Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 91 of 328
Found at i:25484002 original size:10 final size:9
Alignment explanation
Indices: 25483984--25484164 Score: 84
Period size: 10 Copynumber: 19.0 Consensus size: 9
25483974 ATAAATGAAG
25483984 TTTTT-TAA
1 TTTTTATAA
25483992 TATTTTATAA
1 T-TTTTATAA
25484002 TATTTTAATAA
1 T-TTTT-ATAA
*
25484013 TTTTAATAA
1 TTTTTATAA
25484022 TTTATTATAA
1 TTT-TTATAA
*
25484032 GTTTTATAA
1 TTTTTATAA
25484041 GTTTTTATGAA
1 -TTTTTAT-AA
*
25484052 -TTTTATATT
1 TTTTTATA-A
*
25484061 TTTTTGTAA
1 TTTTTATAA
**
25484070 -TTTTATTG
1 TTTTTATAA
* *
25484078 TTGTTGTAA
1 TTTTTATAA
*
25484087 TTTTTTTGTAA
1 --TTTTTATAA
25484098 TTTATTAT-A
1 TTT-TTATAA
*
25484107 TTTTTATGAG
1 TTTTTAT-AA
25484117 TTTTTATAA
1 TTTTTATAA
25484126 TATTTTATTAA
1 T-TTTTA-TAA
25484137 TATTTT-TAA
1 T-TTTTATAA
*
25484146 GTTTTATAA
1 TTTTTATAA
*
25484155 GTTTATATAA
1 -TTTTTATAA
25484165 ATTTGAAAAT
Statistics
Matches: 134, Mismatches: 21, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
8 15 0.11
9 42 0.31
10 53 0.40
11 24 0.18
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25484015 original size:9 final size:9
Alignment explanation
Indices: 25483986--25484056 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
25483976 AAATGAAGTT
*
25483986 TTTTAATAT
1 TTTTAATAA
25483995 TTTATAAT-A
1 TTT-TAATAA
25484004 TTTTAATAA
1 TTTTAATAA
25484013 TTTTAATAA
1 TTTTAATAA
*
25484022 TTTATTATAA
1 TTT-TAATAA
25484032 GTTTT-ATAA
1 -TTTTAATAA
*
25484041 GTTTTTATGAA
1 -TTTTAAT-AA
25484052 TTTTA
1 TTTTA
25484057 TATTTTTTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
8 4 0.08
9 28 0.53
10 16 0.30
11 5 0.09
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTAATAA
Found at i:25484015 original size:19 final size:17
Alignment explanation
Indices: 25483993--25484075 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 17
25483983 GTTTTTTAAT
25483993 ATTTTATAATATTTTAATA
1 ATTTTATAAT-TTTT-ATA
25484012 ATTTTAATAATTTATTATA
1 ATTTT-ATAATTT-TTATA
25484031 AGTTTTATAAGTTTTTATGA
1 A-TTTTATAA-TTTTTAT-A
* *
25484051 ATTTTATATTTTTTTGTA
1 ATTTTATA-ATTTTTATA
25484069 ATTTTAT
1 ATTTTAT
25484076 TGTTGTTGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.14
19 32 0.57
20 16 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
ATTTTATAATTTTTATA
Found at i:25484086 original size:17 final size:17
Alignment explanation
Indices: 25484050--25484095 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
25484040 AGTTTTTATG
* *
25484050 AATTTTATATTTTTTTGT
1 AATTTTAT-TGTTGTTGT
25484068 AATTTTATTGTTGTTGT
1 AATTTTATTGTTGTTGT
*
25484085 AATTTTTTTGT
1 AATTTTATTGT
25484096 AATTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.70
Consensus pattern (17 bp):
AATTTTATTGTTGTTGT
Found at i:25484151 original size:39 final size:39
Alignment explanation
Indices: 25483994--25484168 Score: 120
Period size: 39 Copynumber: 4.6 Consensus size: 39
25483984 TTTTTTAATA
* *
25483994 TTTTATAA-TATTT-TAATAATTTTAATAATTTATTATAAG
1 TTTTATAAGTTTTTATAAT-ATTTTATTAATTT-TTATAAG
*
25484033 TTTTATAAGTTTTTATGAAT-TTTATATT--TTTTTGTAA-
1 TTTTATAAGTTTTTAT-AATATTT-TATTAATTTTTATAAG
* * * * *
25484070 TTTTAT-TGTTGTTGTAAT-TTTTTTGTAATTTATTAT-AT
1 TTTTATAAGTTTTTATAATATTTTAT-TAATTT-TTATAAG
*
25484108 TTTTATGAGTTTTTATAATATTTTATTAATATTTT-TAAG
1 TTTTATAAGTTTTTATAATATTTTATTAAT-TTTTATAAG
*
25484147 TTTTATAAGTTTATATAA-ATTT
1 TTTTATAAGTTTTTATAATATTT
25484169 GAAAATTTCG
Statistics
Matches: 108, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
34 2 0.02
35 7 0.06
36 6 0.06
37 10 0.09
38 19 0.18
39 43 0.40
40 14 0.13
41 4 0.04
42 3 0.03
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (39 bp):
TTTTATAAGTTTTTATAATATTTTATTAATTTTTATAAG
Found at i:25484352 original size:15 final size:16
Alignment explanation
Indices: 25484332--25484364 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25484322 ATATTTAATT
25484332 ATTCAAATATT-GATA
1 ATTCAAATATTGGATA
*
25484347 ATTCAATTATTGGATA
1 ATTCAAATATTGGATA
25484363 AT
1 AT
25484365 AAAGATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTCAAATATTGGATA
Found at i:25490730 original size:38 final size:38
Alignment explanation
Indices: 25490679--25490815 Score: 123
Period size: 38 Copynumber: 3.4 Consensus size: 38
25490669 CATTAACGTG
*
25490679 GTGCTAAGCGGATATACCACGGTTAAACATGTAATGTT
1 GTGCTAAGTGGATATACCACGGTTAAACATGTAATGTT
* * * *
25490717 GTGCTAAGTGGATATGCCACGATTACATATATTGATTAT-TAACAT
1 GTGCTAAGTGGATATACCACGGTTA-A-ACA-TG-TAATGT----T
* *
25490762 GGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTG
1 -GTGCTAAGTGGATATACCACGGTTAAACATGTAATGTT
25490801 GTGCTAAGTGGATAT
1 GTGCTAAGTGGATAT
25490816 GCCAATCCAC
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
38 37 0.47
39 1 0.01
40 2 0.03
41 3 0.04
42 5 0.06
43 3 0.04
44 2 0.03
45 2 0.03
46 23 0.29
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (38 bp):
GTGCTAAGTGGATATACCACGGTTAAACATGTAATGTT
Found at i:25490735 original size:85 final size:84
Alignment explanation
Indices: 25490620--25490999 Score: 607
Period size: 85 Copynumber: 4.4 Consensus size: 84
25490610 ACATATTGAT
* *
25490620 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATT-ATTAACATGGTGCTA
*
25490685 AGCGGATATACCACGGTTAA
65 AGTGGATATACCACGGTTAA
* *
25490705 ACATGTAATGTTGTGCTAAGTGGATATGCCACGATTACATATATTGATTATTAACATGGTGCTAA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTATTAACATGGTGCTAA
25490770 GTGGATATACCACGGTTAA
66 GTGGATATACCACGGTTAA
25490789 ACATGTAACGTGGTGCTAAGTGGATATGCCAATCCACGATTACATATATTGATTATTAACATGGT
1 ACATGTAACGTGGTGCTAAGTGGATATG-----CCACGATTACATATATTGATTATTAACATGGT
25490854 GCTAAGTGGATATACCACGGTTAA
61 GCTAAGTGGATATACCACGGTTAA
* * *
25490878 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATT-ATTAACATGGTGCTA
*
25490943 AGTGGATATACCACGATTAA
65 AGTGGATATACCACGGTTAA
*
25490963 ACATGTAACGTGGTGCTAAGTGGATATGCCACTATTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTA
25491000 TACATGTTAA
Statistics
Matches: 275, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
84 78 0.28
85 113 0.41
89 84 0.31
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (84 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTATTAACATGGTGCTAA
GTGGATATACCACGGTTAA
Found at i:25490901 original size:38 final size:38
Alignment explanation
Indices: 25490845--25490994 Score: 165
Period size: 38 Copynumber: 3.7 Consensus size: 38
25490835 TATTGATTAT
*
25490845 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
25490883 TAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
25490924 ATTCATTAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
*
25490968 TAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCAC
25490995 TATTATACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
38 55 0.59
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 29 0.31
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:25491005 original size:38 final size:38
Alignment explanation
Indices: 25490930--25491006 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
25490920 ATTGATTCAT
25490930 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
* * *
25490968 TAACGTGGTGCTAAGTGGATATGCCACTATTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
25491006 T
1 T
25491007 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
Found at i:25493865 original size:18 final size:18
Alignment explanation
Indices: 25493842--25493878 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25493832 CTATTGAGAT
25493842 ATGGTATGAGACTATCTG
1 ATGGTATGAGACTATCTG
25493860 ATGGTATGAGACTATCTG
1 ATGGTATGAGACTATCTG
25493878 A
1 A
25493879 CACCGGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (18 bp):
ATGGTATGAGACTATCTG
Found at i:25494282 original size:15 final size:15
Alignment explanation
Indices: 25494242--25494282 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
25494232 CTGTAAATGA
25494242 GATTTCCTTATCATG
1 GATTTCCTTATCATG
** *
25494257 GATTTTTTTATCTTG
1 GATTTCCTTATCATG
25494272 GATTTCCTTAT
1 GATTTCCTTAT
25494283 TCTGTGCTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (15 bp):
GATTTCCTTATCATG
Found at i:25496278 original size:69 final size:68
Alignment explanation
Indices: 25496138--25496418 Score: 233
Period size: 69 Copynumber: 4.1 Consensus size: 68
25496128 GATTATCAAG
* * * * **
25496138 AATATGACAGCTGGGAGCTTTGTTCTCACTAACAGTTTTGGAGGTTGCTGCTCTTCGCCTATGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAATA-TTTTGGAGGTTACGGCTCTTCGCCTGCGAA
*
25496203 CTTT
65 CCTT
* * * **
25496207 AATATGATAGCTGGGATCTTTGCTCTCAGTAAGTATTTTGGAGGTTACGGCTCTTTACCTGCGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAA-TATTTTGGAGGTTACGGCTCTTCGCCTGCGAA
25496272 CCTT
65 CCTT
* * * * * * *
25496276 AATATGACA-TTTGGAGCATTTGCTCTTC-CTAACTGTTTTGGAGGTTATGGCTCTTTGCTTGCA
1 AATATGACAGCTGGGAGC-TTTGCTC-TCACTAA-TATTTTGGAGGTTACGGCTCTTCGCCTGCG
25496339 AACCTT
63 AACCTT
* * ** * * * * *
25496345 AATATGACAGCTAGGAGCTGTGCTCTCGGTAATTGTTTTAGAGGTTGCGACTCTTCGCTTGCGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAA-TATTTTGGAGGTTACGGCTCTTCGCCTGCGAA
*
25496410 CATT
65 CCTT
25496414 AATAT
1 AATAT
25496419 CATGTGAACG
Statistics
Matches: 172, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
68 7 0.04
69 156 0.91
70 9 0.05
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (68 bp):
AATATGACAGCTGGGAGCTTTGCTCTCACTAATATTTTGGAGGTTACGGCTCTTCGCCTGCGAAC
CTT
Found at i:25502275 original size:41 final size:41
Alignment explanation
Indices: 25502227--25502357 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 41
25502217 TGCTTAAACA
* * ** *
25502227 AGCTGTGGGTTGGGACATTAGCTAATGATGTTGCTCACACG
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
* *
25502268 AGTTGTGGGTGGGGATATTAACTAACAATGCTGCTCACACG
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
** * * * * * *
25502309 AGCTGTGGGTCAGGACGTTAGCTCACAATGCTACTCAGACA
1 AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
25502350 AGCTGTGG
1 AGCTGTGG
25502358 AGAATTCACA
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (41 bp):
AGCTGTGGGTGGGGACATTAACTAACAATGCTGCTCACACG
