTTAACCCCT
1 AACCCTTAATCCCT
68601352 AACCC
1 AACCC
68601357 CTAACGCATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:68601388 original size:14 final size:14
Alignment explanation
Indices: 68601369--68601398 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68601359 AACGCATAAA
68601369 CCTTAAATCACAAT
1 CCTTAAATCACAAT
*
68601383 CCTTAAATCAGAAT
1 CCTTAAATCACAAT
68601397 CC
1 CC
68601399 CTGATCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.30, G:0.03, T:0.27
Consensus pattern (14 bp):
CCTTAAATCACAAT
Found at i:68601513 original size:21 final size:20
Alignment explanation
Indices: 68601478--68601516 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
68601468 CTAAATTAAC
*
68601478 TATATATATACCCTAAACCA
1 TATATATAAACCCTAAACCA
68601498 TATATATTAAACCCTAAAC
1 TATATA-TAAACCCTAAAC
68601517 TATAATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
TATATATAAACCCTAAACCA
Found at i:68601868 original size:41 final size:42
Alignment explanation
Indices: 68601811--68601899 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
68601801 AGTGGCGTTT
*
68601811 ATCTGAGCACTAGCGGCGC-TTTTTTAAAAACGCCGCTAAAG
1 ATCTGAGCACTAGCGGCGCTTTTTTTAAAAACGCCACTAAAG
*
68601852 ATCTGAGCATTAGCGGCGCTTTTTTTAAAAACGCCACTAAAG
1 ATCTGAGCACTAGCGGCGCTTTTTTTAAAAACGCCACTAAAG
68601894 ATCTGA
1 ATCTGA
68601900 AAGGTACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 18 0.40
42 27 0.60
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
ATCTGAGCACTAGCGGCGCTTTTTTTAAAAACGCCACTAAAG
Found at i:68601980 original size:40 final size:40
Alignment explanation
Indices: 68601930--68602065 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
68601920 TCGGCTTAGG
* * *
68601930 TTTTTTGCGGCGTTTTTCCAAAAAATGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTCCAAAAAACGCCGCTAATGCTCGA
* * *
68601970 TTTTTAGCGGCGCTTTCCTAGAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
* * ** *
68602010 TCTTTAGCGGCGTTTTACGTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
*
68602050 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
68602066 TTGTCCAAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 21 0.26
40 59 0.74
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTCGA
Found at i:68605790 original size:21 final size:21
Alignment explanation
Indices: 68605766--68605819 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
68605756 ATTTTACTTC
* *
68605766 TTTTGAATCGATTATTCTTTG
1 TTTTGAATCGATTATTCTCTA
* *
68605787 TTTT-AATTGATTCTTCTCTA
1 TTTTGAATCGATTATTCTCTA
68605807 TTTTGAATCGATT
1 TTTTGAATCGATT
68605820 GTTTATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTGAATCGATTATTCTCTA
Found at i:68613231 original size:3 final size:3
Alignment explanation
Indices: 68613223--68613277 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
68613213 TATGTTATAC
68613223 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68613271 TAT TAT T
1 TAT TAT T
68613278 CCTACTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:68618112 original size:41 final size:40
Alignment explanation
Indices: 68618048--68618193 Score: 127
Period size: 41 Copynumber: 3.6 Consensus size: 40
68618038 TAGACTTATT
** *
68618048 GTCTAGCAGGCTGGATGCTGGTGATATAATTCAGGCTATG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
* * * *
68618088 TGCCTAGCAGGCTTAATGCCGGTGA-ATTAATTCAGACTTTAC
1 -GTCTAGCAGGCTTAATGCCGGTGATA-TAATTCAGGCTAT-G
* * *
68618130 GTCTAGCAGGCTTAATGCTGGTGATACATTTC-GGACTATAG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGG-CTAT-G
68618171 GTCTAGCAGGCTATAA-GCCGGTG
1 GTCTAGCAGGCT-TAATGCCGGTG
68618194 TATCGAATCA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.02
41 79 0.93
42 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
Found at i:68619236 original size:19 final size:18
Alignment explanation
Indices: 68619212--68619257 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
68619202 AACGTCTCTT
*
68619212 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
68619231 TTTGCATTTCATTGCATCA
1 TTTGCA-TTCATTGCATCA
*
68619250 TATGCATT
1 TTTGCATT
68619258 AAACACCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:68621945 original size:48 final size:47
Alignment explanation
Indices: 68621874--68622014 Score: 171
Period size: 45 Copynumber: 3.0 Consensus size: 47
68621864 TAAAAGGTGG
*
68621874 GACCAAGGTGAAAGCCTGA-AAAGGGCGCTTTGAGTCAAAAAAAAAAAA
1 GACCAGGGTGAAAGCCT-ACAAAGGGCGCTTTGAGT-AAAAAAAAAAAA
* * *
68621922 GGCCAGGGTGAAAGCCTACAAAGGGCTCTTTAAGT--AAAAAAAAAA
1 GACCAGGGTGAAAGCCTACAAAGGGCGCTTTGAGTAAAAAAAAAAAA
* * *
68621967 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAGAAAAAA
1 GACCAGGGTGAAAGCCTACAAAGGGCGCTTTGAGTAAAAAA-AAAAAA
68622015 AGAAAAAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
45 39 0.49
47 5 0.06
48 35 0.44
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.13
Consensus pattern (47 bp):
GACCAGGGTGAAAGCCTACAAAGGGCGCTTTGAGTAAAAAAAAAAAA
Found at i:68623441 original size:88 final size:88
Alignment explanation
Indices: 68623279--68623799 Score: 675
Period size: 88 Copynumber: 5.9 Consensus size: 88
68623269 TGAATACAAA
* * * *
68623279 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAGT
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAG-AAGCAGATCTTGTCTTCATGTATT
* *
68623344 GGCGTGAAGTAGATCAAAAATAGC
65 AGCGTGAAGTAGATCAAAGATAGC
* * * * * *
68623368 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTACTA
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGTCTTCATGTATTA
68623433 GCGTGAAGTAGATCAAAGATAGC
66 GCGTGAAGTAGATCAAAGATAGC
* * * * *
68623456 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGTCTTCATGTATTA
* *
68623521 GTGTGAAGTAGATCGAAGATAGC
66 GCGTGAAGTAGATCAAAGATAGC
* * * * * *
68623544 AGATCTTGTCTTCCCATACTGGTGGCGGAGTAGATCGAAGAAAGTAGATATTGTCTTCATGTACT
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAG-AAGCAGATCTTGTCTTCATGTATT
*
68623609 GGCGTGAAGTAGATCAAAGATAGC
65 AGCGTGAAGTAGATCAAAGATAGC
* * * *
68623633 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATA-CAGATCTTGTCTTCATGTATT
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA-AGCAGATCTTGTCTTCATGTATT
*
68623697 AGCGTGAAGTAGATCGAAGATAGC
65 AGCGTGAAGTAGATCAAAGATAGC
* * * *
68623721 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATT
1 AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGA-AGCAGATCTTGTCTTCATGTATT
*
68623786 GGCGTGAAGTAGAT
65 AGCGTGAAGTAGAT
68623800 TGAAGAAAAC
Statistics
Matches: 379, Mismatches: 50, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
88 238 0.63
89 141 0.37
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (88 bp):
AGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGAAGCAGATCTTGTCTTCATGTATTA
GCGTGAAGTAGATCAAAGATAGC
Found at i:68623626 original size:177 final size:177
Alignment explanation
Indices: 68623279--68623799 Score: 765
Period size: 177 Copynumber: 2.9 Consensus size: 177
68623269 TGAATACAAA
* * * * * * * * *
