Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold40
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: 3440810
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 28138 characters in sequence are not A, C, G, or T
File 16 of 24
Found at i:2078848 original size:27 final size:27
Alignment explanation
Indices: 2078812--2078878 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
2078802 AAATCTTAAA
2078812 ATTTTATTATTTTATTTAAATAAA-TCTT
1 ATTTT-TTATTTT-TTTAAATAAACTCTT
*
2078840 ATTTTTTATTACTTTTAAATAAACTCTT
1 ATTTTTTATT-TTTTTAAATAAACTCTT
* *
2078868 AGTTTATATTT
1 ATTTTTTATTT
2078879 AAATAAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTTTTATTTTTTTAAATAAACTCTT
Found at i:2079595 original size:88 final size:89
Alignment explanation
Indices: 2079491--2079656 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 89
2079481 AAATTTAAAA
* * * *
2079491 TTTTATTTATTTAATATTAAAATTAT-AATAAAATATAATTTTTAATTTTATATATTACACGAAC
1 TTTTATTCATTTAATATTAAAATTATCAATAAAATATAATTTTTAACTTTAAATATTACACCAAC
2079555 AATATTAAATAAAACCTTAAATAT
66 AATATTAAATAAAACCTTAAATAT
*
2079579 TTTTATTCATTTAATATTAAAATTATCAATAAAATATAATTTTTAACTTTAAATATTACACCATC
1 TTTTATTCATTTAATATTAAAATTATCAATAAAATATAATTTTTAACTTTAAATATTACACCAAC
2079644 AATATTAAATAAA
66 AATATTAAATAAA
2079657 GCATTCAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
88 25 0.35
89 47 0.65
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.45
Consensus pattern (89 bp):
TTTTATTCATTTAATATTAAAATTATCAATAAAATATAATTTTTAACTTTAAATATTACACCAAC
AATATTAAATAAAACCTTAAATAT
Found at i:2083926 original size:2 final size:2
Alignment explanation
Indices: 2083919--2083951 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2083909 ATACATTTCC
2083919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2083952 AAACCTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2084298 original size:16 final size:18
Alignment explanation
Indices: 2084263--2084299 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2084253 TATAATGAAC
*
2084263 ATTTTATCATTAAGATCT
1 ATTTAATCATTAAGATCT
2084281 ATTTAATCA-TAA-ATCT
1 ATTTAATCATTAAGATCT
2084297 ATT
1 ATT
2084300 CATTTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTAATCATTAAGATCT
Found at i:2087489 original size:29 final size:31
Alignment explanation
Indices: 2087440--2087507 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
2087430 CAATTATTAG
2087440 ATTTATATTTAATAATATAAA-TATATTT-AT
1 ATTTATATTTAATAATATAAATTA-ATTTAAT
*
2087470 -TTTATATTTAA-AATTTTAAATTAATTTAAT
1 ATTTATATTTAATAA-TATAAATTAATTTAAT
2087500 ATTTATAT
1 ATTTATAT
2087508 CGTATTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 2 0.06
29 20 0.61
30 4 0.12
31 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTATATTTAATAATATAAATTAATTTAAT
Found at i:2090818 original size:15 final size:16
Alignment explanation
Indices: 2090798--2090828 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2090788 TTTATGATTT
2090798 TATCTT-ATAAAAAAA
1 TATCTTGATAAAAAAA
2090813 TATCTTGATAAAAAAA
1 TATCTTGATAAAAAAA
2090829 GATTATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (16 bp):
TATCTTGATAAAAAAA
Found at i:2091908 original size:27 final size:27
Alignment explanation
Indices: 2091870--2091925 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2091860 GAGGGTATTG
*
2091870 AAAGATTGTCTTACATCATTAAGGATA
1 AAAGATTGTCTTACATCATAAAGGATA
2091897 AAAGATTGTCTTACATCATAAAGGATA
1 AAAGATTGTCTTACATCATAAAGGATA
2091924 AA
1 AA
2091926 TCAAGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (27 bp):
AAAGATTGTCTTACATCATAAAGGATA
Found at i:2100881 original size:21 final size:21
Alignment explanation
Indices: 2100810--2100881 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
2100800 ATAAAAAATT
*
2100810 AATTAAATTT-AATGTTATAAAA
1 AATTAATTTTAAAT-TT-TAAAA
** *
2100832 AATTAATATTATAAATGATATAA
1 AATTAAT-TT-TAAATTTTAAAA
*
2100855 ATTTAATTTTAAATTTTAAAA
1 AATTAATTTTAAATTTTAAAA
2100876 AATTAA
1 AATTAA
2100882 ATAATAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
21 14 0.37
22 8 0.21
23 12 0.32
24 1 0.03
25 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
AATTAATTTTAAATTTTAAAA
Found at i:2102475 original size:34 final size:33
Alignment explanation
Indices: 2102417--2102632 Score: 254
Period size: 34 Copynumber: 6.4 Consensus size: 33
2102407 ATACGTTGAT
* *
2102417 TTGATTAAATGGTGATTTGATGGTTTACCATTG
1 TTGATTAAATGGTGATTTGGTGGCTTACCATTG
* *
2102450 TTGATTAAATGAGTGATTTGGTGGTTTGCCATTG
1 TTGATTAAATG-GTGATTTGGTGGCTTACCATTG
* * *
2102484 TTGACTAAATGAGAGATTTGGTAGCTTACCATTG
1 TTGATTAAATG-GTGATTTGGTGGCTTACCATTG
** * *
2102518 TTGATTAAATGAGAAATTTGGTAGCTTACCATTA
1 TTGATTAAATG-GTGATTTGGTGGCTTACCATTG
2102552 TTGATTAAATGGTGATTTGGTGGCTTACCATTG
1 TTGATTAAATGGTGATTTGGTGGCTTACCATTG
* * *
2102585 TTGACTAAATGGTAGATTTGGTAGG-TTGCTATTG
1 TTGATTAAATGGT-GATTTGGT-GGCTTACCATTG
2102619 TTGATTAAATGGTG
1 TTGATTAAATGGTG
2102633 GTTTTTTACC
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
33 42 0.26
34 118 0.73
35 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (33 bp):
TTGATTAAATGGTGATTTGGTGGCTTACCATTG
Found at i:2102592 original size:101 final size:102
Alignment explanation
Indices: 2102441--2102629 Score: 301
Period size: 101 Copynumber: 1.9 Consensus size: 102
2102431 ATTTGATGGT
* * *
2102441 TTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTGCCATTGTTGACTAAATGAG-AGATTTGG
1 TTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACCATTGTTGACTAAATG-GTAGATTTGG
2102505 TAGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGC
65 TAGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGC
2102543 TTACCATTATTGATTAAATG-GTGATTTGGTGGCTTACCATTGTTGACTAAATGGTAGATTTGGT
1 TTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACCATTGTTGACTAAATGGTAGATTTGGT
* * *
2102607 AGGTTGCTATTGTTGATTAAATG
66 AGCTTACCATTGTTGATTAAATG
2102630 GTGGTTTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 1 0.01
101 60 0.75
102 19 0.24
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.41
Consensus pattern (102 bp):
TTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACCATTGTTGACTAAATGGTAGATTTGGT
AGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGC
Found at i:2107056 original size:34 final size:34
Alignment explanation
Indices: 2106998--2107214 Score: 251
Period size: 34 Copynumber: 6.4 Consensus size: 34
2106988 AAGTGGGAGA
*
2106998 ATTGTTGATTAAATG-GTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
* * * *
2107031 ATTATTGATTAAATGAGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
* * *
2107065 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
** *
2107099 ATTGTTGATTAAATGAGAAATTTGATAGCTTACC
1 ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
* *
2107133 ATTATTGATTAAAT-AGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
* * * *
2107166 ATTGTTGACTAAATG-GTAGATTTGGTAGGTTGCT
1 ATTGTTGATTAAATGAGT-GATTTGGTAGCTTACC
2107200 ATTGTTGATTAAATG
1 ATTGTTGATTAAATG
2107215 GTGGTTTTTT
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
33 43 0.28
34 112 0.72
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGAGTGATTTGGTAGCTTACC
Found at i:2107151 original size:101 final size:101
Alignment explanation
Indices: 2106998--2107215 Score: 330
Period size: 101 Copynumber: 2.2 Consensus size: 101
2106988 AAGTGGGAGA
** * * * *
2106998 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTATTGATTAAATGAGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTA
2107063 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
2107099 ATTGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAAT-AGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTT
* * * *
2107163 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCT
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
2107200 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
2107216 TGGTTTTTTA
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 1 0.01
101 77 0.73
102 28 0.26
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:2107957 original size:13 final size:13
Alignment explanation
Indices: 2107941--2107965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2107931 ATTTAAATTT
2107941 AATTTTAAAATAA
1 AATTTTAAAATAA
2107954 AATTTTAAAATA
1 AATTTTAAAATA
2107966 TTAATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTTTAAAATAA
Found at i:2109758 original size:3 final size:3
Alignment explanation
Indices: 2109750--2109775 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2109740 TGCCAACGGT
2109750 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
2109776 TGATGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2110384 original size:8 final size:8
Alignment explanation
Indices: 2110352--2110391 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
2110342 ATATAAAATT
2110352 TATATTTGA
1 TATATTT-A
*
2110361 TATATTAA
1 TATATTTA
2110369 TCATATTTA
1 T-ATATTTA
2110378 TATATTTA
1 TATATTTA
2110386 TATATT
1 TATATT
2110392 ATTAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (8 bp):
TATATTTA
Found at i:2110394 original size:19 final size:21
Alignment explanation
Indices: 2110372--2110416 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
2110362 ATATTAATCA
*
2110372 TATTTATATATT-TAT-ATAT
1 TATTTATATATTAAATAATAT
*
2110391 TATTAATATATTAAATAATAT
1 TATTTATATATTAAATAATAT
2110412 TATTT
1 TATTT
2110417 TATTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTATATATTAAATAATAT
Found at i:2110399 original size:25 final size:24
Alignment explanation
Indices: 2110338--2110399 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
2110328 GTTATTATTT
*
2110338 TATTATATAAAATTTATATTTGATA
1 TATTAT-TAATATTTATATTTGATA
* * *
2110363 TATTAATCATATTTATATATTTATA
1 TATTATTAATATTTATAT-TTGATA
2110388 TATTATTAATAT
1 TATTATTAATAT
2110400 ATTAAATAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTATTAATATTTATATTTGATA
Found at i:2110464 original size:25 final size:25
Alignment explanation
Indices: 2110433--2110480 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2110423 AAATTTTAAA
*
2110433 AATAAAAATAAATAATTTTATTTTT
1 AATAAAAATAAATAATTTAATTTTT
* *
2110458 AATAAAATTATATAATTTAATTT
1 AATAAAAATAAATAATTTAATTT
2110481 ACTAATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATAAAAATAAATAATTTAATTTTT
Found at i:2110543 original size:16 final size:16
Alignment explanation
Indices: 2110511--2110551 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2110501 TATATGTCAA
2110511 ATATAAATATTACTTT
1 ATATAAATATTACTTT
*
2110527 ATATATATATATA-TTT
1 ATATAAATAT-TACTTT
2110543 A-ATAAATAT
1 ATATAAATAT
2110552 CATTTTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 13 0.59
17 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAAATATTACTTT
Found at i:2111295 original size:24 final size:23
Alignment explanation
Indices: 2111246--2111295 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2111236 AAATATAATT
* *
2111246 TATTTTATATTTAAATTTTAAGA
1 TATTTTATATTTAAATTATAAAA
*
2111269 TATTTTATAATTTATATTATAAAA
1 TATTTTAT-ATTTAAATTATAAAA
2111293 TAT
1 TAT
2111296 GTGCATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTTTATATTTAAATTATAAAA
Found at i:2111556 original size:2 final size:2
Alignment explanation
Indices: 2111549--2111579 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2111539 TTAACTTTGT
*
2111549 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2111580 TGCAATGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2112207 original size:23 final size:22
Alignment explanation
Indices: 2112178--2112230 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
2112168 ATTTTATTTA
*
2112178 ATAAAAATTATTTAAAT-TTAATT
1 ATAAAAATT-TATAAATATTAA-T
2112201 ATAAAAATTTATAAATATTAAT
1 ATAAAAATTTATAAATATTAAT
2112223 ATAAAAAT
1 ATAAAAAT
2112231 AATATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAAAATTTATAAATATTAAT
Found at i:2112215 original size:22 final size:23
Alignment explanation
Indices: 2112178--2112236 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
2112168 ATTTTATTTA
*
2112178 ATAAAAATTATTTAAAT-TTAATT
1 ATAAAAATTATATAAATATTAA-T
2112201 ATAAAAATT-TATAAATATTAAT
1 ATAAAAATTATATAAATATTAAT
*
2112223 ATAAAAATAATATA
1 ATAAAAATTATATA