Found at i:25503575 original size:144 final size:144
Alignment explanation
Indices: 25503310--25503600 Score: 519
Period size: 144 Copynumber: 2.0 Consensus size: 144
25503300 CATGAGGAAT
*
25503310 GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
1 GAATCGAGAAGCAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
* * *
25503375 TGGCTTAATCCCCTTCGCACACTGCCGATCCAAAGCTGCAACAGAATCGTCTTAGCCTCTACGTA
66 TGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
*
25503440 GTCCGCCCAGTTGC
131 GTCCACCCAGTTGC
25503454 GAATCGAGAAGCAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
1 GAATCGAGAAGCAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
* *
25503519 TGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCATCAGAATTGTCCTAGCCTCTACGTA
66 TGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
25503584 GTCCACCCAGTTGC
131 GTCCACCCAGTTGC
25503598 GAA
1 GAA
25503601 CGAATGAACA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (144 bp):
GAATCGAGAAGCAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
TGGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
GTCCACCCAGTTGC
Found at i:25506359 original size:17 final size:17
Alignment explanation
Indices: 25506334--25506382 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
25506324 TTCACTACGC
25506334 CTGATGCTCCCAGCATA
1 CTGATGCTCCCAGCATA
*
25506351 CTTATGCTCCCAGCATA
1 CTGATGCTCCCAGCATA
25506368 CTGATGCTCCCAGCA
1 CTGATGCTCCCAGCA
25506383 CATTCATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.16, T:0.24
Consensus pattern (17 bp):
CTGATGCTCCCAGCATA
Found at i:25508612 original size:39 final size:39
Alignment explanation
Indices: 25508558--25508637 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
25508548 TGTAGGAAAG
25508558 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
1 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
25508597 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
1 TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
25508636 TT
1 TT
25508638 GGATTTTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (39 bp):
TTTGACATTGGGTTAAATTCATCCAAGATGCAAGTACTT
Found at i:25509035 original size:12 final size:12
Alignment explanation
Indices: 25509018--25509043 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25509008 GAATGGGAAT
25509018 ATGTGATTTTGA
1 ATGTGATTTTGA
25509030 ATGTGATTTTGA
1 ATGTGATTTTGA
25509042 AT
1 AT
25509044 ATATATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTGATTTTGA
Found at i:25513429 original size:59 final size:60
Alignment explanation
Indices: 25513301--25513440 Score: 180
Period size: 59 Copynumber: 2.3 Consensus size: 60
25513291 TATTTTATTA
* * * *
25513301 TATATAAATATATAATATATGCATGCTTTGATTGGTTTAGTGCATGTTGTTGTTTTGTATG
1 TATAT-AATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGTTGTTTAGAATG
25513362 TATA-AATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAG-T-TTTAGAAAT-
1 TATATAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTT-GTTGTTTAG-AATG
25513420 TATATAATATATATATATATA
1 TATATAATATATA-ATATATA
25513441 TATATATATA
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
58 8 0.11
59 51 0.72
60 8 0.11
61 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.47
Consensus pattern (60 bp):
TATATAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTGTTGTTTAGAATG
Found at i:25513431 original size:2 final size:2
Alignment explanation
Indices: 25513420--25513462 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
25513410 TTTTAGAAAT
25513420 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25513461 TA
1 TA
25513463 ATTATCTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25518134 original size:33 final size:35
Alignment explanation
Indices: 25518069--25518134 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
25518059 CAATTGTAAT
* *
25518069 ATATTTATCTAATTACTTTTTATTTAAGTAAATAG
1 ATATTTATCTAATTACTTATTATTAAAGTAAATAG
* *
25518104 ATATTTAT-TATTTA-TTATTATTAAATTAAAT
1 ATATTTATCTAATTACTTATTATTAAAGTAAAT
25518135 TAAACACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 14 0.52
34 5 0.19
35 8 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATATTTATCTAATTACTTATTATTAAAGTAAATAG
Found at i:25518383 original size:23 final size:23
Alignment explanation
Indices: 25518357--25518401 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25518347 TGTATATGTG
25518357 TAGTTAATTGTATA-ATAGATATT
1 TAGTTAATT-TATATATAGATATT
*
25518380 TAGTTAATTTATATATATATAT
1 TAGTTAATTTATATATAGATAT
25518402 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
TAGTTAATTTATATATAGATATT
Found at i:25518396 original size:2 final size:2
Alignment explanation
Indices: 25518389--25518426 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25518379 TTAGTTAATT
25518389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25518427 AGTGAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25519988 original size:18 final size:19
Alignment explanation
Indices: 25519965--25520009 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
25519955 TTACTGAATC
* *
25519965 ATATTGATAA-ATTGATTG
1 ATATTGAAAATATTGACTG
25519983 ATATTGAAAAATATTGACTG
1 ATATTG-AAAATATTGACTG
25520003 ATATTGA
1 ATATTGA
25520010 GCTTGGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (19 bp):
ATATTGAAAATATTGACTG
Found at i:25530844 original size:46 final size:46
Alignment explanation
Indices: 25530791--25530966 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
25530781 TATTTGGGCA
25530791 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
25530837 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
25530884 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
25530930 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25530967 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:25530946 original size:93 final size:93
Alignment explanation
Indices: 25530787--25530958 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25530777 GGGATATTTG
* *
25530787 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25530852 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
25530880 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25530945 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25530959 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:25533951 original size:15 final size:15
Alignment explanation
Indices: 25533931--25533999 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
25533921 GTATCTTGGG
25533931 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
25533946 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
25533961 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
25533976 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
25533991 TTTCTTTAT
1 TTTCTTTAT
25534000 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:25534000 original size:30 final size:30
Alignment explanation
Indices: 25533922--25534009 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
25533912 CATAGTATCG
* * * *
25533922 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
25533952 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
25533982 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
25534010 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:25536447 original size:46 final size:46
Alignment explanation
Indices: 25536394--25536569 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
25536384 TATTTGGGCA
25536394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
25536440 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
25536487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
25536533 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25536570 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:25536549 original size:93 final size:93
Alignment explanation
Indices: 25536390--25536561 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25536380 GGGATATTTG
* *
25536390 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25536455 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
25536483 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
25536548 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25536562 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:25541669 original size:8 final size:8
Alignment explanation
Indices: 25541656--25541685 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25541646 GAAGCCTGTA
25541656 ACATATGC
1 ACATATGC
*
25541664 ACATATGT
1 ACATATGC
25541672 ACATATGC
1 ACATATGC
25541680 ACATAT
1 ACATAT
25541686 AACATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (8 bp):
ACATATGC
Found at i:25543606 original size:29 final size:29
Alignment explanation
Indices: 25543564--25543619 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
25543554 ACATATTTAG
25543564 GTTTATCTACTAATATAAGTTATCTTTTC
1 GTTTATCTACTAATATAAGTTATCTTTTC
25543593 GTTTATCTACTAATATAAGTTATCTTT
1 GTTTATCTACTAATATAAGTTATCTTT
25543620 CCGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (29 bp):
GTTTATCTACTAATATAAGTTATCTTTTC
Found at i:25544770 original size:19 final size:19
Alignment explanation
Indices: 25544746--25544785 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25544736 CGTGGTGTGC
*
25544746 TTAGTTTTCTTGTGGCTTT
1 TTAGTTTACTTGTGGCTTT
* *
25544765 TTAGTTTACTTTTTGCTTT
1 TTAGTTTACTTGTGGCTTT
25544784 TT
1 TT
25544786 TGCCTTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (19 bp):
TTAGTTTACTTGTGGCTTT
Found at i:25545186 original size:28 final size:28
Alignment explanation
Indices: 25545129--25545186 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
25545119 TCATAACTCC
* *
25545129 TATCATAAAAAATGAAAAAGAATTAAAA
1 TATCATAAAAAATGAAAAAAAAGTAAAA
* * *
25545157 TATCATTAAAAATTAAAAAAAAGTATAA
1 TATCATAAAAAATGAAAAAAAAGTAAAA
25545185 TA
1 TA
25545187 AGAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (28 bp):
TATCATAAAAAATGAAAAAAAAGTAAAA
Found at i:25545544 original size:14 final size:14
Alignment explanation
Indices: 25545525--25545554 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25545515 TACTTAAAGT