68623279 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAGT
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATT
* * * * * * * * *
68623344 GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-
65 AGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
* *
68623408 ATGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGC
130 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
68623456 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
* *
68623521 GTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGGAGTAGATCGAAGAA
66 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
68623586 AGTAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
131 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
*
68623633 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
*
68623698 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAG
66 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * *
68623763 AGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGAT
131 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGAT
68623800 TGAAGAAAAC
Statistics
Matches: 310, Mismatches: 33, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
176 74 0.24
177 236 0.76
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (177 bp):
AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
Found at i:68623759 original size:265 final size:266
Alignment explanation
Indices: 68623279--68623866 Score: 885
Period size: 265 Copynumber: 2.2 Consensus size: 266
68623269 TGAATACAAA
* *
68623279 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAGT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATATTGTCTTCATGTACT
68623344 GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
* *
68623409 TGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATA
131 TACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCATA
* * * * * * *
68623474 TTGGTAGTGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCATGTATTAGTGTGAAGTAGATCGAA
196 CTGGTAGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATTAGCGTGAAGTAGATCGAA
* *
68623538 GATAGC
261 GAAAAC
*
68623544 AGATCTTGTCTTCCCATACTGGTGGCGGAGTAGATCGAAGAAAGTAGATATTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATATTGTCTTCATGTACT
*
68623609 GGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
66 GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
* * *
68623674 TACAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
131 TACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCATA
* * *
68623739 CTGGTGGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATTGAA
196 CTGGTAGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATTAGCGTGAAGTAGATCGAA
68623804 GAAAAC
261 GAAAAC
* *** * * * *
68623810 AGATCTTCTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATATTGTCTTC
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGTAGATATTGTCTTC
68623867 CCATACTGGT
Statistics
Matches: 291, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
265 232 0.80
266 59 0.20
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (266 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATATTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
TACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCCATA
CTGGTAGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATTAGCGTGAAGTAGATCGAA
GAAAAC
Found at i:68623865 original size:177 final size:176
Alignment explanation
Indices: 68623279--68623866 Score: 764
Period size: 177 Copynumber: 3.3 Consensus size: 176
68623269 TGAATACAAA
* * * * * * * *
68623279 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAGT
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA-CAGATCTTGTCTTCATGTATT
* * * * * * * * *
68623344 GGCGTGAAGTAGATCAAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGA
65 AGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
* *
68623409 TGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGC
130 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
* *
68623456 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATACAGATCTTGTCTTCATGTATTA
* *
68623521 GTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGGAGTAGATCGAAGAA
66 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-A
* *
68623586 AGTAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
130 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
*
68623633 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATACAGATCTTGTCTTCATGTATTA
68623698 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAG
66 GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-
* * * ** * *
68623763 AGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAAC
130 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
* * * * * * * *
68623810 AGATCTTCTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACAGATATTGTCTTC
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT-ACAGATCTTGTCTTC
68623867 CCATACTGGT
Statistics
Matches: 362, Mismatches: 46, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
176 89 0.25
177 273 0.75
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (176 bp):
AGATCCTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATACAGATCTTGTCTTCATGTATTA
GCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
GCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
Found at i:68623930 original size:177 final size:175
Alignment explanation
Indices: 68623279--68623936 Score: 685
Period size: 177 Copynumber: 3.7 Consensus size: 175
68623269 TGAATACAAA
* * * * * * * * *
68623279 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTAGT
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATA-CAGATCTTGTCTTCATGTATT
* * * * * *
68623344 GGCGTGAAGTAGATC-AAAAATAGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG
65 GGTG-GAAGTAGATCGAAGAA-AGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAG
* *
68623408 ATGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGC
128 AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
* *
68623456 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATTG
* ** * * * *
68623521 GTGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGGAGTAGATCGAAGAA
66 GTG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAG-A
* *
68623586 AGTAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
129 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
68623633 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATTA
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATT-
* ** * * *
68623698 GCGT-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
65 G-GTGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGA
* * * ** * *
68623762 GAGCAAATCTTATCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAAC
129 -AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
* * * * * * * * * *** *
68623810 AGATCTTCTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACAGATATTGTCTTCCCATACT
1 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGAT-ACAGATCTTGTCTTCATGTATT
* *
68623874 GGTGGCAAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAA
65 GGTGG--AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAA
68623937 TATCGCAGAT
Statistics
Matches: 414, Mismatches: 58, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
175 2 0.00
176 87 0.21
177 289 0.70
178 34 0.08
179 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (175 bp):
AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCATGTATTG
GTGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATCGAAGAAG
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
Found at i:68623978 original size:133 final size:133
Alignment explanation
Indices: 68623392--68623936 Score: 377
Period size: 133 Copynumber: 4.1 Consensus size: 133
68623382 TATATTGGTA
* ** * * * ** * *
68623392 GTGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAGC
1 GTGAAGTAGATCGAAGAAAACAGATCTTCTCTTCATGAACTGGCAAGAAGCAGATCAAAGATAAC
** * * * ** * * * *
68623456 AGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATT
66 AGATATTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAAATCTTATCTTCATGTATT
* *
68623520 AGT
131 GGC
* * * *** * * *
68623523 GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT--ACTGGTGGCGGAGTAGATCGAAGA-
1 GTGAAGTAGATCGAAGAAAACAGATCTTCTCTT--CATGAACTGG-CAAGAAGCAGATCAAAGAT
* *** * * * * * * *
68623585 AAGTAGATATTGTCTTCATGTACTGGCGTG--AAGTAGATCAAAGATAGCAGATCCTGTCTTCCT
63 AA-CAGATATTGTCTTCCCATACTGGTG-GCAAAGTAGATCGAAGAAAGCAAATCTTATCTTCAT
* *
68623648 ATATTGGTA
126 GTATTGG-C
* * * * * * ** * * *
68623657 GTGAAGTGGATCGAAG-ATACAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGC
1 GTGAAGTAGATCGAAGAAAACAGATCTTCTCTTCATGAACTGGCAAGAAGCAGATCAAAGATAAC
* * *
68623721 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAGAGCAAATCTTATCTTCATGTATT
66 AGATATTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAAATCTTATCTTCATGTATT
68623786 GGC
131 GGC
* * ** *
68623789 GTGAAGTAGATTGAAGAAAACAGATCTTCTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC
1 GTGAAGTAGATCGAAGAAAACAGATCTTCTCTTCATGAACTGGCAAGAAGCAGATCAAAGATAAC
** *
68623854 AGATATTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGGTCTTGTCTTCATGTATT
66 AGATATTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAAATCTTATCTTCATGTATT
68623919 GGC
131 GGC
68623922 GTGAAGTAGATCGAA
1 GTGAAGTAGATCGAA
68623937 TATCGCAGAT
Statistics
Matches: 335, Mismatches: 65, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
131 19 0.06
132 78 0.23
133 219 0.65
134 19 0.06
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (133 bp):
GTGAAGTAGATCGAAGAAAACAGATCTTCTCTTCATGAACTGGCAAGAAGCAGATCAAAGATAAC
AGATATTGTCTTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAAATCTTATCTTCATGTATT
GGC
Found at i:68625601 original size:3 final size:3
Alignment explanation
Indices: 68625593--68625627 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
68625583 ACTATGACTT
68625593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68625628 CCTACTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:68636646 original size:91 final size:90
Alignment explanation
Indices: 68636476--68636647 Score: 213
Period size: 91 Copynumber: 1.9 Consensus size: 90
68636466 GTTGTAGATG
* *
68636476 AACCACCAAATGTTGCAAGTTAATAGATACCAGACGGTTGTGAATACACAACATAATTGCAGATA
1 AACCACCAAATGTTACAAGTTAATAGATACCAGACGGTTGTGAATACACAACATAATTGAAGATA
*
68636541 AAAGCTCTATGATAATGGGTGGGCA
66 AAAGCTCCATGATAATGGGTGGGCA
* * * * ** *
68636566 AACCACC-AATGGTTACAAGTTAATACGCTGCCAGATGGTTGTGAATATACAACATTTTTTAAGA
1 AACCACCAAAT-GTTACAAGTTAATA-GATACCAGACGGTTGTGAATACACAACATAATTGAAGA
68636630 TAAAAGCTGCCA-GATAAT
64 TAAAAGCT-CCATGATAAT
68636648 ATGTAGATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
89 3 0.04
90 20 0.29
91 44 0.64
92 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (90 bp):
AACCACCAAATGTTACAAGTTAATAGATACCAGACGGTTGTGAATACACAACATAATTGAAGATA
AAAGCTCCATGATAATGGGTGGGCA
Found at i:68650732 original size:345 final size:345
Alignment explanation
Indices: 68650307--68650933 Score: 952
Period size: 345 Copynumber: 1.8 Consensus size: 345
68650297 TGGAAATCCC
* * *
68650307 TTTGCAAACACATATTTCAATCGTTGGCAACGCACTATCTGAAGAGTTTTCAATTTTGGCCAGCA
1 TTTGCAAACACATATTTCAATAGTTGGCAACGCACTATCCGAAGAGTTCTCAATTTTGGCCAGCA
* * * **
68650372 ATGATTCTGCATGAATGAATCACATATTTAGATATTATACCAAATATATTTGTTTAAATAAAATT
66 ATGATTCTACATGAATGAACCACATATTTAGATATTATACAAAATATATTTGTTTAAATAAAAGG
* * * * *
68650437 GAGGAATATCATTTGTAAAACGTAGTTGAAGTTTTAAAGAATTTCTTTATCAAAACATATGAATA
131 GAGGAATATCATTTATAAAACATAATTGAAGTTTTAAAGAATTTCTTTACCAAAACATATGAAAA
* *
68650502 AGAAATAAATTGATCTTCCAACGTATCAGTTATAAAGAAATGTATTTATCATATTTCGCAACTGT
196 AGAAATAAATTGATCTTCCAACGTACCAATTATAAAGAAATGTATTTATCATATTTCGCAACTGT
*
68650567 GATA-CTCCAACCACTTTAAAATAGTAGTTGAGGGCAGTTCTTTAGGTGAAGAGATTCCAACAAT
261 GATACCT-CAACCACTTCAAAATAGTAGTTGAGGGCAGTTCTTTAGGTGAAGAGATTCCAACAAT
68650631 GGAAATCCCTGAGATAAAGTG
325 GGAAATCCCTGAGATAAAGTG
* * *
68650652 TTTGCAAACACATATTTCAATAGTTGGCAATC-CACTATCCGGAGAGTTCTCAGTTTTGTCCAGC
1 TTTGCAAACACATATTTCAATAGTTGGCAA-CGCACTATCCGAAGAGTTCTCAATTTTGGCCAGC
68650716 AATGATTCTACATGAATGAACCACATATTTAGATATTATACAAAATATATTTGTTTAAATAAAAG
65 AATGATTCTACATGAATGAACCACATATTTAGATATTATACAAAATATATTTGTTTAAATAAAAG
* * *
68650781 GGAGGAATATGATTTATTAAACATAATTTAAGTTTTAAAGAATTTCTTTACCAAAACATATGAAA
130 GGAGGAATATCATTTATAAAACATAATTGAAGTTTTAAAGAATTTCTTTACCAAAACATATGAAA
* ** * * * * *
68650846 AAGATATAAATTGATCTTTGAATGTACCAATTATAAAGAGATGTATTTATTATATTTTGGAACTG
195 AAGAAATAAATTGATCTTCCAACGTACCAATTATAAAGAAATGTATTTATCATATTTCGCAACTG
68650911 TGATACCTCAACCACTTCAAAAT
260 TGATACCTCAACCACTTCAAAAT
68650934 CATTAATCAT
Statistics
Matches: 250, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
345 247 0.99
346 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (345 bp):
TTTGCAAACACATATTTCAATAGTTGGCAACGCACTATCCGAAGAGTTCTCAATTTTGGCCAGCA
ATGATTCTACATGAATGAACCACATATTTAGATATTATACAAAATATATTTGTTTAAATAAAAGG
GAGGAATATCATTTATAAAACATAATTGAAGTTTTAAAGAATTTCTTTACCAAAACATATGAAAA
AGAAATAAATTGATCTTCCAACGTACCAATTATAAAGAAATGTATTTATCATATTTCGCAACTGT
GATACCTCAACCACTTCAAAATAGTAGTTGAGGGCAGTTCTTTAGGTGAAGAGATTCCAACAATG
GAAATCCCTGAGATAAAGTG
Found at i:68654827 original size:2 final size:2
Alignment explanation
Indices: 68654820--68654870 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
68654810 TTGAATATTT
* * *
68654820 TA TA TA TA T- TT TA TA TA TT TA CTT TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
68654861 TA TA TA TA TA
1 TA TA TA TA TA
68654871 ACTTAATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:68655049 original size:27 final size:25
Alignment explanation
Indices: 68654998--68655061 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
68654988 TTATAAAAAT
*
68654998 ATTCAAAAAA-AT-AAAAAATTGAA
1 ATTCAAAAAATATAAAAAAATTAAA
68655021 ATTCAAAAAATATAAAAAAATCATAAA
1 ATTCAAAAAATATAAAAAAAT--TAAA