2112237 TTAATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAAAAATTATATAAATATTAAT
Found at i:2112236 original size:23 final size:22
Alignment explanation
Indices: 2112178--2112236 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
2112168 ATTTTATTTA
*
2112178 ATAAAAATTATTTAAATTTAATT
1 ATAAAAA-TATATAAATTTAATT
*
2112201 ATAAAAATTTATAAATATTAA-T
1 ATAAAAATATATAAAT-TTAATT
2112223 ATAAAAATAATATA
1 ATAAAAAT-ATATA
2112237 TTAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAAAATATATAAATTTAATT
Found at i:2112695 original size:30 final size:28
Alignment explanation
Indices: 2112636--2112695 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
2112626 TAAAATTTTA
*
2112636 TAAAAAATATACTTACCCTCTTAATATT
1 TAAAAAATATACTTACCCTCTTAAGATT
*
2112664 TAAAAAATACTTACTTATTCCT-TTAAGATT
1 TAAAAAATA--TACTTA-CCCTCTTAAGATT
2112694 TA
1 TA
2112696 GCTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.33
30 15 0.56
31 3 0.11
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAAAATATACTTACCCTCTTAAGATT
Found at i:2112970 original size:22 final size:22
Alignment explanation
Indices: 2112927--2112970 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2112917 TACTTTAAAT
*
2112927 TTAATTTTAATTCAATTATATA
1 TTAATTTTAAATCAATTATATA
*
2112949 TTAATTTTGAAATGAATT-TATA
1 TTAATTTT-AAATCAATTATATA
2112971 AAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTAATTTTAAATCAATTATATA
Found at i:2113190 original size:18 final size:19
Alignment explanation
Indices: 2113163--2113204 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
2113153 TAAATATAAA
* *
2113163 AAAATTATTTTTT-TGTTT
1 AAAATAATTTTTTATCTTT
2113181 AAAATAATTTTTTATCTTT
1 AAAATAATTTTTTATCTTT
2113200 AAAAT
1 AAAAT
2113205 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AAAATAATTTTTTATCTTT
Found at i:2113711 original size:20 final size:21
Alignment explanation
Indices: 2113686--2113735 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
2113676 CTTTTTTTAA
*
2113686 AACAAAAATAATAAAA-AAAT
1 AACAAAAAAAATAAAATAAAT
2113706 AACAAACAAAAAAATAAAATAAAT
1 AAC--A-AAAAAAATAAAATAAAT
2113730 AACAAA
1 AACAAA
2113736 CGAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 3 0.12
21 2 0.08
22 2 0.08
23 11 0.44
24 7 0.28
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (21 bp):
AACAAAAAAAATAAAATAAAT
Found at i:2113714 original size:24 final size:24
Alignment explanation
Indices: 2113685--2113736 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
2113675 TCTTTTTTTA
2113685 AAACAAAAATAATAAAA-AAATAAC
1 AAACAAAAA-AATAAAATAAATAAC
2113709 AAACAAAAAAATAAAATAAATAAC
1 AAACAAAAAAATAAAATAAATAAC
2113733 AAAC
1 AAAC
2113737 GAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (24 bp):
AAACAAAAAAATAAAATAAATAAC
Found at i:2115566 original size:22 final size:23
Alignment explanation
Indices: 2115530--2115573 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2115520 GAAATGAAAA
* *
2115530 TTTAAGTATTAAATTAATAATTT
1 TTTAAGTATCAAATTAAAAATTT
2115553 TTTAA-TATCAAATTAAAAATT
1 TTTAAGTATCAAATTAAAAATT
2115574 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAGTATCAAATTAAAAATTT
Found at i:2115798 original size:38 final size:37
Alignment explanation
Indices: 2115756--2115844 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 37
2115746 TGTAAATCTT
*
2115756 AAATATAATATGA-TTATAGATATAATAAAATATCAAAA
1 AAATATAATATGATTTA-AAATATAATAAAATAT-AAAA
* *
2115794 AAATAAAATAT-ATTTCAAAATATAATATAATATAAAA
1 AAATATAATATGATTT-AAAATATAATAAAATATAAAA
2115831 ATAATATAA-ATGAT
1 A-AATATAATATGAT
2115845 ATGAATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 8 0.19
38 34 0.79
39 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (37 bp):
AAATATAATATGATTTAAAATATAATAAAATATAAAA
Found at i:2115859 original size:8 final size:8
Alignment explanation
Indices: 2115811--2115911 Score: 60
Period size: 8 Copynumber: 11.9 Consensus size: 8
2115801 ATATATTTCA
2115811 AAATATAAT
1 AAATAT-AT
*
2115820 ATAATATAA
1 A-AATATAT
2115829 AAATAATAT
1 AAAT-ATAT
2115838 AAATGATAT
1 AAAT-ATAT
*
2115847 GAATATAT
1 AAATATAT
*
2115855 AAATATTT
1 AAATATAT
* * *
2115863 TAATTTTT
1 AAATATAT
2115871 AACATAT-T
1 AA-ATATAT
2115879 AAAGTTATAT
1 AAA--TATAT
2115889 AAATATAT
1 AAATATAT
* *
2115897 AAATTTTT
1 AAATATAT
2115905 AAATATA
1 AAATATA
2115912 ATTATAAATT
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
7 1 0.01
8 39 0.54
9 23 0.32
10 9 0.12
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (8 bp):
AAATATAT
Found at i:2115968 original size:22 final size:20
Alignment explanation
Indices: 2115915--2115971 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 20
2115905 AAATATAATT
*
2115915 ATAAATTT-ATAACATAAAA
1 ATAAATTTAAAAACATAAAA
*
2115934 AT-AATATAAAAACATAAATA
1 ATAAATTTAAAAACATAAA-A
2115954 ATAAAATTTAAAAACATA
1 AT-AAATTTAAAAACATA
2115972 TATTAATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.13
19 11 0.35
20 3 0.10
22 13 0.42
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAATTTAAAAACATAAAA
Found at i:2116184 original size:25 final size:24
Alignment explanation
Indices: 2116091--2116184 Score: 68
Period size: 25 Copynumber: 3.9 Consensus size: 24
2116081 ATAAAAACTT
*
2116091 ATTTTATTATTTAAATAATATTAAAA
1 ATTTTATTA-TTAAAT-ATAATAAAA
* * * *
2116117 A-TTTAATATT-AATAT-TTATAT
1 ATTTTATTATTAAATATAATAAAA
* *
2116138 ATTTTATAATTAAATTTAAATAAAA
1 ATTTTATTATTAAATAT-AATAAAA
2116163 ATTTTATTATTAAATAATAATA
1 ATTTTATTATTAAAT-ATAATA
2116185 TAAACAAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
21 5 0.10
22 9 0.17
23 7 0.13
24 2 0.04
25 27 0.52
26 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTATTATTAAATATAATAAAA
Found at i:2122680 original size:27 final size:27
Alignment explanation
Indices: 2122649--2122705 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
2122639 TTTAAGGTTG
* *
2122649 ATGATGGATTATTATTTTGTTAAGATA
1 ATGATGGATTAGTATTTCGTTAAGATA
*
2122676 ATGATGGATTAGTATTTCGTTATGATA
1 ATGATGGATTAGTATTTCGTTAAGATA
2122703 ATG
1 ATG
2122706 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (27 bp):
ATGATGGATTAGTATTTCGTTAAGATA
Found at i:2123443 original size:20 final size:20