25545525 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25545539 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25545553 TA
1 TA
25545555 ATGTTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TATAATTTTGTAAC
Found at i:25545672 original size:19 final size:19
Alignment explanation
Indices: 25545635--25545675 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25545625 TTAAAATCTA
*
25545635 ATTAAATAAAAATATTAAT
1 ATTAAATAAAAATAATAAT
25545654 ATTAAATAAAACA-AATAAT
1 ATTAAATAAAA-ATAATAAT
25545673 ATT
1 ATT
25545676 TCCCTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAATAAAAATAATAAT
Found at i:25547150 original size:28 final size:28
Alignment explanation
Indices: 25547094--25547168 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
25547084 CAAAATTTAA
* * *
25547094 TATATTTTTTTATAATTTTTGAGTATTT
1 TATATATTTTTATAAATTTTGAATATTT
25547122 TATATATTTTTATAAATTTT-AATACTTT
1 TATATATTTTTATAAATTTTGAATA-TTT
*
25547150 T-TGA-ATTTTTATATATTTT
1 TAT-ATATTTTTATAAATTTT
25547169 TTCATTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 18 0.44
28 23 0.56
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
TATATATTTTTATAAATTTTGAATATTT
Found at i:25547175 original size:18 final size:18
Alignment explanation
Indices: 25547100--25547179 Score: 74
Period size: 18 Copynumber: 4.4 Consensus size: 18
25547090 TTAATATATT
* *
25547100 TTTTTATA-ATTTTTGAG
1 TTTTTATATATTTTTTAA
25547117 TATTTTATATATTTTTATAA
1 T-TTTTATATATTTTT-TAA
* *
25547137 ATTTTA-ATACTTTTTGAA
1 TTTTTATATA-TTTTTTAA
*
25547155 TTTTTATATATTTTTTCA
1 TTTTTATATATTTTTTAA
25547173 TTTTTAT
1 TTTTTAT
25547180 TTTTTATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 1 0.02
18 30 0.59
19 19 0.37
20 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTTATATATTTTTTAA
Found at i:25547354 original size:31 final size:31
Alignment explanation
Indices: 25547319--25547392 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
25547309 TTTAAGATTT
* * *
25547319 AGTGACTAAAATTGATAATTTATCTAACAAA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
* * * * *
25547350 AGTGATTAAAGTTGGCAACTAATCTAAGAGA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
25547381 AGTGACTAAAAT
1 AGTGACTAAAAT
25547393 AACAAATTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.28
Consensus pattern (31 bp):
AGTGACTAAAATTGACAACTAATCTAACAAA
Found at i:25549493 original size:28 final size:27
Alignment explanation
Indices: 25549441--25549494 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 27
25549431 TAATATAAGT
25549441 TTAAAAATTAAAAAAAAGTAAGATTAAA
1 TTAAAAATTAAAAAAAAGT-AGATTAAA
25549469 TTAAAAATTAAAATAAAAAGT-GATTA
1 TTAAAAATT-AAA-AAAAAGTAGATTA
25549495 TAAAGTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (27 bp):
TTAAAAATTAAAAAAAAGTAGATTAAA
Found at i:25566602 original size:11 final size:10
Alignment explanation
Indices: 25566573--25566607 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
25566563 AAATGGAGGC
25566573 ACAAAAGAAA
1 ACAAAAGAAA
25566583 ACAAAAGAAA
1 ACAAAAGAAA
*
25566593 AGAGAAAGAAA
1 ACA-AAAGAAA
25566604 ACAA
1 ACAA
25566608 TGAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.77, C:0.09, G:0.14, T:0.00
Consensus pattern (10 bp):
ACAAAAGAAA
Found at i:25568244 original size:28 final size:28
Alignment explanation
Indices: 25568180--25568244 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
25568170 TTGCCAAATT
25568180 CAAAGCAAACTACAATATGATATGGTGA
1 CAAAGCAAACTACAATATGATATGGTGA
***
25568208 -AATTTAAACTCACAATATGATATGGT-A
1 CAAAGCAAACT-ACAATATGATATGGTGA
25568235 CAAAGCAAAC
1 CAAAGCAAAC
25568245 CAATTTTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (28 bp):
CAAAGCAAACTACAATATGATATGGTGA
Found at i:25569429 original size:40 final size:40
Alignment explanation
Indices: 25569384--25569525 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
25569374 GACAAATCAC
* * *
25569384 CTATATATGGCACTTAGTGTGCGATTCGATAAAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGG
*
25569424 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGG
* * * *
25569465 CTATAGATGGCACTTAGTGTACAATTTGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGG
* * *
25569505 CCATGTATGACACTTAGTGTG
1 CTATATATGGCACTTAGTGTG
25569526 TGAGATATCA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 54 0.62
41 33 0.38
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGG
Found at i:25570993 original size:24 final size:24
Alignment explanation
Indices: 25570949--25570994 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25570939 AATTGATTAA
**
25570949 GATTGAATGATGATGGTAAGTAAT
1 GATTGAATGATGATGAAAAGTAAT
25570973 GATTGAATGTATGA-GAAAAGTA
1 GATTGAATG-ATGATGAAAAGTA
25570995 TGTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (24 bp):
GATTGAATGATGATGAAAAGTAAT
Found at i:25577084 original size:41 final size:40
Alignment explanation
Indices: 25576986--25577105 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 40
25576976 CAACAAATAA
* * * * *
25576986 GCTATATGTGGCAGTTAGTGTGCG-ATTCGACATAGCTTCG
1 GCTATATATGACACTTAGTGTACGAATT-GAGATAGCTTCG
*
25577026 GCTATATATGACACTTAGTGTACGAGATTGAGATAGCTTTG
1 GCTATATATGACACTTAGTGTACGA-ATTGAGATAGCTTCG
*** * * *
25577067 GCTATATATGGTGCTTAGTGTGCGATTTGGGATAGCTTC
1 GCTATATATGACACTTAGTGTACGAATTGAGATAGCTTC
25577106 AACTATGTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 31 0.48
41 31 0.48
42 3 0.05
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
GCTATATATGACACTTAGTGTACGAATTGAGATAGCTTCG
Found at i:25579885 original size:25 final size:25
Alignment explanation
Indices: 25579857--25579907 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25579847 TTGTAAGTAA
25579857 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25579882 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25579907 T
1 T
25579908 TTAATTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (25 bp):
TGATAGAATGTATGAGAAAATTATG
Found at i:25580745 original size:19 final size:19
Alignment explanation
Indices: 25580706--25580742 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25580696 TTGTTTGATA
25580706 AAAATAAATATTAATTTTT
1 AAAATAAATATTAATTTTT
*
25580725 AAAAT-AATATTGATTTTT
1 AAAATAAATATTAATTTTT
25580743 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAATAAATATTAATTTTT
Found at i:25584596 original size:3 final size:3
Alignment explanation
Indices: 25584588--25584621 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25584578 TTTGCCACTA
25584588 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25584622 TTAACAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25587076 original size:16 final size:16
Alignment explanation
Indices: 25587057--25587105 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
25587047 ATAAATAAAT
* *
25587057 TATATAAATACAACAA
1 TATATAAAAAAAACAA
*
25587073 TATATAAAAAAAAGAA
1 TATATAAAAAAAACAA
*
25587089 TATATAAAAATAACAA
1 TATATAAAAAAAACAA
25587105 T
1 T
25587106 TGATATAGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (16 bp):
TATATAAAAAAAACAA
Found at i:25589155 original size:177 final size:176
Alignment explanation
Indices: 25588859--25589300 Score: 509
Period size: 177 Copynumber: 2.5 Consensus size: 176
25588849 TATCAGAGAA
* * * **
25588859 ATAAGGCTTGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAAATAAGATTTACCGCTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCAGGAAGATAAGATTCGCCGCTTTCGAT
* ** * * * * * * *
25588924 CTA-TCCCATTGTTATCTCAAGGAGACAAAATCTGA-AA-CATT-AGT-TGGCTCCCTTGCTACC
65 CTACT-CCACTACT-GCTTAGGGAGATAAGATCT-ACAATC-TTCAATCT-ACTCCCTTGCTACC
* *
25588984 TCAGGATGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAG
125 TCAGGAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
* *
25589036 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCGCCATCTTT-GA
1 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCAGGAAGATAAGATTCGCC-GCTTTCGA
* * * *
25589100 TCTGCTTCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTACTCCCTTGTTACCTTAG
64 TCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTACTCCCTTGCTACCTCAG
* *
25589165 TAAGATAAGACTACAATCATTAGCTTCCTCCCTTGCTACCTCAGGGAG
129 GAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
* * *
25589213 ATAAGGCTAGTGGCTAAAATCTGCCCCCTGTTACCTCGGGAAGATAAGATTCGCCGCTTTCGATT
1 ATAAGGCTAGTGGCTAAAATCTGCCCCCTGCTACCTCAGGAAGATAAGATTCGCCGCTTTCGATC
*
25589278 TACTCCACTCCTGCTTAGGGAGA
66 TACTCCACTACTGCTTAGGGAGA
25589301 CAAACTCTGA
Statistics
Matches: 227, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
175 5 0.02
176 69 0.30
177 147 0.65
178 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (176 bp):
ATAAGGCTAGTGGCTAAAATCTGCCCCCTGCTACCTCAGGAAGATAAGATTCGCCGCTTTCGATC
TACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTACTCCCTTGCTACCTCAGGA
AGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
Found at i:25589215 original size:44 final size:45
Alignment explanation
Indices: 25588971--25589217 Score: 109
Period size: 44 Copynumber: 5.6 Consensus size: 45
25588961 CATTAGTTGG
** *
25588971 CTCCCTTGCTACCTCA-GGATGATAAGA-CTACAATCATT-AGCCTG
1 CTCCCTTGCTACCTCAGGGA-GATAAGATCTACAATC-TTCAATCTA
* **** ** *
25589015 CTCCCTTGCTACCTCAGGGAGATAAG-GCTAGTGGCTAAAATCTG
1 CTCCCTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAATCTA
* * * * * ** *
25589059 CTCCCCTGCTACCTTAGGAAGATAAGAT-TCGCCATCTTTGATCTG
1 CTCCCTTGCTACCTCAGGGAGATAAGATCT-ACAATCTTCAATCTA
* * * *
25589104 CTTCAC-TACT-GCTTAGGGAGATAAGATCTACAATCTTCAATCTA
1 C-TCCCTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAATCTA
* * ** * *
25589148 CTCCCTTGTTACCTTAGTAAGATAAGA-CTACAATCATT--AGCTTC
1 CTCCCTTGCTACCTCAGGGAGATAAGATCTACAATC-TTCAATC-TA
25589192 CTCCCTTGCTACCTCAGGGAGATAAG
1 CTCCCTTGCTACCTCAGGGAGATAAG
25589218 GCTAGTGGCT
Statistics
Matches: 152, Mismatches: 40, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
43 6 0.04
44 113 0.74
45 30 0.20
46 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (45 bp):
CTCCCTTGCTACCTCAGGGAGATAAGATCTACAATCTTCAATCTA
Found at i:25601565 original size:21 final size:21
Alignment explanation
Indices: 25601540--25601589 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25601530 AAATTAACAC