68655048 ATT-AATAAAATATA
1 ATTCAA-AAAATATA
68655062 GCATGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 10 0.29
24 2 0.06
25 7 0.20
26 2 0.06
27 14 0.40
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (25 bp):
ATTCAAAAAATATAAAAAAATTAAA
Found at i:68662557 original size:24 final size:24
Alignment explanation
Indices: 68662526--68662577 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
68662516 AATTTTATAA
68662526 AAAAGTCATTTTACCCTTCCATTT
1 AAAAGTCATTTTACCCTTCCATTT
*
68662550 AAAAGTCATTTTACCCTTCTATTT
1 AAAAGTCATTTTACCCTTCCATTT
68662574 AAAA
1 AAAA
68662578 TTTCACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAGTCATTTTACCCTTCCATTT
Found at i:68662719 original size:2 final size:2
Alignment explanation
Indices: 68662712--68662741 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68662702 ATTATCCATA
68662712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68662742 TAAAACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68662857 original size:2 final size:2
Alignment explanation
Indices: 68662850--68662900 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
68662840 TTGAATATTT
* * *
68662850 TA TA TA TA TA T- TT TA TA TT TA CTT TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
68662891 TA TA TA TA TA
1 TA TA TA TA TA
68662901 AAACACTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:68666169 original size:51 final size:51
Alignment explanation
Indices: 68666093--68666196 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
68666083 AAATTTTGAT
*
68666093 TTAACTAGTTCAAGTTATTTGAGTTAATTAAGTTATTCGGATAAACTCGAA
1 TTAACTAGTTCAAGTTATTTGAGTTAATTAAGTTATTCGGATAAACTCAAA
* *
68666144 TTAACTAGTTCGAGTTATTTGAGTTAATTAAGTTATTTGGATAAACTCAAA
1 TTAACTAGTTCAAGTTATTTGAGTTAATTAAGTTATTCGGATAAACTCAAA
68666195 TT
1 TT
68666197 GACTCGAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (51 bp):
TTAACTAGTTCAAGTTATTTGAGTTAATTAAGTTATTCGGATAAACTCAAA
Found at i:68667114 original size:44 final size:44
Alignment explanation
Indices: 68667036--68667149 Score: 174
Period size: 44 Copynumber: 2.6 Consensus size: 44
68667026 TTTTTTGGTG
* * *
68667036 ATGATCACAGACACAGATTTCAGAATATGTAAGCAAAAAAGGAA
1 ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
*
68667080 ATGACCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
1 ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
* *
68667124 ATGATCAGAAACACAGATTCGAGAAT
1 ATGATCACAAACACAGATTTGAGAAT
68667150 TAGAAAGCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (44 bp):
ATGATCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
Found at i:68667163 original size:44 final size:44
Alignment explanation
Indices: 68667036--68667163 Score: 161
Period size: 44 Copynumber: 2.9 Consensus size: 44
68667026 TTTTTTGGTG
* *
68667036 ATGATCACAGACACAGATTTC-AGAATATGTAAGCAAAAAAGGAA
1 ATGATCACAAACACAGA-TTCGAGAATATGAAAGCAAAAAAGGAA
* * *
68667080 ATGACCACAAACACAGATTTGAGAATATGGAAGCAAAAAAGGAA
1 ATGATCACAAACACAGATTCGAGAATATGAAAGCAAAAAAGGAA
* *
68667124 ATGATCAGAAACACAGATTCGAGAAT-TAGAAAGCCAAAAA
1 ATGATCACAAACACAGATTCGAGAATAT-GAAAGCAAAAAA
68667164 CAAAGAGTGG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.04
44 70 0.96
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.16
Consensus pattern (44 bp):
ATGATCACAAACACAGATTCGAGAATATGAAAGCAAAAAAGGAA
Found at i:68669226 original size:95 final size:91
Alignment explanation
Indices: 68668992--68669325 Score: 309
Period size: 95 Copynumber: 3.6 Consensus size: 91
68668982 ACGCGGTCAC
*
68668992 CTTTTTATTATTTTTATGATGAATAATTAATTATCAAGAGTCTTCACCACTTTCGCC-TGGGACA
1 CTTTCTATTATTTTTATGATGAATAATTAATTATCAAGA-TCTTCACCACTTTCGCCATGGGACA
* * *
68669056 GGCATCGTTGATGAATTATTGATGCTGCTA
65 GGCATTGTTGATGAATTATT-ACG-TG-TT
* * * *
68669086 CTTGT-TACTATTTTTATGATGAATAATTAAGTA-CGAAGGGTCTTCACCACTTTTGCCAGTGGG
1 CTT-TCTATTATTTTTATGATGAATAATTAATTATC-AA-GATCTTCACCACTTTCGCCA-TGGG
* * *
68669149 AAAGGTATTGTTGATGAATTCTTCACGTTGTT
62 ACAGGCATTGTTGATGAATTATT-ACG-TGTT
* * * * *
68669181 GTTTCTATTATTTTTATGATGATTAATAAATTATCAAGATCCTTCACCAGTTTCGCCACTGCGAC
1 CTTTCTATTATTTTTATGATGAATAATTAATTATCAAGAT-CTTCACCACTTTCGCCA-TGGGAC
*
68669246 AGGCATTGTTGACGAATTATT-C-TGTT
64 AGGCATTGTTGATGAATTATTACGTGTT
* * ** *
68669272 ACTTTCTATTATTTTTATGAAGAATCATTACGTATGAAGAGTCTTCACCACTTT
1 -CTTTCTATTATTTTTATGATGAATAATTAATTATCAAGA-TCTTCACCACTTT
68669326 TGGTAGTGAG
Statistics
Matches: 195, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
91 4 0.02
92 42 0.22
93 3 0.02
94 50 0.26
95 68 0.35
96 28 0.14
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (91 bp):
CTTTCTATTATTTTTATGATGAATAATTAATTATCAAGATCTTCACCACTTTCGCCATGGGACAG
GCATTGTTGATGAATTATTACGTGTT
Found at i:68669353 original size:189 final size:188
Alignment explanation
Indices: 68668997--68669398 Score: 472
Period size: 189 Copynumber: 2.1 Consensus size: 188
68668987 GTCACCTTTT
* *
68668997 TATTATTTTTATGATGAATAATTAATTATCAAGAGTCTTCACCACTTTCGCCTGGGACAGGCATC
1 TATTATTTTTATGATGAATAATAAATTATCAAGAGTCTTCACCACTTTCGCCTGCGACAGGCATC
* * *
68669062 GTTGATGAATTATTGATGCTGCTACTTGTTACTATTTTTATGATGAATAATTAAGTACGAAGGGT
66 GTTGACGAATTATT-ATGCTGCTACTTGTTACTATTTTTATGAAGAATAATTAAGTACGAAGAGT
* * *
68669127 CTTCACCACTTTTGCCAGTGGGAAAGGTATTGTTGATGAATTCTTCACGTTGTTGTTTC
130 CTTCACCACTTTTGCCAGTGAGAAAGGCATCGTTGATGAATTCTTCACGTTGTTGTTTC
* *
68669186 TATTATTTTTATGATGATTAATAAATTATCAAGA-TCCTTCACCAGTTTCGCCACTGCGACAGGC
1 TATTATTTTTATGATGAATAATAAATTATCAAGAGT-CTTCACCACTTTCG-C-CTGCGACAGGC
* * * * * *
68669250 ATTGTTGACGAATTA-T-T-CTGTTACTT-TCTATTATTTTTATGAAGAATCATTACGTATGAAG
63 ATCGTTGACGAATTATTATGCTGCTACTTGT-TACTATTTTTATGAAGAATAATTAAGTACGAAG
** * * * * *
68669311 AGTCTTCACCACTTTTGGTAGTGAGACACAGGCATCGTTGATGATTTCTTCACGCTCTTACTTTT
127 AGTCTTCACCACTTTTGCCAGTGAGA-A-AGGCATCGTTGATGAATTCTTCACGTTGTT-GTTTC
*
68669376 TCATTAGTTTTATGATGAATAAT
1 T-ATTATTTTTATGATGAATAAT
68669399 TACGGATGAT
Statistics
Matches: 180, Mismatches: 25, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
186 1 0.01
187 58 0.32
188 3 0.02
189 70 0.39
190 6 0.03
191 42 0.23
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (188 bp):
TATTATTTTTATGATGAATAATAAATTATCAAGAGTCTTCACCACTTTCGCCTGCGACAGGCATC
GTTGACGAATTATTATGCTGCTACTTGTTACTATTTTTATGAAGAATAATTAAGTACGAAGAGTC
TTCACCACTTTTGCCAGTGAGAAAGGCATCGTTGATGAATTCTTCACGTTGTTGTTTC
Found at i:68675238 original size:15 final size:15
Alignment explanation
Indices: 68675220--68675255 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
68675210 GAAAAAAATG
68675220 AAAATACTATTATTT
1 AAAATACTATTATTT
68675235 AAAATACTATTATTT
1 AAAATACTATTATTT
68675250 AAAATA
1 AAAATA
68675256 ATTTTATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATACTATTATTT
Found at i:68675262 original size:15 final size:15
Alignment explanation
Indices: 68675220--68675262 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
68675210 GAAAAAAATG
*
68675220 AAAATACTATTATTT
1 AAAATAATATTATTT
*
68675235 AAAATACTATTATTT