Alignment explanation
Indices: 2123415--2123453 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2123405 AAGAATTGAA
2123415 GAGGAATACAAGAGAGGGAT
1 GAGGAATACAAGAGAGGGAT
* **
2123435 GAGGGATACTTGAGAGGGA
1 GAGGAATACAAGAGAGGGA
2123454 GAAGAGAGCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.44, T:0.13
Consensus pattern (20 bp):
GAGGAATACAAGAGAGGGAT
Found at i:2125529 original size:21 final size:22
Alignment explanation
Indices: 2125491--2125536 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2125481 ATCTGTTGAA
* **
2125491 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
2125512 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
2125534 ACT
1 ACT
2125537 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:2128150 original size:28 final size:27
Alignment explanation
Indices: 2128089--2128180 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 27
2128079 TAGCCACAAA
* * *
2128089 TTTTGACAAATA-AACA-AGCCTCCAT
1 TTTTGACAAATACAAAATAACCACCAT
* * *
2128114 ATTTGACAAATACAAAGGA-AACTACTAT
1 TTTTGACAAATACAAA--ATAACCACCAT
*
2128142 TTTTGACAAACACAAAATAACCACCAT
1 TTTTGACAAATACAAAATAACCACCAT
2128169 TTTTGACAAATA
1 TTTTGACAAATA
2128181 AATAAGTGGC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 11 0.21
26 3 0.06
27 18 0.35
28 20 0.38
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
TTTTGACAAATACAAAATAACCACCAT
Found at i:2138832 original size:2 final size:2
Alignment explanation
Indices: 2138825--2138864 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2138815 AGCTTATCGA
* *
2138825 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2138865 GTATGTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2138865 original size:10 final size:10
Alignment explanation
Indices: 2138826--2138868 Score: 77
Period size: 10 Copynumber: 4.3 Consensus size: 10
2138816 GCTTATCGAA
*
2138826 TATATATATA
1 TATATATATG
2138836 TATATATATG
1 TATATATATG
2138846 TATATATATG
1 TATATATATG
2138856 TATATATATG
1 TATATATATG
2138866 TAT
1 TAT
2138869 GTCAAATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:2140225 original size:6 final size:6
Alignment explanation
Indices: 2140206--2140268 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
2140196 AGACACCATG
* * *
2140206 CATATA CA-ATA CATATA CATATA CAATTATA TATATA TATATA TATATA
1 CATATA CATATA CATATA CATATA C-A-TATA CATATA CATATA CATATA
* *
2140255 TATATA TATATA CA
1 CATATA CATATA CA
2140269 CGCACACAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 5 0.10
6 41 0.79
7 2 0.04
8 4 0.08
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.40
Consensus pattern (6 bp):
CATATA
Found at i:2140240 original size:2 final size:2
Alignment explanation
Indices: 2140233--2140266 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2140223 CATATACAAT
2140233 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
2140267 CACGCACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2141831 original size:23 final size:22
Alignment explanation
Indices: 2141804--2141860 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
2141794 TTTTTTAAAA
2141804 TAAATAAATAAAAAG-TTATTTT
1 TAAATAAA-AAAAAGATTATTTT
*
2141826 TAAAATAAGAAAATAGATTATTTT
1 T-AAATAA-AAAAAAGATTATTTT
2141850 TAAATAAAAAA
1 TAAATAAAAAA
2141861 TTAGATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 5 0.16
23 17 0.55
24 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TAAATAAAAAAAAGATTATTTT
Found at i:2141861 original size:30 final size:30
Alignment explanation
Indices: 2141827--2141891 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
2141817 AGTTATTTTT
2141827 AAAATAAGA-AAATAGATTATT-TTTAAATAA
1 AAAATAAGATAAATA-ATTATTATTTAAA-AA
* * *
2141857 AAAATTAGATAATTAATTATTATTTCAAAA
1 AAAATAAGATAAATAATTATTATTTAAAAA
2141887 AAAAT
1 AAAAT
2141892 CCGTTAACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAATAAGATAAATAATTATTATTTAAAAA
Found at i:2141865 original size:23 final size:24
Alignment explanation
Indices: 2141819--2141866 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
2141809 AAATAAAAAG
2141819 TTATTTTTAAAATAAGAAAATAGA
1 TTATTTTTAAAATAAGAAAATAGA
2141843 TTATTTTT-AAATAA-AAAATTAGA
1 TTATTTTTAAAATAAGAAAA-TAGA
2141866 T
1 T
2141867 AATTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
TTATTTTTAAAATAAGAAAATAGA
Found at i:2142366 original size:2 final size:2
Alignment explanation
Indices: 2142359--2142407 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2142349 TCTAAAAATA
2142359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2142401 AT AT AT A
1 AT AT AT A
2142408 GTGCTTTAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2143369 original size:18 final size:18
Alignment explanation
Indices: 2143338--2143386 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
2143328 TATTGATAAT
*
2143338 TATTATTAAA-TTTAAAA
1 TATTAATAAATTTTAAAA
* *
2143355 TATTTATAAATTTTAATA
1 TATTAATAAATTTTAAAA
2143373 TATTAAT-AATTTTA
1 TATTAATAAATTTTA
2143387 TTATATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAATAAATTTTAAAA
Found at i:2143396 original size:29 final size:29
Alignment explanation
Indices: 2143358--2143449 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
2143348 TTTAAAATAT
*
2143358 TTATAAATTTTAATATATTAATAATTTTA
1 TTATATATTTTAATATATTAATAATTTTA
* *
2143387 TTATATATTTTGAA-ATATTTATAA-ATTA
1 TTATATATTTT-AATATATTAATAATTTTA
*
2143415 TTAT-T-TTATT-ATATTTTAATAATTTT-
1 TTATATATT-TTAATATATTAATAATTTTA
*
2143441 TTACATATT
1 TTATATATT
2143450 ATTTTTATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
25 1 0.02
26 13 0.26
27 6 0.12
28 9 0.18
29 19 0.38
30 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
TTATATATTTTAATATATTAATAATTTTA
Found at i:2143403 original size:47 final size:46
Alignment explanation
Indices: 2143310--2143413 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 46
2143300 AATTTTAATA
* * *
2143310 ATTTATATATTTATATTATATTGATAATTATTATTAAATTTAAAAT
1 ATTTATAAATTTATAATATATTAATAATTATTATTAAATTTAAAAT
*
2143356 ATTTATAAATTT-TAATATATTAATAATT-TTATTATATATTTTGAAAT
1 ATTTATAAATTTATAATATATTAATAATTATTATTA-A-A-TTTAAAAT
2143403 ATTTATAAATT