** * *
25601540 AAATGAAATGTAACAAGTTTA
1 AAATGAAATAAAAAAAGGTTA
25601561 AAATGATAATAAAAAAAGGTTA
1 AAATGA-AATAAAAAAAGGTTA
25601583 AAATGAA
1 AAATGAA
25601590 TAATATGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAAATAAAAAAAGGTTA
Found at i:25610431 original size:25 final size:25
Alignment explanation
Indices: 25610401--25610454 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
25610391 ATACACTCTT
*
25610401 TTATTTTCTTTTATTATA-GATATTA
1 TTATTTTATTTTATT-TACGATATTA
* *
25610426 TTATTTTATTTTCTTTACGTTATTA
1 TTATTTTATTTTATTTACGATATTA
25610451 TTAT
1 TTAT
25610455 ATCGTATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACGATATTA
Found at i:25610568 original size:24 final size:24
Alignment explanation
Indices: 25610512--25610568 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
25610502 TATTTTCATG
* *
25610512 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
25610536 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
25610560 ATTAGTATT
1 ATTATTATT
25610569 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:25610798 original size:16 final size:16
Alignment explanation
Indices: 25610754--25610810 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
25610744 TTCTAATGTG
25610754 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
25610770 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
25610784 TATGTATATATTATAT
1 TATGTATATATTATAT
*
25610800 TATATATATAT
1 TATGTATATAT
25610811 ATTATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.18
15 8 0.24
16 19 0.58
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:25610817 original size:34 final size:34
Alignment explanation
Indices: 25610752--25610818 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
25610742 ATTTCTAATG
* * *
25610752 TGTATGTATTATATATATTTTTAATACTATATTA
1 TGTATATATTATATATATATATAATACTATATTA
*
25610786 TGTATATATTATAT-TATATATATATATTATATT
1 TGTATATATTATATATATATATA-ATACTATATT
25610819 TTTATGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (34 bp):
TGTATATATTATATATATATATAATACTATATTA
Found at i:25611021 original size:3 final size:3
Alignment explanation
Indices: 25611013--25611089 Score: 102
Period size: 3 Copynumber: 25.0 Consensus size: 3
25611003 TTAATTCATA
* *
25611013 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
25611060 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25611090 CATCATCATT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 60 0.91
4 1 0.02
5 2 0.03
6 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25613085 original size:32 final size:32
Alignment explanation
Indices: 25613047--25613112 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
25613037 CATACTAAAG
25613047 GAGGCGTTAATCCGTATTCAATTACTAAATTA
1 GAGGCGTTAATCCGTATTCAATTACTAAATTA
25613079 GAGGCGTTAATCCGTATTCAATTACTAAATTA
1 GAGGCGTTAATCCGTATTCAATTACTAAATTA
25613111 GA
1 GA
25613113 AAATTTGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
GAGGCGTTAATCCGTATTCAATTACTAAATTA
Found at i:25623579 original size:44 final size:44
Alignment explanation
Indices: 25623456--25624073 Score: 813
Period size: 44 Copynumber: 14.2 Consensus size: 44
25623446 TCCTTGAAAC
*
25623456 AGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25623500 ATATAACAGATTT-GCATCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25623543 AGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25623587 AGAT----GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25623627 AAATAACAGATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
25623671 AGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
25623715 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * **
25623759 AGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGTAGATTAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
25623803 AGATAACAGATTTGGCGTCTCCGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
25623847 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
25623891 AGAT----GATTTGGCATCTCTATAGCGACGGAGAACAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * ** *
25623931 AAATAATAGATTTAGCGTCTCTGTAGCAGTAGAGAGCAGATCAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
25623975 AGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * **
25624019 AGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATAAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
25624063 AAATAACAGAT
1 AGATAACAGAT
25624074 CGGTGTTCCT
Statistics
Matches: 496, Mismatches: 69, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
40 69 0.14
43 39 0.08
44 388 0.78
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:25624004 original size:304 final size:303
Alignment explanation
Indices: 25623456--25624073 Score: 921
Period size: 304 Copynumber: 2.0 Consensus size: 303
25623446 TCCTTGAAAC
* * * *
25623456 AGATAACAGATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAATATAACAGATTTGCATCTCT
1 AGATAACAGATTTGGCGTCTCCGTAGCAGCGGAGAGCAGATCAAAGATAACAGATTTGCATCTCC
* *
25623521 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATTG
66 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAGCGGCGGAGAGCAGATCG
* * * * *
25623586 AAGATGATTTGGCATCTCTGTAGCGACGGAGAGCAGATCAAAAATAACAGATTTGGTGTCTCTGT
131 AAGATGATTTGGCATCTCTATAGCGACGGAGAACAAATCAAAAATAACAGATTTAGCGTCTCTGT
* * ** *
25623651 AGCGGCGGAGAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGAA
196 AGCAGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGAA
* **
25623716 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
261 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATAAA
* * * *
25623759 AGATAACAGATTTGGCGTCTCCGTAGCGGCGGAGAGTAGATTAAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCCGTAGCAGCGGAGAGCAGATCAAAGATAACAGATTT-GCATCTC
* * *
25623824 CGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
65 CGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAGCGGCGGAGAGCAGATC
* *
25623889 GAAGATGATTTGGCATCTCTATAGCGACGGAGAACAAATCGAAAATAATAGATTTAGCGTCTCTG
130 GAAGATGATTTGGCATCTCTATAGCGACGGAGAACAAATCAAAAATAACAGATTTAGCGTCTCTG
* * * *
25623954 TAGCAGTAGAGAGCAGATCAAAGATAACTGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
195 TAGCAGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGA
*
25624019 AGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATAAA
260 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATAAA
*
25624063 AAATAACAGAT
1 AGATAACAGAT
25624074 CGGTGTTCCT
Statistics
Matches: 280, Mismatches: 34, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
303 51 0.18
304 229 0.82
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (303 bp):
AGATAACAGATTTGGCGTCTCCGTAGCAGCGGAGAGCAGATCAAAGATAACAGATTTGCATCTCC
GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACATCTCTGTAGCGGCGGAGAGCAGATCG
AAGATGATTTGGCATCTCTATAGCGACGGAGAACAAATCAAAAATAACAGATTTAGCGTCTCTGT
AGCAGCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAAATCGAA
GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATAAA
Found at i:25624825 original size:13 final size:13
Alignment explanation
Indices: 25624807--25624831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25624797 GAAGTGTGCG
25624807 GTGGCCGGCGACA
1 GTGGCCGGCGACA
25624820 GTGGCCGGCGAC
1 GTGGCCGGCGAC
25624832 GGCGGATGGC
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:0.12, C:0.32, G:0.48, T:0.08
Consensus pattern (13 bp):
GTGGCCGGCGACA
Found at i:25625602 original size:24 final size:24
Alignment explanation
Indices: 25625546--25625602 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
25625536 TATTTTCATG
* *
25625546 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
25625570 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
25625594 ATTAGTATT
1 ATTATTATT
25625603 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:25626057 original size:3 final size:3
Alignment explanation
Indices: 25626051--25626157 Score: 162
Period size: 3 Copynumber: 35.0 Consensus size: 3
25626041 TTAATTCATA
* *
25626051 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
25626098 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
25626146 TAT TAT TAT TAT
1 TAT TAT TAT TAT
25626158 CATTGTCATT
Statistics
Matches: 96, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.02
3 90 0.94
4 1 0.01
5 2 0.02
6 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25627985 original size:22 final size:22
Alignment explanation
Indices: 25627931--25627973 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25627921 ATCAAAAGAA
*
25627931 TGAAAT-AAT-ATAAAACAATT
1 TGAAATAAATAATGAAACAATT
25627951 TGAAATAAATAATGAAACAATT
1 TGAAATAAATAATGAAACAATT
25627973 T
1 T
25627974 TGACTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
TGAAATAAATAATGAAACAATT
Found at i:25628231 original size:19 final size:18
Alignment explanation
Indices: 25628179--25628241 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 18
25628169 ATTAAAGTAC
*
25628179 ATAATATACATAAAATAA
1 ATAATATATATAAAATAA
* *
25628197 A-AATAT-TTTAATATAA
1 ATAATATATATAAAATAA
25628213 ATAATATATATGAAAATAA
1 ATAATATATAT-AAAATAA
*
25628232 ATAATGTATA
1 ATAATATATA
25628242 AAGAGTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 8 0.22
17 10 0.28
18 3 0.08
19 15 0.42
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATATATATAAAATAA
Found at i:25630151 original size:15 final size:15
Alignment explanation
Indices: 25630100--25630154 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
25630090 AGAATGGAAA
* *
25630100 GAAAATTAGAATGAT
1 GAAAAATAGAAGGAT
*
25630115 GAAAAATTGAAGAGAT
1 GAAAAATAGAAG-GAT
25630131 GAAAAACTAGAAGGAT
1 GAAAAA-TAGAAGGAT
25630147 GAAAAATA
1 GAAAAATA
25630155 CATAAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.32
16 18 0.53
17 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (15 bp):
GAAAAATAGAAGGAT
Found at i:25634107 original size:49 final size:47
Alignment explanation
Indices: 25633999--25634127 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
25633989 GTGGTTGCCA
*
25633999 ACCTAGTTAACAACTAACATGTCCTACCAGTGGCCCAACATACACGCC
1 ACCTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* * * * *