1 AAAATAATATTATTT
*
68675250 AAAATAATTTTAT
1 AAAATAATATTAT
68675263 CTGCTGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATAATATTATTT
Found at i:68681317 original size:9 final size:9
Alignment explanation
Indices: 68681303--68681328 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68681293 AAGAAAGAGT
68681303 AAGAAATGA
1 AAGAAATGA
68681312 AAGAAATGA
1 AAGAAATGA
68681321 AAGAAATG
1 AAGAAATG
68681329 TGTGTGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (9 bp):
AAGAAATGA
Found at i:68685408 original size:24 final size:24
Alignment explanation
Indices: 68685380--68685429 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
68685370 ATTTTATAAG
68685380 AAAGTCATTTTACCCTTATATTTA
1 AAAGTCATTTTACCCTTATATTTA
*
68685404 AAAGTCATTTTACCCTTCTATTTA
1 AAAGTCATTTTACCCTTATATTTA
68685428 AA
1 AA
68685430 TTTTAACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (24 bp):
AAAGTCATTTTACCCTTATATTTA
Found at i:68685702 original size:12 final size:12
Alignment explanation
Indices: 68685685--68685732 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
68685675 TTATTTAATA
68685685 TTATATATATTT
1 TTATATATATTT
*
68685697 TTATATTTACTTT
1 TTATATATA-TTT
* *
68685710 AATATATATATAT
1 -TTATATATATTT
68685723 TTATATATAT
1 TTATATATAT
68685733 ATATGTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 17 0.59
13 5 0.17
14 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATATATTT
Found at i:68685705 original size:28 final size:28
Alignment explanation
Indices: 68685674--68685730 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
68685664 TTAATTAATT
*
68685674 TTTA-TTTAATATTATATATATTTTTATA
1 TTTACTTTAATA-TATATATATTTATATA
68685702 TTTACTTTAATATATATATATTTATATA
1 TTTACTTTAATATATATATATTTATATA
68685730 T
1 T
68685731 ATATATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTACTTTAATATATATATATTTATATA
Found at i:68685714 original size:22 final size:22
Alignment explanation
Indices: 68685664--68685716 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
68685654 TTAAACTTCC
*
68685664 TTAAT-TAATTTTTATTTAATA
1 TTAATATATTTTTTATTTAATA
*
68685685 TTATATATATTTTTATATTTACT-
1 TTA-ATATATTTTT-TATTTAATA
68685708 TTAATATAT
1 TTAATATAT
68685717 ATATATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
23 9 0.33
24 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAATATATTTTTTATTTAATA
Found at i:68685718 original size:2 final size:2
Alignment explanation
Indices: 68685711--68685751 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
68685701 ATTTACTTTA
* * *
68685711 AT AT AT AT AT AT TT AT AT AT AT AT AT GT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68685752 ACACTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:68685728 original size:14 final size:14
Alignment explanation
Indices: 68685676--68685750 Score: 73
Period size: 14 Copynumber: 5.2 Consensus size: 14
68685666 AATTAATTTT
68685676 TATTTAATATTATATA
1 TATTT-ATA-TATATA
*
68685692 TATTT-T-TATATT
1 TATTTATATATATA
68685704 TACTTTAATATATATA
1 TA-TTT-ATATATATA
68685720 TATTTATATATATA
1 TATTTATATATATA
* *
68685734 TATGTATATACATA
1 TATTTATATATATA
68685748 TAT
1 TAT
68685751 AACACTTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
12 7 0.14
13 3 0.06
14 25 0.49
15 4 0.08
16 12 0.24
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:68685906 original size:24 final size:25
Alignment explanation
Indices: 68685870--68685930 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
68685860 TTATAAAAAT
*
68685870 ATTC-AAAAAATAAAAAAAT-TGAA
1 ATTCAAAAAAATAAAAAAATATAAA
68685893 ATTCAAAAAAATAAAAAAATCATAAA
1 ATTCAAAAAAATAAAAAAAT-ATAAA
68685919 ATT-AAAAAAATA
1 ATTCAAAAAAATA
68685931 TAGCATGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.12
24 15 0.44
25 9 0.26
26 6 0.18
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (25 bp):
ATTCAAAAAAATAAAAAAATATAAA
Found at i:68693501 original size:32 final size:32
Alignment explanation
Indices: 68693431--68693502 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
68693421 AAAACTTTCC
*
68693431 ATATTTTTTTTGTTATTTCTTAAAATTTTTTT
1 ATATTTTTTTTGTTATTTCTTAAAATTCTTTT
* * *
68693463 AAATTTTTTTT-TTGATTTTTTGAAATTCTTTT
1 ATATTTTTTTTGTT-ATTTCTTAAAATTCTTTT
*
68693495 GTATTTTT
1 ATATTTTT
68693503 ATCTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (32 bp):
ATATTTTTTTTGTTATTTCTTAAAATTCTTTT
Found at i:68695347 original size:8 final size:8
Alignment explanation
Indices: 68695334--68695362 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
68695324 GGCTCTTTAG
68695334 AAAATTTT
1 AAAATTTT
68695342 AAAATTTT
1 AAAATTTT
68695350 AAAATTTT
1 AAAATTTT
68695358 AAAAT
1 AAAAT
68695363 AATAAAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:68695368 original size:16 final size:16
Alignment explanation
Indices: 68695334--68695368 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
68695324 GGCTCTTTAG
**
68695334 AAAATTTTAAAATTTT
1 AAAATTTTAAAATAAT
68695350 AAAATTTTAAAATAAT
1 AAAATTTTAAAATAAT
68695366 AAA
1 AAA
68695369 GGTAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTTTAAAATAAT
Found at i:68697479 original size:15 final size:15
Alignment explanation
Indices: 68697455--68697484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68697445 TTAATAATAA
*
68697455 ATTTAGACATTTAAT
1 ATTTACACATTTAAT
68697470 ATTTACACATTTAAT
1 ATTTACACATTTAAT
68697485 CAATTTGATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTTACACATTTAAT
Found at i:68697576 original size:16 final size:18
Alignment explanation
Indices: 68697555--68697595 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
68697545 AATCTTAATT
68697555 ATAAAAAGT-AT-AAAAA
1 ATAAAAAGTCATAAAAAA
*
68697571 ATAAAAA-TCTTAAAAAA
1 ATAAAAAGTCATAAAAAA
68697588 ATAAAAAG
1 ATAAAAAG
68697596 AAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 8 0.38
17 12 0.57
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAAAAGTCATAAAAAA
Found at i:68699823 original size:15 final size:15
Alignment explanation
Indices: 68699805--68699842 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
68699795 AATGAAAAAA
*
68699805 TTAAATTACTATTAT
1 TTAAAATACTATTAT
*
68699820 TTAAAATACTGTTAT
1 TTAAAATACTATTAT
68699835 TTAAAATA
1 TTAAAATA
68699843 ATTTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATACTATTAT
Found at i:68699849 original size:15 final size:15
Alignment explanation
Indices: 68699816--68699851 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
68699806 TAAATTACTA
*
68699816 TTATTTAAAATACTG
1 TTATTTAAAATAATG
*
68699831 TTATTTAAAATAATT
1 TTATTTAAAATAATG
68699846 TTATTT
1 TTATTT
68699852 GCTCTAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
TTATTTAAAATAATG
Found at i:68704814 original size:87 final size:87
Alignment explanation
Indices: 68704665--68704840 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
68704655 AAGAGTGGAA
* *
68704665 ATATGCAAAGAGTGAATTGTGAGTGTATAACTATTGGTAACTAGAAATTGAGAGAGGGGAAACTA