1 ATTTATAAATT
2143414 ATTATTTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 6 0.12
45 15 0.29
46 12 0.24
47 18 0.35
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (46 bp):
ATTTATAAATTTATAATATATTAATAATTATTATTAAATTTAAAAT
Found at i:2144217 original size:4 final size:4
Alignment explanation
Indices: 2144204--2144236 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
2144194 ATAAGATTAT
2144204 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
2144237 AACTGAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:2144217 original size:12 final size:13
Alignment explanation
Indices: 2144200--2144236 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
2144190 GAAAATAAGA
2144200 TTATTTTA-TTAT
1 TTATTTTATTTAT
2144212 TTA-TTTATTTAT
1 TTATTTTATTTAT
2144224 TTA-TTTATTTAT
1 TTATTTTATTTAT
2144236 T
1 T
2144237 AACTGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:2144566 original size:16 final size:16
Alignment explanation
Indices: 2144538--2144606 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 16
2144528 ATTTAAATTT
2144538 AATTTTAAATATATAAA
1 AATTTTAAATATA-AAA
2144555 AATTTT-AATATAAGAA
1 AATTTTAAATATAA-AA
*
2144571 TAATTTTTTAAATATATATA
1 -AA--TTTTAAATATA-AAA
*
2144591 AAGTTT-AATATAAAA
1 AATTTTAAATATAAAA
2144606 A
1 A
2144607 TAAAAGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 11 0.26
19 6 0.14
20 7 0.16
21 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTTTAAATATAAAA
Found at i:2144587 original size:36 final size:36
Alignment explanation
Indices: 2144540--2144609 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
2144530 TTAAATTTAA
* *
2144540 TTTTAAATATATAAAAATTTTAATATAAGAATAATT
1 TTTTAAATATATAAAAAGTTTAATATAAAAATAATT
*
2144576 TTTTAAATATATATAAAGTTTAATATAAAAATAA
1 TTTTAAATATATAAAAAGTTTAATATAAAAATAA
2144610 AAGAAAAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (36 bp):
TTTTAAATATATAAAAAGTTTAATATAAAAATAATT
Found at i:2144591 original size:18 final size:18
Alignment explanation
Indices: 2144538--2144592 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 18
2144528 ATTTAAATTT
2144538 AATTTTAAATATATA-AA
1 AATTTTAAATATATATAA
*
2144555 AATTTT-AATATA-AGAA
1 AATTTTAAATATATATAA
2144571 TAATTTTTTAAATATATATAA
1 -AA--TTTTAAATATATATAA
2144592 A
1 A
2144593 GTTTAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 1 0.03
16 8 0.26
17 8 0.26
19 4 0.13
20 7 0.23
21 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTTAAATATATATAA
Found at i:2147603 original size:28 final size:28
Alignment explanation
Indices: 2147571--2147632 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
2147561 ATTATATTTA
*
2147571 TATATTTTATTGTATTA-ATTTTAAATAT
1 TATATTTTATTGT-TTATAATTTAAATAT
*
2147599 TATA-TGTATTGTTTATAATTTAAATAT
1 TATATTTTATTGTTTATAATTTAAATAT
2147626 T-TATTTT
1 TATATTTT
2147633 TTTAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.17
27 20 0.69
28 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (28 bp):
TATATTTTATTGTTTATAATTTAAATAT
Found at i:2147640 original size:21 final size:22
Alignment explanation
Indices: 2147600--2147641 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2147590 TTTAAATATT
2147600 ATATGTATTGTTTATAATTTAA
1 ATATGTATTGTTTATAATTTAA
* *
2147622 ATATTTATT-TTTTTAATTTA
1 ATATGTATTGTTTATAATTTA
2147642 TTAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
ATATGTATTGTTTATAATTTAA
Found at i:2150228 original size:3 final size:3
Alignment explanation
Indices: 2150222--2150260 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2150212 TTTTTAAAAA
*
2150222 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2150261 TCCTTTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2150810 original size:16 final size:16
Alignment explanation
Indices: 2150791--2150859 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
2150781 TGTTAAGGTT
* *
2150791 ATTTTAGATTCAAATT
1 ATTTTAGATTTAAATC
* * *
2150807 ATTTCAAATTTAGATC
1 ATTTTAGATTTAAATC
2150823 ATTTTAGATTTAAATC
1 ATTTTAGATTTAAATC
* *
2150839 ATTTTAAATTTGAATC
1 ATTTTAGATTTAAATC
2150855 ATTTT
1 ATTTT
2150860 TTAGTTTGAG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (16 bp):
ATTTTAGATTTAAATC
Found at i:2150832 original size:32 final size:32
Alignment explanation
Indices: 2150791--2150859 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
2150781 TGTTAAGGTT
*
2150791 ATTTTAGATTCAAATTATTTCAAATTT-AGATC
1 ATTTTAGATTCAAATCATTTCAAATTTGA-ATC
* *
2150823 ATTTTAGATTTAAATCATTTTAAATTTGAATC
1 ATTTTAGATTCAAATCATTTCAAATTTGAATC
2150855 ATTTT
1 ATTTT
2150860 TTAGTTTGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (32 bp):
ATTTTAGATTCAAATCATTTCAAATTTGAATC
Found at i:2150964 original size:16 final size:16
Alignment explanation
Indices: 2150943--2150996 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2150933 TCGAGTTTAT
2150943 TTATTTTGGTTTTGAG
1 TTATTTTGGTTTTGAG
* *
2150959 TTATTTCAGGTTTAGA-
1 TTATTT-TGGTTTTGAG
2150975 TTATTTTGAGTTTTG-G
1 TTATTTTG-GTTTTGAG
2150991 TTATTT
1 TTATTT
2150997 CAAGTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 1 0.03
16 23 0.74
17 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.20, T:0.61
Consensus pattern (16 bp):
TTATTTTGGTTTTGAG
Found at i:2151023 original size:16 final size:17
Alignment explanation
Indices: 2150993--2151054 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 17
2150983 AGTTTTGGTT
2150993 ATTTCAAGTCATTTTAA
1 ATTTCAAGTCATTTTAA
* *
2151010 ATTT-AAGTCGTTTTAG
1 ATTTCAAGTCATTTTAA
*
2151026 A-TTC-AGAACATTTTAA
1 ATTTCAAG-TCATTTTAA
2151042 ATTT-AA-TCATTTT
1 ATTTCAAGTCATTTT
2151055 CAAGTTTGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
15 10 0.29
16 18 0.51
17 7 0.20
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (17 bp):
ATTTCAAGTCATTTTAA
Found at i:2151054 original size:15 final size:15
Alignment explanation
Indices: 2151001--2151054 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
2150991 TTATTTCAAG
2151001 TCATTTTAAATTTAA
1 TCATTTTAAATTTAA
* * *
2151016 GTCGTTTTAGATTCAGA
1 -TCATTTTAAATTTA-A
*
2151033 ACATTTTAAATTTAA
1 TCATTTTAAATTTAA
2151048 TCATTTT
1 TCATTTT