25634047 ACTCTGGTTAGCAACCAACATGCCCTACTAGTGGCCCATCATACACTCC
1 AC-CTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* *
25634096 TACCTATTTAGCAACTAGCATGCCTACCAGTG
1 -ACCTAGTTAGCAACTAACATGCCTACCAGTG
25634128 ATCCATCGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 11 0.16
49 54 0.81
50 2 0.03
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.22
Consensus pattern (47 bp):
ACCTAGTTAGCAACTAACATGCCTACCAGTGGCCCAACATACACGCC
Found at i:25662567 original size:22 final size:21
Alignment explanation
Indices: 25662526--25662579 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
25662516 ATATTATCAT
*
25662526 AACAGTTCAGATAAAATATAG
1 AACAGATCAGATAAAATATAG
*
25662547 AGCAGATCAGATACAAATATAG
1 AACAGATCAGATA-AAATATAG
25662569 AACAGATCAGA
1 AACAGATCAGA
25662580 ATCAGATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.19
Consensus pattern (21 bp):
AACAGATCAGATAAAATATAG
Found at i:25668078 original size:8 final size:8
Alignment explanation
Indices: 25668067--25668102 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
25668057 AATTTTTTAG
25668067 ATTTTAAA
1 ATTTTAAA
25668075 ATTTTAAA
1 ATTTTAAA
*
25668083 AATTTAAA
1 ATTTTAAA
25668091 ATTATTAAA
1 ATT-TTAAA
25668100 ATT
1 ATT
25668103 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:25674969 original size:2 final size:2
Alignment explanation
Indices: 25674962--25674988 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25674952 CTATTCATTC
25674962 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25674989 ACCTTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25677171 original size:44 final size:44
Alignment explanation
Indices: 25677106--25677194 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
25677096 TGACTGTTCA
* *
25677106 ACTATAAATTCAAGTTTTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTGTTTTAAGTTTGGGTTAGATTAATCTCG
25677150 ACTATAAATTCAAGCTGTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTGTTTTAAGTTTGGGTTAGATTAATCTCG
25677194 A
1 A
25677195 ACTCGAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (44 bp):
ACTATAAATTCAAGCTGTTTTAAGTTTGGGTTAGATTAATCTCG
Found at i:25682679 original size:28 final size:30
Alignment explanation
Indices: 25682618--25682680 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
25682608 TCCTCCATTT
*
25682618 TTTTATTTCTATTAAAAATGCCCGTTATAA
1 TTTTCTTTCTATTAAAAATGCCCGTTATAA
25682648 --TTCTTTCT-TTAAAAATGTCCC-TT-TAA
1 TTTTCTTTCTATTAAAAATG-CCCGTTATAA
25682674 TTTTCTT
1 TTTTCTT
25682681 GATTTCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
26 3 0.10
27 11 0.38
28 15 0.52
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTCTTTCTATTAAAAATGCCCGTTATAA
Found at i:25682726 original size:45 final size:45
Alignment explanation
Indices: 25682662--25682754 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
25682652 TTCTTTAAAA
*
25682662 ATGTCCCTTTAATTTTCTTGATTTCACATTACATAATTTTTTTTC
1 ATGTCCCTTTAATTTTCTTGATTTCACATTACATAAATTTTTTTC
*
25682707 ATGTCCCTTTAATTTTCTTGATTTCGCATTACATAAATTTTTTTC
1 ATGTCCCTTTAATTTTCTTGATTTCACATTACATAAATTTTTTTC
25682752 ATG
1 ATG
25682755 AAAAATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (45 bp):
ATGTCCCTTTAATTTTCTTGATTTCACATTACATAAATTTTTTTC
Found at i:25682745 original size:25 final size:24
Alignment explanation
Indices: 25682672--25682747 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
25682662 ATGTCCCTTT
25682672 AATTTTCTTGATTTCACATTACATA
1 AATTTTCTTGATTTC-CATTACATA
* * * * *
25682697 ATTTTTTTTCATGTCCCTT---T-
1 AATTTTCTTGATTTCCATTACATA
25682717 AATTTTCTTGATTTCGCATTACATA
1 AATTTTCTTGATTTC-CATTACATA
25682742 AATTTT
1 AATTTT
25682748 TTTCATGAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
24 4 0.11
25 17 0.47
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (24 bp):
AATTTTCTTGATTTCCATTACATA
Found at i:25683071 original size:18 final size:18
Alignment explanation
Indices: 25683044--25683081 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25683034 CAAAAGCAAC
25683044 TTTCTCGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
*
25683062 TTTCTTGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
25683080 TT
1 TT
25683082 GTAGCTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTCTCGATGCTATTAAA
Found at i:25688385 original size:16 final size:16
Alignment explanation
Indices: 25688364--25688398 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25688354 AACATAAAGA
*
25688364 TTTATTATTAATTATT
1 TTTATTATTAATAATT
*
25688380 TTTATTGTTAATAATT
1 TTTATTATTAATAATT
25688396 TTT
1 TTT
25688399 TAGTATAATC
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTATTATTAATAATT
Found at i:25692150 original size:18 final size:18
Alignment explanation
Indices: 25692127--25692180 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
25692117 CCACCACCAA
25692127 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
25692145 CTCCACT----AC-C-TA
1 CTCCACTAGCCACACTTG
25692157 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
25692175 CTCCAC
1 CTCCAC
25692181 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:25692160 original size:30 final size:30
Alignment explanation
Indices: 25692117--25692185 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
25692107 CTAGCCTTTG
25692117 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
25692147 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
25692177 CCACCACCA
1 CCACCACCA
25692186 CTTGTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:25692761 original size:25 final size:24
Alignment explanation
Indices: 25692733--25692807 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 24
25692723 ATTCTAAATT
25692733 CTATATTACGTATATATATATTATA
1 CTATATTA-GTATATATATATTATA
* *
25692758 CTATTTTATGTATATATCT-TTAATA
1 CTATATTA-GTATATATATATT-ATA
*
25692783 CTATATTATTATATATATATATATA
1 CTATATTAGTATATATATAT-TATA
25692808 TTTTACATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 10 0.24
25 30 0.73
26 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (24 bp):
CTATATTAGTATATATATATTATA
Found at i:25692872 original size:24 final size:23
Alignment explanation
Indices: 25692822--25692885 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 23
25692812 ACATGTTATC
*
25692822 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAACTATA
*
25692844 TTATGTATGTATTTTTACACTATA
1 TTATGTATATATTTTTA-ACTATA
*
25692868 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
25692886 TATTATCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 20 0.56
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:25693060 original size:16 final size:15
Alignment explanation
Indices: 25693036--25693070 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25693026 TAATTATTAT
25693036 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
25693052 TATTTTAATATTTTA
1 TATTCTAATATTTTA
25693067 TATT
1 TATT
25693071 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:25697212 original size:42 final size:42
Alignment explanation
Indices: 25697153--25697233 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
25697143 CTCATCTAGG
* *
25697153 GCAAGGAACATTTATGTCAAGTCCCGGAGCAACCTCTGCTAA
1 GCAAGGAACATTTATGTCAAATCCCGGAGCAACCCCTGCTAA
25697195 GCAAGGAACATTTATGTCAAATCCCGGAGCAACCCCTGC
1 GCAAGGAACATTTATGTCAAATCCCGGAGCAACCCCTGC
25697234 CAATCTTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (42 bp):
GCAAGGAACATTTATGTCAAATCCCGGAGCAACCCCTGCTAA
Found at i:25701585 original size:5 final size:5
Alignment explanation
Indices: 25701575--25701601 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25701565 ATGAGCATTC
25701575 AATCG AATCG AATCG AATCG AATCG AA
1 AATCG AATCG AATCG AATCG AATCG AA
25701602 AGTTTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AATCG
Found at i:25701898 original size:14 final size:14
Alignment explanation
Indices: 25701865--25701901 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
25701855 ACATCAACCC
*
25701865 AAATA-AACAACAA
1 AAATACAACAAAAA
25701878 AAA-ACAACAAAAA
1 AAATACAACAAAAA
25701891 AAATACAACAA
1 AAATACAACAA
25701902 GATTATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 13 0.62
14 7 0.33
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.05
Consensus pattern (14 bp):
AAATACAACAAAAA
Found at i:25702223 original size:214 final size:214
Alignment explanation
Indices: 25701958--25702357 Score: 669
Period size: 215 Copynumber: 1.9 Consensus size: 214
25701948 GTCGGAGTAA
* *
25701958 ACAACGACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACTTACACCACT
1 ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCACT
* * *
25702023 CCAAACAAAAAAAAA-AACACAACAAAAGTTCAATTAACCAACGACAATAACAAACCAAACCAAA
66 CCAAAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAA
*
25702087 CTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCA
131 CTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCA
25702152 AATAAACAACAAAAACAAT
196 AATAAACAACAAAAACAAT
*
25702171 ACAACAACATTGTAATTAAAAAAAACATAAGCAAAAA-TCCAAAATACAATAGAAACCTACACCA
1 ACAACAACATTATAA-TAAAAAAAACATAAG-AAAAAGTCCAAAATACAATAGAAACCTACACCA
* *
25702235 GTCCAAAAAAAAAAAAAGAACACAACAAAAGCTCAATTATCCAACAACAATAACAAACCAAACCA
64 CTCCAAAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCA
* *
25702300 AACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
129 AACTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
25702358 TTGTGCTTCA
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
213 13 0.08
214 56 0.32
215 104 0.60
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (214 bp):
ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCACT
CCAAAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACAAACCAAACCAAA
CTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCA
AATAAACAACAAAAACAAT
Found at i:25704776 original size:30 final size:30
Alignment explanation
Indices: 25704741--25704807 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
25704731 GTTAAATTAA
*
25704741 AAATTAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
25704771 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
25704801 AAATTAA
1 AAATTAA