1 ATATGCAAAGAGTGAATTGTGAGTGTATAACTAGTGGTAACTAGAAATTGAGAGAGGAGAAACTA
68704730 TATTTATATTTTGTGTAAGTGT
66 TATTTATATTTTGTGTAAGTGT
68704752 ATATGCAAAGAGTGAATTGTGAGTGTATAACTAGTGGTAACTAGAAATTGAGAGAGGAGAAACTA
1 ATATGCAAAGAGTGAATTGTGAGTGTATAACTAGTGGTAACTAGAAATTGAGAGAGGAGAAACTA
68704817 TATTTATATTTTGTGTAAGTGT
66 TATTTATATTTTGTGTAAGTGT
68704839 AT
1 AT
68704841 TTGTTTTGAG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (87 bp):
ATATGCAAAGAGTGAATTGTGAGTGTATAACTAGTGGTAACTAGAAATTGAGAGAGGAGAAACTA
TATTTATATTTTGTGTAAGTGT
Found at i:68709877 original size:13 final size:13
Alignment explanation
Indices: 68709861--68709886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68709851 CTTTGCATAT
68709861 TGTCTTCAACAGG
1 TGTCTTCAACAGG
68709874 TGTCTTCAACAGG
1 TGTCTTCAACAGG
68709887 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:68712060 original size:11 final size:10
Alignment explanation
Indices: 68712044--68712076 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
68712034 AACAATAAAC
68712044 AAATTATTTAA
1 AAATTA-TTAA
68712055 AAATTATT-A
1 AAATTATTAA
68712064 AAATTATTAA
1 AAATTATTAA
68712074 AAA
1 AAA
68712077 AAAGTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 6 0.29
11 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAATTATTAA
Found at i:68714995 original size:14 final size:16
Alignment explanation
Indices: 68714978--68715020 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
68714968 AGAAAATAGG
68714978 AGAAAGA-AAGAG-GA
1 AGAAAGAGAAGAGAGA
68714992 AGAAAGAGCAAGAGAGA
1 AGAAAGAG-AAGAGAGA
68715009 AGAAAGAGAAGA
1 AGAAAGAGAAGA
68715021 TTTTGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.27
16 9 0.35
17 10 0.38
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (16 bp):
AGAAAGAGAAGAGAGA
Found at i:68715680 original size:17 final size:16
Alignment explanation
Indices: 68715658--68716202 Score: 320
Period size: 18 Copynumber: 30.6 Consensus size: 16
68715648 TTTTTTAAAA
68715658 AAACACGAAAGTTTTTG
1 AAACACGAAA-TTTTTG
68715675 AAACACGAGAA-TTTTG
1 AAACACGA-AATTTTTG
* * *
68715691 AAGCACTAAATTTTTAAAAAAA
1 AAACACGAAATTTTT------G
68715713 AAACACGAAAGTTTTTG
1 AAACACGAAA-TTTTTG
68715730 AAACACGAGAATTTTTG
1 AAACACGA-AATTTTTG
68715747 AAAACACGAAAAATTTTTG
1 -AAACACG--AAATTTTTG
68715766 AAAACACGAAAATTTTTG
1 -AAACACG-AAATTTTTG
*
68715784 AAACACCGGAATTTTTG
1 AAACA-CGAAATTTTTG
*
68715801 AAAACACGAGGATTTTTG
1 -AAACACGA-AATTTTTG
*
68715819 AAACACAAAAATTTTTG
1 AAACAC-GAAATTTTTG
*
68715836 AAAACACAAAAATATTTT-
1 -AAACAC-GAAAT-TTTTG
*
68715854 AGAACACTGAAATTTTTA
1 A-AACAC-GAAATTTTTG
*
68715872 AAACATGGAAATTTTTTG
1 AAACA-CGAAA-TTTTTG
*
68715890 AAAACATGAAAATTTTTG
1 -AAACACG-AAATTTTTG
*
68715908 AAAACACAGAAATTTTTA
1 -AAACAC-GAAATTTTTG
*
68715926 AAACACGGGAATTTTTTG
1 AAACAC--GAAATTTTTG
*
68715944 AAAACATGAAAATTTTTG
1 -AAACACG-AAATTTTTG
68715962 AAACACGGAAATTTTTAG
1 AAACAC-GAAATTTTT-G
68715980 AAAACACGAAAATTTTTTG
1 -AAACACG-AAA-TTTTTG
* *
68715999 AATCACCGGAATTTTTGG
1 AAACA-CGAAATTTTT-G
68716017 AAACACGAAATTTTTTG
1 AAACACGAAA-TTTTTG
* *
68716034 GAACACCGGAATTTTTG
1 AAACA-CGAAATTTTTG
*
68716051 AAAACACGAGGATTTTTG
1 -AAACACGA-AATTTTTG
68716069 AAACACGAAAATTTTTG
1 AAACACG-AAATTTTTG
* *
68716086 AAAACACAAAAATTTTTA
1 -AAACAC-GAAATTTTTG
* *
68716104 AAACATGGGAATTTTTG
1 AAACA-CGAAATTTTTG
*
68716121 AAAACATGAAAATTTTTG
1 -AAACACG-AAATTTTTG
*
68716139 AAACACCGGAATTTTTG
1 AAACA-CGAAATTTTTG
*
68716156 AAAACACGAAGATTATTG
1 -AAACACGAA-ATTTTTG
* *
68716174 AAACAAGGGAATTTTTTG
1 AAAC-A-CGAAATTTTTG
68716192 AAAACACGAAA
1 -AAACACGAAA
68716203 AATTTGAAAA
Statistics
Matches: 425, Mismatches: 51, Indels: 104
0.73 0.09 0.18
Matches are distributed among these distances:
15 2 0.00
16 15 0.04
17 155 0.36
18 181 0.43
19 53 0.12
20 6 0.01
22 8 0.02
23 5 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (16 bp):
AAACACGAAATTTTTG
Found at i:68715738 original size:55 final size:53
Alignment explanation
Indices: 68715616--68715744 Score: 204
Period size: 55 Copynumber: 2.4 Consensus size: 53
68715606 GAGACTTTTA
* * **
68715616 TTTTTAAAACACGAGAATTTTGAAGCACGAATTTTTTTAAAAAAACACGAAAG
1 TTTTTGAAACACGAGAATTTTGAAGCACAAATTTTTAAAAAAAAACACGAAAG
68715669 TTTTTGAAACACGAGAATTTTGAAGCACTAAATTTTTAAAAAAAAAACACGAAAG
1 TTTTTGAAACACGAGAATTTTGAAGCAC-AAATTTTT-AAAAAAAAACACGAAAG
68715724 TTTTTGAAACACGAGAATTTT
1 TTTTTGAAACACGAGAATTTT
68715745 TGAAAACACG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 27 0.39
54 7 0.10
55 36 0.51
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (53 bp):
TTTTTGAAACACGAGAATTTTGAAGCACAAATTTTTAAAAAAAAACACGAAAG
Found at i:68715751 original size:18 final size:18
Alignment explanation
Indices: 68715712--68716200 Score: 387
Period size: 18 Copynumber: 27.5 Consensus size: 18
68715702 TTTTAAAAAA
68715712 AAAACACGA-AAGTTTTTG
1 AAAACACGAGAA-TTTTTG
68715730 -AAACACGAGAATTTTTG
1 AAAACACGAGAATTTTTG
*
68715747 AAAACACGAAAAATTTTTG
1 AAAACACG-AGAATTTTTG
*
68715766 AAAACACGAAAATTTTTG
1 AAAACACGAGAATTTTTG
68715784 -AAACACCG-GAATTTTTG
1 AAAACA-CGAGAATTTTTG
*
68715801 AAAACACGAGGATTTTTG
1 AAAACACGAGAATTTTTG
* *
68715819 -AAACACAAAAATTTTTG
1 AAAACACGAGAATTTTTG
* *
68715836 AAAACACAAAAATATTTT-
1 AAAACACGAGAAT-TTTTG
*
68715854 AGAACACTGA-AATTTTT-
1 AAAACAC-GAGAATTTTTG
*
68715871 AAAACATG-GAAATTTTTTG
1 AAAACACGAG-AA-TTTTTG
* *
68715890 AAAACATGAAAATTTTTG
1 AAAACACGAGAATTTTTG
68715908 AAAACAC-AGAAATTTTT-
1 AAAACACGAG-AATTTTTG
*
68715925 AAAACACGGGAATTTTTTG
1 AAAACACGAGAA-TTTTTG
* *
68715944 AAAACATGAAAATTTTTG
1 AAAACACGAGAATTTTTG
68715962 -AAACACG-GAAATTTTTAG
1 AAAACACGAG-AATTTTT-G
*
68715980 AAAACACGAAAATTTTTTG
1 AAAACACGAGAA-TTTTTG
*
68715999 -AATCACCG-GAATTTTTG
1 AAAACA-CGAGAATTTTTG
*
68716016 GAAACACGA-AATTTTTTG
1 AAAACACGAGAA-TTTTTG
*
68716034 -GAACACCG-GAATTTTTG
1 AAAACA-CGAGAATTTTTG
*
68716051 AAAACACGAGGATTTTTG
1 AAAACACGAGAATTTTTG
*
68716069 -AAACACGAAAATTTTTG
1 AAAACACGAGAATTTTTG
* *
68716086 AAAACACAAAAATTTTT-
1 AAAACACGAGAATTTTTG
* *
68716103 AAAACATGGGAATTTTTG
1 AAAACACGAGAATTTTTG
* *
68716121 AAAACATGAAAATTTTTG
1 AAAACACGAGAATTTTTG
68716139 -AAACACCG-GAATTTTTG
1 AAAACA-CGAGAATTTTTG
*
68716156 AAAACACGA-AGATTATTG
1 AAAACACGAGA-ATTTTTG
* *
68716174 -AAACAAGGGAATTTTTTG
1 AAAACACGAGAA-TTTTTG
68716192 AAAACACGA
1 AAAACACGA
68716201 AAAATTTGAA
Statistics
Matches: 388, Mismatches: 43, Indels: 79
0.76 0.08 0.15
Matches are distributed among these distances:
16 1 0.00
17 150 0.39
18 173 0.45
19 59 0.15
20 5 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
AAAACACGAGAATTTTTG
Found at i:68715754 original size:35 final size:34
Alignment explanation
Indices: 68715713--68716211 Score: 459
Period size: 35 Copynumber: 14.1 Consensus size: 34
68715703 TTTAAAAAAA
*
68715713 AAACACGAAAGTTTTTG-AAACACGAGAATTTTTG
1 AAACACGAAA-TTTTTGAAAACACGAAAATTTTTG
68715747 AAAACACGAAAAATTTTTGAAAACACGAAAATTTTTG
1 -AAACACG--AAATTTTTGAAAACACGAAAATTTTTG
* **