2151055 CAAGTTTGAG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 7 0.24
16 21 0.72
17 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.50
Consensus pattern (15 bp):
TCATTTTAAATTTAA
Found at i:2153827 original size:2 final size:2
Alignment explanation
Indices: 2153820--2153853 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2153810 AACATCCTTC
2153820 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2153854 AACAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2154324 original size:5 final size:5
Alignment explanation
Indices: 2154316--2154346 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2154306 AAAGGAAAGA
2154316 TTATT TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT T
2154347 AAAATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2160131 original size:39 final size:39
Alignment explanation
Indices: 2160088--2160165 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
2160078 AGTAAGGCCT
2160088 GGAGAAGCAGCAACAGCCGCATTTGATTCTGCTGCTTTA
1 GGAGAAGCAGCAACAGCCGCATTTGATTCTGCTGCTTTA
2160127 GGAGAAGCAGCAACAGCCGCATTTGATTCTGCTGCTTTA
1 GGAGAAGCAGCAACAGCCGCATTTGATTCTGCTGCTTTA
2160166 CTTCCAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
GGAGAAGCAGCAACAGCCGCATTTGATTCTGCTGCTTTA
Found at i:2163239 original size:22 final size:21
Alignment explanation
Indices: 2163213--2163266 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2163203 TTTAATTAAA
2163213 TTTTAAAAAATAAATAAATATT
1 TTTTAAAAAATAAATAAAT-TT
* * *
2163235 TTTTAAACAGTAAATATATTT
1 TTTTAAAAAATAAATAAATTT
*
2163256 TTTTATAAAAT
1 TTTTAAAAAAT
2163267 TATTGGGAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTAAAAAATAAATAAATTT
Found at i:2164301 original size:17 final size:18
Alignment explanation
Indices: 2164266--2164306 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2164256 GAATAGATAA
2164266 TATTATTTATATAAAAAT
1 TATTATTTATATAAAAAT
*
2164284 TATTATTT-TATTAAAAT
1 TATTATTTATATAAAAAT
*
2164301 TTTTAT
1 TATTAT
2164307 AAATATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTTATATAAAAAT
Found at i:2164325 original size:16 final size:16
Alignment explanation
Indices: 2164285--2164335 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
2164275 TATAAAAATT
*
2164285 ATTATTTT-ATTA-AA
1 ATTATTTTAAATATAA
2164299 ATT-TTTATAAATATAA
1 ATTATTT-TAAATATAA
2164315 ATTATTTTAAATAT-A
1 ATTATTTTAAATATAA
2164330 ATTATT
1 ATTATT
2164336 ATGTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 10 0.31
16 12 0.38
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATTTTAAATATAA
Found at i:2167080 original size:4 final size:4
Alignment explanation
Indices: 2167071--2167117 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
2167061 TTGGAAACAG
2167071 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2167118 TAAATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2174397 original size:6 final size:6
Alignment explanation
Indices: 2174380--2174420 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
2174370 TGGAAAAAAA
* *
2174380 GAAGAC GTAGAC GAAGAC GAACAC GAAGAC GAAGAC GAAGA
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGA
2174421 AGAAAGTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.17, G:0.32, T:0.02
Consensus pattern (6 bp):
GAAGAC
Found at i:2174896 original size:23 final size:22
Alignment explanation
Indices: 2174868--2174917 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
2174858 TAAAAAAATA
2174868 TATTTAATAAATATAATATATTT
1 TATTTAATAAATATAATATA-TT
* * *
2174891 TATTTAATATATGTATTATATT
1 TATTTAATAAATATAATATATT
2174913 TATTT
1 TATTT
2174918 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTAATAAATATAATATATT
Found at i:2180206 original size:189 final size:189
Alignment explanation
Indices: 2179884--2180256 Score: 676
Period size: 189 Copynumber: 2.0 Consensus size: 189
2179874 TGCCCTCAAC
*
2179884 AATATTACCATTAATTAGCAATAAATCCAAGTGATCTCTTCTCCAATCTACAATTTTTTTCCTAA
1 AATATTACCATTAATTAGCAATAAATCCAAGTGATCTCTTCTCCAATCTACAATTGTTTTCCTAA
* *
2179949 ATGACATGATTCTGGTGGGAAATCTAGTTGTTTTACATTAACATGCCCGATGTTGAGTCTGCCTC
66 ATGACATGATTCTGGTGGGAAATCTAGTTGTTTTACATTAACAAGCCCAATGTTGAGTCTGCCTC
* *
2180014 TAAAATTCAAGAAGTAAAGCTAATAATTACTTCACTAAATGTCAATAGAAGCACAAAAT
131 TAAAATTCAAGAAGTAAAGCTAATAACTACTTCACGAAATGTCAATAGAAGCACAAAAT
2180073 AATATTACCATTAATTAGCAATAAATCCAAGTGATCTCTTCTCCAATCTACAATTGTTTTCCTAA
1 AATATTACCATTAATTAGCAATAAATCCAAGTGATCTCTTCTCCAATCTACAATTGTTTTCCTAA
*
2180138 ATGACATTG-TTCTGGTGGGAAATCTAGTTGTTTTACATTAACAAGCCCAATGTTGAGTCTGTCT
66 ATGACA-TGATTCTGGTGGGAAATCTAGTTGTTTTACATTAACAAGCCCAATGTTGAGTCTGCCT
2180202 CTAAAATTCAAGAAGTAAAGCTAATAACTACTTCACGAAATGTCAATAGAAGCAC
130 CTAAAATTCAAGAAGTAAAGCTAATAACTACTTCACGAAATGTCAATAGAAGCAC
2180257 CAGATAGAAA
Statistics
Matches: 177, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
189 175 0.99
190 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (189 bp):
AATATTACCATTAATTAGCAATAAATCCAAGTGATCTCTTCTCCAATCTACAATTGTTTTCCTAA
ATGACATGATTCTGGTGGGAAATCTAGTTGTTTTACATTAACAAGCCCAATGTTGAGTCTGCCTC
TAAAATTCAAGAAGTAAAGCTAATAACTACTTCACGAAATGTCAATAGAAGCACAAAAT
Found at i:2183631 original size:19 final size:18
Alignment explanation
Indices: 2183607--2183648 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2183597 CAATATATAA
2183607 TATTATTTATATAAAATTT
1 TATTATTT-TATAAAATTT
*
2183626 TATTATTTTATTAAATTT
1 TATTATTTTATAAAATTT
2183644 T-TTAT
1 TATTAT
2183649 AAATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 8 0.36
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTTTATAAAATTT
Found at i:2183977 original size:3 final size:3
Alignment explanation
Indices: 2183969--2184013 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2183959 GCTTTGTTTA
2183969 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
2184014 AATACTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2184389 original size:2 final size:2
Alignment explanation
Indices: 2184376--2184406 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2184366 AAATTATAAT
*