25704808 AAATAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:25706837 original size:18 final size:17
Alignment explanation
Indices: 25706806--25706841 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
25706796 ATATAGTTTA
*
25706806 TATTCAGTTTTTCGAAT
1 TATTCAGTTATTCGAAT
25706823 TATTCGAGTTATTCGAAT
1 TATTC-AGTTATTCGAAT
25706841 T
1 T
25706842 CGAGAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (17 bp):
TATTCAGTTATTCGAAT
Found at i:25710743 original size:76 final size:74
Alignment explanation
Indices: 25710558--25711044 Score: 577
Period size: 76 Copynumber: 6.5 Consensus size: 74
25710548 CTACGGTTCA
* * * * * * * *
25710558 AAAAAATCAGCTCATATTGCGAGAGGTGAGCTGAGCCTTGACTGACATGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTCAAT
*
25710623 TTCTGCCTTTC
64 TTCTGTCTTTC
*
25710634 -AAAAACCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
25710698 CTGTCTTTC
66 CTGTCTTTC
* *
25710707 AAAAAAAATCAACTCATACTGCAAGAAGCGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAAT
1 --AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
25710772 TTCTGTCTTTC
64 TTCTGTCTTTC
*
25710783 AAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAAT
1 -AAAAAA-TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
25710848 TTCTGTCTTTC
64 TTCTGTCTTTC
** * * * * ** *
25710859 AAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCATCAAAACACCCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
25710924 CTGTCTTTC
66 CTGTCTTTC
* * * * * *
25710933 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-GAT
1 AAAA-AATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAAT
*
25710997 ATCTGT-TTTC
64 TTCTGTCTTTC
* * * *
25711007 -AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC
1 AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTC
25711045 GGATCACATG
Statistics
Matches: 370, Mismatches: 35, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
72 34 0.09
73 34 0.09
74 68 0.18
75 95 0.26
76 139 0.38
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (74 bp):
AAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
CTGTCTTTC
Found at i:25711076 original size:149 final size:149
Alignment explanation
Indices: 25710558--25711069 Score: 635
Period size: 149 Copynumber: 3.4 Consensus size: 149
25710548 CTACGGTTCA
* * * *
25710558 AAAAAATCAGCTCATATTGCGAGAGGTGAGCTGAGCCT-TGACTGACATGTTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACATG-TGAGGTATTTTCAA
* *
25710622 TTTCTGCCTTTC-AAAAACCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG
64 TTTCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG
25710686 TATTTTCAATTTCTGTCTTTC
129 TATTTTCAATTTCTGTCTTTC
* * * *
25710707 AAAAAAAATCAACTCATACTGCAAGAAGCGAGTTGAGCCTCAAGA-CACAT-TGAGGTATTTTCA
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGATCACATGTGAGGTATTTTCA
*
25710770 ATTTCTGTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTG
63 ATTTCTGTCTTTC-AAAAAA-TCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTG
25710835 AGGTATTTTCAATTTCTGTCTTTC
126 AGGTATTTTCAATTTCTGTCTTTC
* * * * ** *
25710859 AAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCATCAAAACAC-CCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATGTGAGGTATTTTCAATT
* * * * *
25710923 TCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
66 TCTGTCTTTCAAAA-AATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGT
* *
25710988 AATTTT-GATATCTGT-TTTC
130 -ATTTTCAATTTCTGTCTTTC
* *
25711007 -AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCGGATCACATGTCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATGT-GAGGTATTTTCAA
25711070 AATCTGTTTT
Statistics
Matches: 313, Mismatches: 37, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
147 39 0.12
148 5 0.02
149 92 0.29
150 68 0.22
151 41 0.13
152 66 0.21
153 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (149 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACATGTGAGGTATTTTCAATT
TCTGTCTTTCAAAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTA
TTTTCAATTTCTGTCTTTC
Found at i:25711180 original size:87 final size:86
Alignment explanation
Indices: 25711001--25711234 Score: 222
Period size: 87 Copynumber: 2.7 Consensus size: 86
25710991 TTTGATATCT
* * *
25711001 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCGGATCACATGTCGAGGTATTT
1 GTTTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATTT
*
25711066 TCAAAATCTGTTTTACAAATTTT
65 TCAAAATCTGTTTTA-AAATTTA
* * * * *
25711089 GTTTTAAAAATCAACTCATTTTGTGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTT
1 GTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTC-GAGCTATTT
** *
25711153 TCAATTTCTGTTTT-TAATGTCTA
65 TCAAAATCTGTTTTAAAAT-T-TA
* * * ** *
25711176 GTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTT-AAACTCAGGATCACATGCCGAG
1 GTTTTAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGTCGAG
25711235 TAAAGAATAA
Statistics
Matches: 118, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
85 3 0.03
86 2 0.02
87 73 0.62
88 39 0.33
89 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (86 bp):
GTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATTTT
CAAAATCTGTTTTAAAATTTA
Found at i:25712454 original size:2 final size:2
Alignment explanation
Indices: 25712447--25712505 Score: 54
Period size: 2 Copynumber: 30.5 Consensus size: 2
25712437 CTATATTACG
* *
25712447 TA TA TA TA T- TA TA CTA TA TA T- TT TA TT TA -A TA CTA TA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
25712487 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
25712506 TACATGTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
1 4 0.08
2 40 0.83
3 4 0.08
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:25712542 original size:22 final size:23
Alignment explanation
Indices: 25712487--25712578 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 23
25712477 TACTATATTA
* *
25712487 TATATATATATATATATATTACATGT
1 TATAT-TATGTATATATTTTACA--T
*
25712513 TATCTTATGTATATATTTTA-AT
1 TATATTATGTATATATTTTACAT
* *
25712535 TATATTATGTATGTATTTTTTACAC
1 TATATTATGTA--TATATTTTACAT
*
25712560 TATATTATGTACATATTTT
1 TATATTATGTATATATTTT
25712579 TAATATTATC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
22 11 0.20
23 6 0.11
24 9 0.16
25 25 0.45
26 4 0.07
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATTATGTATATATTTTACAT
Found at i:25712756 original size:16 final size:15
Alignment explanation
Indices: 25712732--25712766 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25712722 TAATTATTAT
25712732 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
25712748 TATTTTAATATTTTA
1 TATTCTAATATTTTA
25712763 TATT
1 TATT
25712767 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:25717622 original size:94 final size:91
Alignment explanation
Indices: 25717493--25717697 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 91
25717483 AACGGAAGCC
* * *
25717493 AATATTCAGAACAAACAAATCTAAAACTTTCTTTTAGAAAATATTCTACTTCACTATTAGACTTT
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGAC-TT
* *
25717558 CTTTTAAAATATTTTTTTCATTCTTGATA
65 CTTCTAAAATA--TTTTTCATTCCTGATA
* * * * * *
25717587 AATATTTAGAACAAATAAATATGAATCTTTTTTTTAGAAAATAGTCTATTTCACTTTTAGACTTC
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
*
25717652 TTCTAAAATATTTTTCATTCCTGTTA
66 TTCTAAAATATTTTTCATTCCTGATA
* *
25717678 AACATTGAGAACAAATAAAT
1 AATATTCAGAACAAATAAAT
25717698 CTAAGCTTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 32 0.33
93 12 0.12
94 53 0.55
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (91 bp):
AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
TTCTAAAATATTTTTCATTCCTGATA
Found at i:25728101 original size:20 final size:20
Alignment explanation
Indices: 25728059--25728102 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25728049 CTAAAATCGG
* *
25728059 AAAAAATAATGAAACATTTC
1 AAAAAATAATGAAAAATTGC
25728079 AAAAAATAA-GAAAAATTAGC
1 AAAAAATAATGAAAAATT-GC
25728099 AAAA
1 AAAA
25728103 TTTTCTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (20 bp):
AAAAAATAATGAAAAATTGC
Found at i:25729468 original size:27 final size:27
Alignment explanation
Indices: 25729410--25729803 Score: 210
Period size: 27 Copynumber: 14.7 Consensus size: 27
25729400 TTAGTTTACC
** * * *
25729410 AAATTACTGAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
25729437 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * ****
25729464 GAATTATCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** ** *
25729491 GAATTACTGTTTTACCCTTAATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
25729518 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
25729545 AAATTACTAAAATACCCTCGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
25729572 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
25729599 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * *
25729625 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
25729652 AAATTA-CAGAAATACCCTCAATTTGTA
1 AAATTACCA-AAATACCCTCGATTTATA
* *
25729679 AAATTACC-AAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
25729705 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* * * * *
25729732 AAATTATCGAAATTCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
25729759 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
*
25729786 AAGTTA-CAGAAATACCCT
1 AAATTACCA-AAATACCCT
25729804 TGACTTTCTA
Statistics
Matches: 297, Mismatches: 57, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 49 0.16
27 244 0.82
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:25729588 original size:54 final size:54
Alignment explanation
Indices: 25729530--25729886 Score: 233
Period size: 54 Copynumber: 6.6 Consensus size: 54
25729520 ATTACTATTT
** *
25729530 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACCAAAA
** * ** * *
25729584 TACCCTCGATCAGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACCAAAA
* * ** **
25729637 TACCCTTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACC-AAA
1 TACCCTCGATTTGTAAAATTACCA-AAATACCCTCGGTTTACAAAATTACCAAAA
* *** * *
25729690 TACCC-CTAGTTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTATCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTCGGTTTACAAAATTACCAAAA
* * * *
25729744 TTCCCTCAATTTGTAAAATTACCAAAATACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTC-GGTTTACAAAATTACCA-AAA
* * *** * * **
25729798 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTCGGTTTACAAAATTACCAAAA
* * * * * *
25729854 TGCCCTTGGTTTGTAGATTTACCAAAACACCCT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCT
25729887 TGTAGGATGA
Statistics
Matches: 234, Mismatches: 55, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
52 2 0.01
53 82 0.35
54 104 0.44
55 10 0.04
56 36 0.15
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACCAAAA
Found at i:25729653 original size:53 final size:54
Alignment explanation
Indices: 25729530--25729775 Score: 216
Period size: 53 Copynumber: 4.6 Consensus size: 54
25729520 ATTACTATTT
* ** * * ** *
25729530 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTAAAA
* ** *
25729584 TACCCTCGATCAGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTAAAA
*** * *
25729637 TACCCTTGGTTTGTAAAATTA-CAGAAATACCCTCAATTTGTAAAATTAC-CAAA
1 TACCCTCAATTTGTAAAATTACCA-AAATACCCTCAGTTTGTAAAATTACTAAAA
* * * *
25729690 TACCC-CTAGTTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTA-TCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTCAGTTTGTAAAATTACT-AAAA
*
25729744 TTCCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
25729776 CTGATTTACA
Statistics
Matches: 159, Mismatches: 25, Indels: 17
0.79 0.12 0.08
Matches are distributed among these distances:
52 2 0.01
53 81 0.51
54 75 0.47
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTAAAA
Found at i:25729655 original size:80 final size:79
Alignment explanation
Indices: 25729544--25729775 Score: 306
Period size: 80 Copynumber: 2.9 Consensus size: 79
25729534 CTCGATTTAC
* ** * **
25729544 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTCAATTTGTAAAATTACCAA
25729609 AATACCCTAGTTTGT
65 AATACCCTAGTTTGT
*
25729624 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGAAATACCCTCAATTTGTAAAATTACC-A
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACA-AAATACCCTCAATTTGTAAAATTACCAA
25729688 AATACCCCTAGTTTGT
65 AATA-CCCTAGTTTGT
* * * *
25729704 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTATCGAAATTCCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACC-CTTGGTTTGTAAAATTA-CAAAATACCCTCAATTTGTAAAATTACCA
25729768 AAATACCC
64 AAATACCC
25729776 CTGATTTACA
Statistics
Matches: 135, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
79 7 0.05
80 121 0.90
81 7 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (79 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCTAGTTTGT
Found at i:25729853 original size:27 final size:27
Alignment explanation
Indices: 25729814--25729865 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25729804 TGACTTTCTA
25729814 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
* *
25729841 AAAATTACT-GAAATGCCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
25729866 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:25730010 original size:27 final size:27
Alignment explanation
Indices: 25729919--25730010 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
25729909 ACCCCTATTA
*
25729919 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
25729946 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
25729973 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
25730000 GGTAAAATGAC
1 GGTAAAATGAC
25730011 GAAAATGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:25730838 original size:26 final size:26
Alignment explanation
Indices: 25730809--25730996 Score: 222
Period size: 26 Copynumber: 7.3 Consensus size: 26
25730799 GAGGAAGTGC
25730809 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
25730835 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
25730861 AAAAGGGCTTATACCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
25730887 AAAATGGCTGATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
25730913 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
25730939 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
25730964 AAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
25730987 AAAAGAGGCT
1 AAAAG-GGCT
25730997 AGGCCTCCAG
Statistics
Matches: 136, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
23 5 0.04
24 7 0.05
25 29 0.21
26 95 0.70
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:25730887 original size:52 final size:52
Alignment explanation
Indices: 25730809--25730973 Score: 287
Period size: 52 Copynumber: 3.2 Consensus size: 52
25730799 GAGGAAGTGC
*
25730809 AAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATACCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
* *
25730861 AAAAGGGCTTATACCCTAGTTTATTGAAAATGGCTGATGCCCCAGTTTACCG
1 AAAAGGGCTTATACCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
*
25730913 AAAAGGGCTTATACCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATACCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
25730964 AAAAGGGCTT
1 AAAAGGGCTT
25730974 TGCCCTAGTT
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 25 0.23
52 82 0.77
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATACCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
Found at i:25731247 original size:31 final size:31
Alignment explanation
Indices: 25731170--25731248 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25731160 CATTTACAGT
* *
25731170 AAAGGTTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25731201 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
25731232 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
25731249 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25742963 original size:3 final size:3
Alignment explanation
Indices: 25742957--25743017 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
25742947 CCTACTTAAC
*
25742957 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
25743005 TAT AAT TAT TAT T
1 TAT TAT TAT TAT T
25743018 CACTTTTACC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25752448 original size:11 final size:11
Alignment explanation
Indices: 25752432--25752462 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
25752422 CGAGTATTTA
25752432 CGATGTGAAAC
1 CGATGTGAAAC
25752443 CGATGTGAAAC
1 CGATGTGAAAC
25752454 CGATGTGAA
1 CGATGTGAA
25752463 TAAACAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (11 bp):
CGATGTGAAAC
Found at i:25754850 original size:44 final size:45
Alignment explanation
Indices: 25754802--25755273 Score: 143
Period size: 45 Copynumber: 10.5 Consensus size: 45
25754792 CTCTCTAAAA
** *
25754802 TTGCAGTAGAGCAGGTTGAAGACA-CAAGTCTTATCTT-CCTGAAG
1 TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTAT-TTCCCTGAAG
* *
25754846 TTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAG
* * * * * * * *
25754891 TTGCTA-TGGAACAGATTGAAG-CTATGAATAAATAGATCTTATCTCTCTAAAA
1 TTGC-AGTAGAGCAGACTGAAGAC-A-G----CA-A-ATCTTATTTCCCTGAAG
* * * * * * *
25754943 TTGCAATAGATCAGA-TCAA-A-A-CAAACCTTATCTCTCTGAAA
1 TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAG
* ** * * *
25754984 TTACAGTAGAGCAGGTTGAAGACA-CAAGTCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAG
* * *
25755028 TTACAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAG
* * * ** * * *
25755073 TTGCAGTGGAACAGATTGAA-ACTATAATTACATACCTTATCTCTCTAAAG
1 TTGCAGTAGAGCAGACTGAAGAC-AGCA--A-AT--CTTATTTCCCTGAAG
* * * * *
25755123 TTGCAGTAGAGCAGA-TCAA-A-ATG--AACCTTATCTCTCTAAAG
1 TTGCAGTAGAGCAGACTGAAGACA-GCAAATCTTATTTCCCTGAAG
* * * * * * *
25755164 TTGCAGTAGAGCAG-GTTAAAATTA-CAAGTCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGACTGAAGA-CAGCAAATCTTATTTCCCTGAAG
* * * *
25755208 TTGCAGTGGAACAGACTGAGGATAG-AGAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGACTGAAGACAGCA-AATCTTATTTCCCTGAAG
* * *
25755253 TTGCAGTGGAACAGATTGAAG
1 TTGCAGTAGAGCAGACTGAAG
25755274 CTATAAATAA
Statistics
Matches: 328, Mismatches: 67, Indels: 65
0.71 0.15 0.14
Matches are distributed among these distances:
41 58 0.18
42 5 0.02
43 3 0.01
44 92 0.28
45 104 0.32
46 2 0.01
47 2 0.01
48 2 0.01
49 5 0.02
50 26 0.08
51 5 0.02
52 24 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (45 bp):
TTGCAGTAGAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAG
Found at i:25754943 original size:182 final size:182
Alignment explanation
Indices: 25754636--25755401 Score: 1008
Period size: 182 Copynumber: 4.2 Consensus size: 182
25754626 GCAAGATTGG
* * * * * *
25754636 TGAAGACACAAGTCTTATCTACCTGAAGTTACAGCGAAGCAAACTGAAGATAGCAAATATTATTT
1 TGAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
**
25754701 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTATA
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTGCA
25754766 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
131 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
*
25754818 TGAAGACACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
*
25754883 CCCTGAAGTTGCTA-TGGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAAATTGC
66 CCCTGAAGTTGC-AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTGC
* * *
25754947 AATAGA-TCAGATCAAAACAAACCTTATCTCTCTGAAATTACAGTAGAGCAGGT
130 AGTAGAGT-AGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * * *
25755000 TGAAGACACAAGTCTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * * * *
25755065 CCCTGAAGTTGCAGTGGAACAGATTGAAACTAT-AAT-TACATACCTTATCTCTCTAAAGTTGCA
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTGCA
* ** *
25755128 GTAGAGCAGATCAAAATGAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGT
131 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * * * *
25755180 T-AAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAGGATAG-AGAATCTTAT
1 TGAAGA-CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA-AATCTTAT
* * *
25755243 TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTG
64 TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTG
* ** * * * *
25755308 CAGTAAAGTAGATCTTAGCAAACCTTATCTC-CTCGAAGTTGCAGTGGAGCAGGT
129 CAGTAGAGTAGATCAAAACAAACCTTATCTCTCT-AAAATTGCAGTAGAGCAGGT
* * * * *
25755362 TGAA-ATTACAAATCCTATTTCTCTGAAGTTGCAGTGGAGC