68715784 AAACACCGGAATTTTTGAAAACACGAGGATTTTTG
1 AAACA-CGAAATTTTTGAAAACACGAAAATTTTTG
* *
68715819 AAACACAAAAATTTTTGAAAACACAAAAATATTTT-
1 AAACAC-GAAATTTTTGAAAACACGAAAAT-TTTTG
* *
68715854 AGAACACTGAAATTTTT-AAAACATGGAAATTTTTTG
1 A-AACAC-GAAATTTTTGAAAACA-CGAAAATTTTTG
* *
68715890 AAAACATGAAAATTTTTGAAAACAC-AGAAATTTTTA
1 -AAACACG-AAATTTTTGAAAACACGA-AAATTTTTG
* *
68715926 AAACACGGGAATTTTTTGAAAACATGAAAATTTTTG
1 AAACAC--GAAATTTTTGAAAACACGAAAATTTTTG
68715962 AAACACGGAAATTTTTAGAAAACACGAAAATTTTTTG
1 AAACAC-GAAATTTTT-GAAAACACGAAAA-TTTTTG
* * * *
68715999 AATCACCGGAATTTTTGGAAACACGAAATTTTTTG
1 AAACA-CGAAATTTTTGAAAACACGAAAATTTTTG
* * **
68716034 GAACACCGGAATTTTTGAAAACACGAGGATTTTTG
1 AAACA-CGAAATTTTTGAAAACACGAAAATTTTTG
* *
68716069 AAACACGAAAATTTTTGAAAACACAAAAATTTTTA
1 AAACACG-AAATTTTTGAAAACACGAAAATTTTTG
* * *
68716104 AAACATGGGAATTTTTGAAAACATGAAAATTTTTG
1 AAACA-CGAAATTTTTGAAAACACGAAAATTTTTG
* * *
68716139 AAACACCGGAATTTTTGAAAACACGAAGATTATTG
1 AAACA-CGAAATTTTTGAAAACACGAAAATTTTTG
* * *
68716174 AAACAAGGGAATTTTTTGAAAACACGAAAA-ATTTG
1 AAAC-A-CGAAATTTTTGAAAACACGAAAATTTTTG
68716209 AAA
1 AAA
68716212 AACAGATTCT
Statistics
Matches: 385, Mismatches: 57, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.01
35 210 0.55
36 123 0.32
37 48 0.12
38 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (34 bp):
AAACACGAAATTTTTGAAAACACGAAAATTTTTG
Found at i:68716480 original size:39 final size:41
Alignment explanation
Indices: 68716395--68716489 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
68716385 TCGTTGCCTT
*
68716395 ATTTTTTTTGAAAACACGAATATATTTTGAAACACAAGAAA
1 ATTTTTTTTGAAAACACGAATATATTTCGAAACACAAGAAA
* **
68716436 ATTTTTTTTGAAGACACGAA-A-ATTTCGAAACAC--GGGA
1 ATTTTTTTTGAAAACACGAATATATTTCGAAACACAAGAAA
*
68716473 ATTTTTTTCGAAAACAC
1 ATTTTTTTTGAAAACAC
68716490 AAAATTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 17 0.35
39 11 0.23
40 1 0.02
41 19 0.40
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (41 bp):
ATTTTTTTTGAAAACACGAATATATTTCGAAACACAAGAAA
Found at i:68716837 original size:10 final size:10
Alignment explanation
Indices: 68716816--68716881 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
68716806 AATTGAACCC
*
68716816 TTTTTTTATT
1 TTTTTTTCTT
68716826 TTTTTATT-TT
1 TTTTT-TTCTT
68716836 TTTCTTTTCTT
1 TTT-TTTTCTT
68716847 TTCTTTTTCTT
1 TT-TTTTTCTT
* *
68716858 TCTTTCTCTT
1 TTTTTTTCTT
*
68716868 TTTTTTCCTT
1 TTTTTTTCTT
68716878 TTTT
1 TTTT
68716882 CGGCCTGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 30 0.64
11 16 0.34
12 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:68716842 original size:24 final size:25
Alignment explanation
Indices: 68716815--68716880 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
68716805 AAATTGAACC
*
68716815 CTTTTTTTATTTTTTTATTT-TTT-T
1 CTTTTTTT-TCTTTTTATTTCTTTCT
*
68716839 CTTTTCTTTTCTTTTTCTTTCTTTCT
1 CTTTT-TTTTCTTTTTATTTCTTTCT
68716865 CTTTTTTTTCCTTTTT
1 CTTTTTTTT-CTTTTT
68716881 TCGGCCTGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 14 0.39
25 10 0.28
26 12 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (25 bp):
CTTTTTTTTCTTTTTATTTCTTTCT
Found at i:68716853 original size:16 final size:16
Alignment explanation
Indices: 68716834--68716879 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
68716824 TTTTTTTATT
68716834 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTTTTC
68716850 TTTTTC-TTTCTTTCTC
1 TTTTTCTTTTCTTT-TC
*
68716866 TTTTT-TTTCCTTTT
1 TTTTTCTTTTCTTTT
68716880 TTCGGCCTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTC
Found at i:68716882 original size:19 final size:18
Alignment explanation
Indices: 68716815--68716882 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 18
68716805 AAATTGAACC
*
68716815 CTTTTT-TTATTT-TTTT
1 CTTTTTCTTTTTTCTTTT
*
68716831 ATTTTT-TTCTTTTCTTTT
1 CTTTTTCTT-TTTTCTTTT
68716849 CTTTTTCTTTCTTTCTCTTT
1 CTTTTTCTTT-TTTCT-TTT
68716869 -TTTTTCCTTTTTTC
1 CTTTTT-CTTTTTTC
68716883 GGCCTGCTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 7 0.16
17 3 0.07
18 10 0.23
19 16 0.37
20 7 0.16
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (18 bp):
CTTTTTCTTTTTTCTTTT
Found at i:68717202 original size:3 final size:3
Alignment explanation
Indices: 68717196--68717244 Score: 53
Period size: 3 Copynumber: 14.7 Consensus size: 3
68717186 TTTCTTTCCC
68717196 TCT TCTT TCT TCT TCTT TCTT TCTT TCTT TCT TCT TCT TCT TCT TCT
1 TCT TC-T TCT TCT TC-T TC-T TC-T TC-T TCT TCT TCT TCT TCT TCT
68717243 TC
1 TC
68717245 CTCAAAACCG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 26 0.59
4 18 0.41
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:68717205 original size:4 final size:4
Alignment explanation
Indices: 68717178--68717228 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
68717168 AATTAAATTT
* **
68717178 TTTC TTTT TTTC TTTC CCTC -TTC TTTC -TTC -TTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
68717223 TTTC TT
1 TTTC TT
68717229 CTTCTTCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 8 0.20
4 32 0.80
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:68717226 original size:22 final size:18
Alignment explanation
Indices: 68717195--68717244 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
68717185 TTTTCTTTCC
68717195 CTCTTCTTTCTTCTTCTT
1 CTCTTCTTTCTTCTTCTT
68717213 -TCTTTCTTTCTTTCTTCTT
1 CTC-TTCTTTC-TTCTTCTT
68717232 CTTCTTC-TTCTTC
1 C-TCTTCTTTCTTC
68717245 CTCAAAACCG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 11 0.39
20 3 0.11
21 2 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTCTTCTTTCTTCTTCTT
Found at i:68717235 original size:25 final size:28
Alignment explanation
Indices: 68717179--68717240 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
68717169 ATTAAATTTT
*
68717179 TTCTTTTTTTCTTTCCCTCTTCTTTCTTC
1 TTCTTTCTTTCTTT-CCTCTTCTTTCTTC
*
68717208 TTCTTTCTTTCTTTCTTTCTTC-TTCTTC
1 TTCTTTCTTTCTTTC-CTCTTCTTTCTTC
68717236 TTCTT
1 TTCTT
68717241 CTTCCTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (28 bp):
TTCTTTCTTTCTTTCCTCTTCTTTCTTC
Found at i:68717580 original size:30 final size:30
Alignment explanation
Indices: 68717539--68717627 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 30
68717529 TAAACGCAGC
** *
68717539 AAAATTTTTGGGGCTTAAACGTAATTTTGAG
1 AAAA-TTTTGGGGCCAAAACGTAATTTAGAG
68717570 AAAATTTT-GGGCCAAAACGTAATTTAGAG
1 AAAATTTTGGGGCCAAAACGTAATTTAGAG
* * ** *
68717599 AAAGTTTAGGGGTAAAAATGTAATTTAGA
1 AAAATTTTGGGGCCAAAACGTAATTTAGA
68717628 AAAGTTTAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 24 0.49
30 21 0.43
31 4 0.08
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (30 bp):
AAAATTTTGGGGCCAAAACGTAATTTAGAG
Found at i:68717615 original size:29 final size:29
Alignment explanation
Indices: 68717559--68717706 Score: 129
Period size: 29 Copynumber: 5.0 Consensus size: 29
68717549 GGGCTTAAAC
* * * ** *
68717559 GTAATTTTGAGAAAATTTTGGGCCAAAAC
1 GTAATTTAGAGAAAGTTTAGGGTTAAAAT
*