2184376 TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2184407 GATGATGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2184965 original size:6 final size:6
Alignment explanation
Indices: 2184952--2185005 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
2184942 TTAATTTGAA
* *
2184952 TTAA-T TTAATT TTAATT TTAATT TT-A-- TTAAAT TTGA-T TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
2184995 TTAATT TTAAT
1 TTAATT TTAAT
2185006 GATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
3 2 0.05
4 1 0.02
5 9 0.21
6 30 0.71
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (6 bp):
TTAATT
Found at i:2184992 original size:32 final size:31
Alignment explanation
Indices: 2184955--2185032 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 31
2184945 ATTTGAATTA
**
2184955 ATTTAATTTTAATTTTAATTTTATTAAATTTG
1 ATTTAATTTTAATTTTAATGATA-TAAATTTG
*
2184987 ATTTAATTTTAATTTTAATGATATATATTTG
1 ATTTAATTTTAATTTTAATGATATAAATTTG
*
2185018 ATTTGATTTTTAATT
1 ATTT-AATTTTAATT
2185033 CATAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 11 0.27
32 30 0.73
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (31 bp):
ATTTAATTTTAATTTTAATGATATAAATTTG
Found at i:2185016 original size:26 final size:27
Alignment explanation
Indices: 2184962--2185031 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 27
2184952 TTAATTTAAT
* *
2184962 TTTAATTTTAATTTT-ATTAAATTTGA
1 TTTAATTTTAATTTTAATGAAATATGA
*
2184988 TTTAATTTTAATTTTAATGATATAT-A
1 TTTAATTTTAATTTTAATGAAATATGA
* * *
2185014 TTTGATTTGATTTTTAAT
1 TTTAATTTTAATTTTAAT
2185032 TCATAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 31 0.84
27 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (27 bp):
TTTAATTTTAATTTTAATGAAATATGA
Found at i:2185159 original size:19 final size:20
Alignment explanation
Indices: 2185137--2185178 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2185127 ATATTTTATT
*
2185137 TTTAAATTAGTATAAAAA-A
1 TTTAAAATAGTATAAAAATA
*
2185156 TTTAAAATATTATAAAAATA
1 TTTAAAATAGTATAAAAATA
2185176 TTT
1 TTT
2185179 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TTTAAAATAGTATAAAAATA
Found at i:2185472 original size:17 final size:17
Alignment explanation
Indices: 2185450--2185500 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2185440 CGATGATTTG
2185450 TTTTCATTTTCTAAAAA
1 TTTTCATTTTCTAAAAA
2185467 TTTTCA-TTTCTAAAAAGA
1 TTTTCATTTTCT-AAAA-A
2185485 TTTT-ATTTT-TAAAAA
1 TTTTCATTTTCTAAAAA
2185500 T
1 T
2185501 ATTGATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 12 0.39
18 8 0.26
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTCATTTTCTAAAAA
Found at i:2185750 original size:25 final size:24
Alignment explanation
Indices: 2185718--2185764 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
2185708 TTAAAATATA
2185718 AATATTTTA-AATATTATATTTAAAC
1 AATATTTTATAA-ATTA-ATTTAAAC
2185743 AATATTTTATAAATTAATTTAA
1 AATATTTTATAAATTAATTTAA
2185765 TTAAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.29
25 13 0.62
26 2 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATTTTATAAATTAATTTAAAC
Found at i:2186828 original size:5 final size:6
Alignment explanation
Indices: 2186806--2186835 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2186796 TTATTAAGAT
*
2186806 GAAAAT GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
2186836 AAGCTGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:2188086 original size:33 final size:36
Alignment explanation
Indices: 2188028--2188095 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 36
2188018 TTAATATTTA
*
2188028 ATAATAATAAAAATATTTTTATTTAAATTTAATTAT
1 ATAATAATAAAAATATATTTATTTAAATTTAATTAT
* *
2188064 ATAAT-ATAAAAA-ATATTT-TTTAATTTTTATTA
1 ATAATAATAAAAATATATTTATTTAAATTTAATTA
2188096 ATTACGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 12 0.41
34 5 0.17
35 7 0.24
36 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATAATAATAAAAATATATTTATTTAAATTTAATTAT
Found at i:2188685 original size:10 final size:11
Alignment explanation
Indices: 2188665--2188707 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
2188655 TATTTAATTT
2188665 TTTTAAAAAAA
1 TTTTAAAAAAA
2188676 TTTTAAAAAAA
1 TTTTAAAAAAA
** *
2188687 TTACATAAAAA
1 TTTTAAAAAAA
*
2188698 TATTAAAAAA
1 TTTTAAAAAA
2188708 TATAATGCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:2188937 original size:17 final size:17
Alignment explanation
Indices: 2188917--2188974 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
2188907 TAAATTTATT
2188917 TATTTTTATTATTTTTA
1 TATTTTTATTATTTTTA
* *
2188934 TATTATTTTATATAATATTA
1 TA-T-TTTTAT-TATTTTTA
*
2188954 TATTTTAATTATTTTTA
1 TATTTTTATTATTTTTA
2188971 TATT
1 TATT
2188975 ATATAATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 12 0.36
18 6 0.18
19 7 0.21
20 8 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTATTATTTTTA
Found at i:2188943 original size:10 final size:10
Alignment explanation
Indices: 2188911--2188976 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
2188901 ATTTAATAAA
2188911 TTTAT-TTAT
1 TTTATATTAT
2188920 TTT-TATTATT
1 TTTATATTA-T
2188930 TTTATATTAT
1 TTTATATTAT
*
2188940 TTTATA-TAA
1 TTTATATTAT
*
2188949 TAT-TA-TAT
1 TTTATATTAT
2188957 TTTA-ATTATT
1 TTTATATTA-T
2188967 TTTATATTAT
1 TTTATATTAT
2188977 ATAATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
8 8 0.17
9 12 0.26
10 17 0.37
11 9 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATATTAT
Found at i:2188959 original size:37 final size:35
Alignment explanation
Indices: 2188913--2188988 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 35
2188903 TTAATAAATT
* *
2188913 TATT-TATTTTTATTATTTTTATATTATTTTATATAA
1 TATTATATTTTAATTATTTTTATATTA-TATA-ATAA
2188949 TATTATATTTTAATTATTTTTATATTATATAATAA
1 TATTATATTTTAATTATTTTTATATTATATAATAA
2188984 TATTA
1 TATTA
2188989 CATCTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 9 0.24
36 7 0.19
37 21 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (35 bp):
TATTATATTTTAATTATTTTTATATTATATAATAA
Found at i:2189763 original size:15 final size:15
Alignment explanation
Indices: 2189745--2189783 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2189735 TATTTAAAAA