1 TGAAGA-CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
25755402 TATTAAAATG
Statistics
Matches: 517, Mismatches: 57, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
179 3 0.01
180 151 0.29
181 10 0.02
182 350 0.68
183 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (182 bp):
TGAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTGCA
GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
Found at i:25755163 original size:41 final size:43
Alignment explanation
Indices: 25754928--25755214 Score: 165
Period size: 41 Copynumber: 6.5 Consensus size: 43
25754918 ATAAATAGAT
* * * *
25754928 CTTATCTCTCTAAAATTGCAATAGATCAGATCAAAA-CA-AAC
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAATTACAAC
* * * * * *
25754969 CTTATCTCTCTGAAA-TTACAGTAGAGCAGGTTGAAGA-CACAAGT
1 CTTATCTCTCT-AAAGTTGCAGTAGAGCA-GATCAAAATTACAA-C
* * * * *
25755013 CTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAAGA-TAGCGAAT
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCAAAATTA-C-AAC
* * * * * *
25755058 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAACTATAATTACATAC
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGA-T----C-AAAATTACA-AC
*
25755108 CTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAA-T-GAAC
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAATTACAAC
* * *
25755149 CTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTAAAATTACAAGT
1 CTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAATTACAA-C
*
25755193 CTTATCTCCCTAAAGTTGCAGT
1 CTTATCTCTCTAAAGTTGCAGT
25755215 GGAACAGACT
Statistics
Matches: 196, Mismatches: 32, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
41 57 0.29
42 12 0.06
43 9 0.05
44 54 0.28
45 29 0.15
46 2 0.01
49 2 0.01
50 29 0.15
51 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (43 bp):
CTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAATTACAAC
Found at i:25755332 original size:362 final size:364
Alignment explanation
Indices: 25754636--25755365 Score: 1035
Period size: 362 Copynumber: 2.0 Consensus size: 364
25754626 GCAAGATTGG
* *
25754636 TGAAGACACAAGTCTTATCTACCTGAAGTTACAGCGAAGCAAACTGAAGATAGCAAATATTATTT
1 TGAAGACACAAGTCTTATCTACCTAAAGTTACAGAGAAGCAAACTGAAGATAGCAAATATTATTT
* * *
25754701 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAAATTATA
66 CCCTGAAGTTGCAGTGGAACAGATTGAAACTATGAATAAACAGACCTTATCTCTCTAAAATTACA
* *
25754766 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGTTGAAGACACAAGT
131 GTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGTTGAAAACACAAGT
* * *
25754831 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCT
196 CTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCT
* * *
25754896 ATGGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAAATTGCAATAGATCAGATCA
261 ATGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTAAAATTGCAATAAATCAGATCA
25754961 AAACAAACCTTATCT-CTCTGAAATTACAGTAGAGCAGGT
326 AAACAAACCTTATCTCCTC-GAAATTACAGTAGAGCAGGT
* * * *
25755000 TGAAGACACAAGTCTTATCTCCCTAAAGTTACAGTAG-AGCAGACTGAAGATAGCGAATCTTATT
1 TGAAGACACAAGTCTTATCTACCTAAAGTTACAG-AGAAGCAAACTGAAGATAGCAAATATTATT
* * * *
25755064 TCCCTGAAGTTGCAGTGGAACAGATTGAAACTAT-AAT-TACATACCTTATCTCTCTAAAGTTGC
65 TCCCTGAAGTTGCAGTGGAACAGATTGAAACTATGAATAAACAGACCTTATCTCTCTAAAATTAC
** * *
25755127 AGTAGAGCAGATCAAAATGAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTT-AAAATTACAA
130 AGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGTTGAAAA-CACAA
*
25755191 GTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAGGATAG-AGAATCTTATTTCCCTGAAGTT
194 GTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGATAGCA-AATCTTATTTCCCTGAAGTT
* * *
25755255 GC-AGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAAAGT-A
258 GCTA-TGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTAAAATTGCAATAAA-TCA
** * * * *
25755318 GATCTTAGCAAACCTTATCTCCTCGAAGTTGCAGTGGAGCAGGT
321 GATCAAAACAAACCTTATCTCCTCGAAATTACAGTAGAGCAGGT
25755362 TGAA
1 TGAA
25755366 ATTACAAATC
Statistics
Matches: 325, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
361 5 0.02
362 223 0.69
363 7 0.02
364 89 0.27
365 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (364 bp):
TGAAGACACAAGTCTTATCTACCTAAAGTTACAGAGAAGCAAACTGAAGATAGCAAATATTATTT
CCCTGAAGTTGCAGTGGAACAGATTGAAACTATGAATAAACAGACCTTATCTCTCTAAAATTACA
GTAGAGCAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGTTGAAAACACAAGT
CTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCT
ATGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTAAAATTGCAATAAATCAGATCA
AAACAAACCTTATCTCCTCGAAATTACAGTAGAGCAGGT
Found at i:25756956 original size:3 final size:3
Alignment explanation
Indices: 25756948--25757186 Score: 238
Period size: 3 Copynumber: 78.7 Consensus size: 3
25756938 CTAACACCAC
25756948 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
25756996 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
* * * * * *
25757044 TAT TAT AAC TAC TAC CACT T-T CTAT CTAT TAT TAT TA- TCT TAT T-T
1 TAT TAT TAT TAT TAT TA-T TAT -TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * *
25757089 AAAA TAT TGT TAT TAT TAT TAT CT-C TAT TAT TTT TAT TAT GGTAT T-T
1 -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT --TAT TAT
* *
25757136 TAT TAT TAT GT-T TAT TAT TAG TAT TAG TAT TAAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
25757182 TAT TA
1 TAT TA
25757187 CCATTATATT
Statistics
Matches: 200, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
2 7 0.04
3 180 0.90
4 10 0.05
5 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:25757138 original size:13 final size:11
Alignment explanation
Indices: 25757093--25757201 Score: 65
Period size: 12 Copynumber: 8.9 Consensus size: 11
25757083 TTATTTAAAA
25757093 TATTGTTATTAT
1 TATT-TTATTAT
* *
25757105 TATTATCTCTAT
1 TATTTTAT-TAT
25757117 TATTTTTATTAT
1 TA-TTTTATTAT
25757129 GGTATTTTATTAT
1 --TATTTTATTAT
25757142 TATGTTTATTAT
1 TAT-TTTATTAT
* *
25757154 TAGTATTAGTAT
1 TA-TTTTATTAT
25757166 TAATTATTATTAT
1 T-ATT-TTATTAT
**
25757179 TATTATTACCAT
1 TATT-TTATTAT
25757191 TATATTTATTA
1 TAT-TTTATTA
25757202 CTAATATTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
11 5 0.07
12 46 0.61
13 23 0.30
14 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:25757161 original size:34 final size:30
Alignment explanation
Indices: 25757101--25757201 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 30
25757091 AATATTGTTA
* **
25757101 TTATTATTATCTCTATTATTTTTATTATGGTATT
1 TTATTATTAT-TTTATTATTAGTATTA--GTA-T
25757135 TTATTATTATGTTTATTATTAGTATTAGTAT
1 TTATTATTAT-TTTATTATTAGTATTAGTAT
* **
25757166 TAATTATTATTATTATTATTACCATTA-TAT
1 TTATTATTATT-TTATTATTAGTATTAGTAT
25757196 TTATTA
1 TTATTA
25757202 CTAATATTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
30 9 0.16
31 23 0.40
32 3 0.05
34 23 0.40
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (30 bp):
TTATTATTATTTTATTATTAGTATTAGTAT
Found at i:25757173 original size:19 final size:19
Alignment explanation
Indices: 25757149--25757186 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25757139 TATTATGTTT
25757149 ATTATTAGTATTAGTATTA
1 ATTATTAGTATTAGTATTA
* *
25757168 ATTATTATTATTATTATTA
1 ATTATTAGTATTAGTATTA
25757187 CCATTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTATTAGTATTAGTATTA
Found at i:25762907 original size:14 final size:14
Alignment explanation
Indices: 25762883--25762924 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
25762873 ATGTTTAAGA
25762883 ACTTTTTATTTATT
1 ACTTTTTATTTATT
25762897 A-TTTATTATTT-TT
1 ACTTT-TTATTTATT
25762910 ACTTTTATATTTATT
1 ACTTTT-TATTTATT
25762925 TATCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (14 bp):
ACTTTTTATTTATT
Found at i:25770222 original size:39 final size:39
Alignment explanation
Indices: 25770175--25770357 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
25770165 AATGTTCGAG
25770175 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
25770214 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
25770253 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
25770292 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
25770332 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
25770358 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:25776333 original size:9 final size:9
Alignment explanation
Indices: 25776319--25776386 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
25776309 ATAAGTATAA
25776319 AATTAACCG
1 AATTAACCG
25776328 AATTAACCG
1 AATTAACCG
*
25776337 AATTAATCG
1 AATTAACCG
*
25776346 AATTAACTG
1 AATTAACCG
*
25776355 AATTACCCG
1 AATTAACCG
*
25776364 AATTACCCG
1 AATTAACCG
25776373 AATTAACCG
1 AATTAACCG
25776382 AATTA
1 AATTA
25776387 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:25777984 original size:8 final size:8
Alignment explanation
Indices: 25777949--25778002 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
25777939 TTAAAATACT
25777949 TAATAATAA
1 TAATAA-AA
25777958 TAAT-AAA
1 TAATAAAA
** *
25777965 TTTTAGAA
1 TAATAAAA
25777973 TAATAAAA
1 TAATAAAA
25777981 TAATAAAA
1 TAATAAAA
25777989 TAATAAAA
1 TAATAAAA
25777997 TAATAA
1 TAATAA
25778003 GAGCTGATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 4 0.11
8 30 0.79
9 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
TAATAAAA
Found at i:25778465 original size:12 final size:12
Alignment explanation
Indices: 25778442--25778473 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
25778432 AATATATTGT
25778442 ATATATTTTAGGC
1 ATATA-TTTAGGC
25778455 ATATATTTAGGC
1 ATATATTTAGGC
25778467 ATATATT
1 ATATATT
25778474 ATATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (12 bp):
ATATATTTAGGC
Found at i:25778492 original size:31 final size:31
Alignment explanation
Indices: 25778454--25778516 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
25778444 ATATTTTAGG
*
25778454 CATATATTTAGGCATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25778485 CATATATTTAGGAATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25778516 C
1 C
25778517 TATTCTCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (31 bp):
CATATATTTAGGAATATATTATATATCTTTC
Done.