68717588 GTAATTTAGAGAAAGTTTAGGGGTAAAAAT
1 GTAATTTAGAGAAAGTTTA-GGGTTAAAAT
*
68717618 GTAATTTAGA-AAAGTTTAGGGATTGAAAT
1 GTAATTTAGAGAAAGTTTAGGG-TTAAAAT
* *
68717647 GTAATTTAGAAAAAGTTAAAGGGTTAAAAT
1 GTAATTTAGAGAAAGTT-TAGGGTTAAAAT
* * *
68717677 GTAATTT-TAGAAAGTTGAGGGATCAAAAT
1 GTAATTTAGAGAAAGTTTAGGG-TTAAAAT
68717706 G
1 G
68717707 CAAATTTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
28 7 0.07
29 53 0.53
30 36 0.36
31 4 0.04
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.31
Consensus pattern (29 bp):
GTAATTTAGAGAAAGTTTAGGGTTAAAAT
Found at i:68717652 original size:59 final size:59
Alignment explanation
Indices: 68717588--68717699 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
68717578 GGGCCAAAAC
* * * *
68717588 GTAATTTAGAGAAAGTTTAGGGGTAAAAATGTAA-TTTAGAAAAGTTTAGGGATTGAAAT
1 GTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAATTTTAG-AAAGTTGAGGGATTGAAAT
*
68717647 GTAATTTAGAAAAAGTTAAAGGGTTAAAATGTAATTTTAGAAAGTTGAGGGAT
1 GTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAATTTTAGAAAGTTGAGGGAT
68717700 CAAAATGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 42 0.89
60 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.32
Consensus pattern (59 bp):
GTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAATTTTAGAAAGTTGAGGGATTGAAAT
Found at i:68717663 original size:30 final size:29
Alignment explanation
Indices: 68717583--68717689 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 29
68717573 ATTTTGGGCC
* * *
68717583 AAAACGTAATTTAGAGAAAGTTTAGGGGTA
1 AAAATGTAATTTAGAAAAAGTTTA-GGGTT
68717613 AAAATGTAATTTAG-AAAAGTTTAGGGATT
1 AAAATGTAATTTAGAAAAAGTTTAGGG-TT
* *
68717642 GAAATGTAATTTAGAAAAAGTTAAAGGGTT
1 AAAATGTAATTTAGAAAAAGTT-TAGGGTT
68717672 AAAATGTAATTTTAGAAA
1 AAAATGTAA-TTTAGAAA
68717690 GTTGAGGGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
28 3 0.04
29 22 0.33
30 30 0.45
31 12 0.18
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAATGTAATTTAGAAAAAGTTTAGGGTT
Found at i:68717706 original size:59 final size:59
Alignment explanation
Indices: 68717582--68717706 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 59
68717572 AATTTTGGGC
* * * * *
68717582 CAAAACGTAATTTAGAGAAAGTTTAGGGGTAAAAATGTAATTTAGAAAAGTTTAGGGAT
1 CAAAATGTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAATTTAGAAAAGTTGAGGGAT
** *
68717641 TGAAATGTAATTTAGAAAAAGTTAAAGGGTTAAAATGTAATTTTAG-AAAGTTGAGGGAT
1 CAAAATGTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAA-TTTAGAAAAGTTGAGGGAT
68717700 CAAAATG
1 CAAAATG
68717707 CAAATTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 50 0.91
60 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (59 bp):
CAAAATGTAATTTAGAAAAAGTTAAAGGGTAAAAATGTAATTTAGAAAAGTTGAGGGAT
Found at i:68721450 original size:14 final size:13
Alignment explanation
Indices: 68721418--68721442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68721408 TTTATATTTA
68721418 AAATTTAAATTCT
1 AAATTTAAATTCT
68721431 AAATTTAAATTC
1 AAATTTAAATTC
68721443 ATTAATTTTT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATTTAAATTCT
Found at i:68723110 original size:23 final size:25
Alignment explanation
Indices: 68723058--68723114 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
68723048 TGCTTGATAC
*
68723058 TAATTTTAAAAACATATAGTAGCAATT
1 TAATTTTAAAAACATATA-TA-CAAAT
68723085 TAATTTTAAAAACATAT-T-CAAAT
1 TAATTTTAAAAACATATATACAAAT
68723108 TAATTTT
1 TAATTTT
68723115 CAATTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 11 0.38
25 1 0.03
27 17 0.59
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (25 bp):
TAATTTTAAAAACATATATACAAAT
Found at i:68730911 original size:44 final size:43
Alignment explanation
Indices: 68730848--68730988 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 43
68730838 GAGACAACAC
68730848 AAGGAAATGA-GCAGAAACACAGATTTGAGAATATGGAAGCAAAA
1 AAGGAAATGATG-AGAAACACAGATTTGAGAAT-TGGAAGCAAAA
* *
68730892 AAGGAAATGATGAGAAACACAGATTCGAGAATTAGAAAGCAAAAAACAA
1 AAGGAAATGATGAGAAACACAGATTTGAGAATT-GGAAGC----AA-AA
68730941 AGAGTGGAAATGATGAGAAACACAGATTTGAGAACTTGGAAGCAAAA
1 A-A--GGAAATGATGAGAAACACAGATTTGAGAA-TTGGAAGCAAAA
68730988 A
1 A
68730989 GCACTTTGGA
Statistics
Matches: 82, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
43 1 0.01
44 34 0.41
45 1 0.01
47 3 0.04
48 4 0.05
49 3 0.04
50 1 0.01
52 33 0.40
53 2 0.02
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.14
Consensus pattern (43 bp):
AAGGAAATGATGAGAAACACAGATTTGAGAATTGGAAGCAAAA
Found at i:68732905 original size:244 final size:243
Alignment explanation
Indices: 68732325--68733031 Score: 816
Period size: 244 Copynumber: 2.9 Consensus size: 243
68732315 ACAATGCTAT
* * * *
68732325 TCACACGAGCTATGGAGTATCTATAACAAATACAGGACCTCAGCAATCGGTAGGACATTTAAGAC
1 TCACACGAGCTATGGAGTATCTACAACAAATGCAGGACCTCAGTAATCGGTAGGACATTCAAGAC
* * * *
68732390 CAACACTCGAAACATGAAAAGCCTAATAACATGTCATTTGTA-TCTTACGAATTCCTAATGTCCA
66 CAACACTCGAAACATGAAAACCCTAATGACATGTCATTTGTATTC-TATGAATTCCTAAAGTCCA
* * * *
68732454 ACCAGGAATCAATAATCATCAATTCGTAGTGACATTGATACGTTTATATATATATATATATCAAT
130 A-CGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACG------T-T-TATATATATCGAT
* * * *
68732519 CCAATTTCATTAAAAGTAACTTAGCATGATCGTCAATTCTTAGTGACATTGATGCTGT
186 CCAATTTCATTAAAAGTAACTTAGCATGATCATCAATTCGTAGTGACATCGATGCTGC
* * * *
68732577 TCACACGAGCTATGGAGTATCTGCAACAAATGCAGGACCTTAGTAATCAGTAGGACATTCAAGGC
1 TCACACGAGCTATGGAGTATCTACAACAAATGCAGGACCTCAGTAATCGGTAGGACATTCAAGAC
* * * * *
68732642 TAGCACTCGAAAGATGAAAACCCTAATGCCATGTCATTTGTATTCTATGAATTCCTAAAGTTCAA
66 CAACACTCGAAACATGAAAACCCTAATGACATGTCATTTGTATTCTATGAATTCCTAAAGTCCAA
* *
68732707 TCGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATGTATATCGCTCCAATTTCA
131 -CGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAATTTCA
68732772 TTAAAAGTAACTTAGCATGA-CTATCAATTCGTAGTGACATCGATGCTGC
195 TTAAAAGTAACTTAGCATGATC-ATCAATTCGTAGTGACATCGATGCTGC
* * * * *
68732821 TCACACAAGCTGTGGAGTATCCACAACAAATGCAGGACCTCAGTAATTGGTAGGAAATTCAAGAC
1 TCACACGAGCTATGGAGTATCTACAACAAATGCAGGACCTCAGTAATCGGTAGGACATTCAAGAC
* * * * * * *
68732886 CAACACCCAAAACATGAAAACCCTAATGATTAAGTACATTTATATATATAT-ATATAT-C--GA-
66 CAACACTCGAAACATGAAAACCCTAATGA-CATGT-CATTTGTAT-TCTATGA-AT-TCCTAAAG
* * * *
68732946 TCCAACTGGGACTCAATAACCGTCAATTTGTATTGACATTGATACATTTATATATATCGATCCAA
126 TCCAAC-GGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAA
68733011 TTTCATTAAAAGTAACTTAGC
190 TTTCATTAAAAGTAACTTAGC
68733032 CTGGCATTCA
Statistics
Matches: 392, Mismatches: 55, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
243 2 0.01
244 218 0.56
245 5 0.01
246 10 0.03
247 7 0.02
248 1 0.00
252 147 0.38
253 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (243 bp):
TCACACGAGCTATGGAGTATCTACAACAAATGCAGGACCTCAGTAATCGGTAGGACATTCAAGAC
CAACACTCGAAACATGAAAACCCTAATGACATGTCATTTGTATTCTATGAATTCCTAAAGTCCAA
CGGGACTCAATAATCGTCAATTCGTAGTGACATTGATACGTTTATATATATCGATCCAATTTCAT
TAAAAGTAACTTAGCATGATCATCAATTCGTAGTGACATCGATGCTGC
Done.