*
2189745 TAAAAATATAAAACT
1 TAAAAATAAAAAACT
* *
2189760 TAAATATAAAAAATT
1 TAAAAATAAAAAACT
2189775 TAAAAATAA
1 TAAAAATAA
2189784 TTAATAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATAAAAAACT
Found at i:2190641 original size:34 final size:34
Alignment explanation
Indices: 2190602--2190667 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
2190592 TTTTGAAATT
*
2190602 AAATTAATCAATATTTATAATAAAAAAT-TAATAA
1 AAATTAATCAATAATTAT-ATAAAAAATATAATAA
* * *
2190636 AAATTATTTAATAATTATTTAAAAAATATAAT
1 AAATTAATCAATAATTATATAAAAAATATAAT
2190668 TAATTAATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATTAATCAATAATTATATAAAAAATATAATAA
Found at i:2190714 original size:20 final size:23
Alignment explanation
Indices: 2190658--2190714 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
2190648 AATTATTTAA
2190658 AAAATATAATTAATTAATGCAGTT
1 AAAA-ATAATTAATTAATGCAGTT
*
2190682 AAAAATTATTTAATT-AT-CA-TT
1 AAAAA-TAATTAATTAATGCAGTT
*
2190703 TAAAATAATTAA
1 AAAAATAATTAA
2190715 ATTTAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 6 0.21
21 6 0.21
22 2 0.07
23 3 0.10
24 12 0.41
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAAATAATTAATTAATGCAGTT
Found at i:2190810 original size:14 final size:15
Alignment explanation
Indices: 2190787--2190822 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
2190777 AAGATACTTA
2190787 TTAATATTTTTAT-T
1 TTAATATTTTTATAT
*
2190801 TTAATTTTTTTATAT
1 TTAATATTTTTATAT
2190816 TTAATAT
1 TTAATAT
2190823 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATATTTTTATAT
Found at i:2191176 original size:18 final size:19
Alignment explanation
Indices: 2191153--2191192 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
2191143 TTAAAAAAAT
2191153 AAAATTAATTTT-TTTAAA
1 AAAATTAATTTTATTTAAA
*
2191171 AAAATTGATTTTAATTTAAA
1 AAAATTAATTTT-ATTTAAA
2191191 AA
1 AA
2191193 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
AAAATTAATTTTATTTAAA
Found at i:2191271 original size:22 final size:22
Alignment explanation
Indices: 2191218--2191271 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2191208 TATTTTTATA
*
2191218 AATA-TATATTTTTAATTTAATT
1 AATATTAT-TTTTTAATTAAATT
** *
2191240 TTTATAATTTTTTAATTAAATT
1 AATATTATTTTTTAATTAAATT
2191262 AATATTATTT
1 AATATTATTT
2191272 AATTTATGAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTATTTTTTAATTAAATT
Found at i:2192701 original size:14 final size:14
Alignment explanation
Indices: 2192682--2192710 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2192672 GCAAGACTCA
2192682 AATTCAAATCTTGT
1 AATTCAAATCTTGT
2192696 AATTCAAATCTTGT
1 AATTCAAATCTTGT
2192710 A
1 A
2192711 TGAATCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTCAAATCTTGT
Found at i:2192765 original size:3 final size:3
Alignment explanation
Indices: 2192757--2192798 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
2192747 TAATTACCTC
*
2192757 TAT TAT TAT TGT 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
2192799 ACTCCTCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2194031 original size:20 final size:20
Alignment explanation
Indices: 2194008--2194046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2193998 TATTATTTAA
* *
2194008 AATATATAATACTATTTATT
1 AATAAATAAAACTATTTATT
*
2194028 AATAAATAAAATTATTTAT
1 AATAAATAAAACTATTTAT
2194047 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAAATAAAACTATTTATT
Found at i:2194091 original size:31 final size:32
Alignment explanation
Indices: 2194035--2194096 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
2194025 ATTAATAAAT
**
2194035 AAAATTATTTATATTTATTTTTAAAA-ATTAA
1 AAAATTATTTATATTTATTAATAAAATATTAA
2194066 AAAATTATATT-TATTTATTAATAAAATATTA
1 AAAATTAT-TTATATTTATTAATAAAATATTA
2194097 TAATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AAAATTATTTATATTTATTAATAAAATATTAA
Found at i:2194615 original size:18 final size:17
Alignment explanation
Indices: 2194588--2194626 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2194578 TGACCTGTTT
*
2194588 TTTAATATTATAATTAAA
1 TTTAAAATTATAA-TAAA
*
2194606 TTTAAAATTATTATAAA
1 TTTAAAATTATAATAAA
2194623 TTTA
1 TTTA
2194627 TATAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATTATAATAAA
Found at i:2197186 original size:48 final size:49
Alignment explanation
Indices: 2197088--2197187 Score: 175
Period size: 48 Copynumber: 2.0 Consensus size: 49
2197078 TTAAGATTTG
2197088 ATAATTTTAAATAAATATAATATAATTTTTGATAAATATGAAATTTAGAA
1 ATAATTTTAAATAAATATAATATAA-TTTTGATAAATATGAAATTTAGAA
*
2197138 ATAATTTTAGATAAATATAATATAA-TTTGATAAATATGAAATTTAGAA
1 ATAATTTTAAATAAATATAATATAATTTTGATAAATATGAAATTTAGAA
2197186 AT
1 AT
2197188 GATTAACATA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 25 0.51
50 24 0.49
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (49 bp):
ATAATTTTAAATAAATATAATATAATTTTGATAAATATGAAATTTAGAA
Found at i:2197338 original size:48 final size:48
Alignment explanation
Indices: 2197247--2197343 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
2197237 ATAATCTTGT
***
2197247 TAATTTTAGACAAATATAATATAATTTGATAAATATGCTATTTAAAAA
1 TAATTTTAGACAAATATAATATAATTTGATAAATATAAAATTTAAAAA
*
2197295 TAATTTTAGACAAATATAATATAATTTGATAAATATAAAATTTAGAAA
1 TAATTTTAGACAAATATAATATAATTTGATAAATATAAAATTTAAAAA
2197343 T
1 T
2197344 GATTAACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (48 bp):
TAATTTTAGACAAATATAATATAATTTGATAAATATAAAATTTAAAAA
Found at i:2197415 original size:17 final size:17
Alignment explanation
Indices: 2197393--2197445 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2197383 TCAATTCATG
2197393 TTTAAAATTATAATATA
1 TTTAAAATTATAATATA
* *
2197410 TTTAAATTTATATTATA
1 TTTAAAATTATAATATA
2197427 TTTATATAATTA-AATATA
1 TTTA-A-AATTATAATATA
2197445 T
1 T
2197446 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 19 0.63
18 7 0.23
19 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAAATTATAATATA
Found at i:2197445 original size:2 final size:2
Alignment explanation
Indices: 2197418--2197468 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
2197408 TATTTAAATT
* *
2197418 TA TA T- TA TA TT TA TA TA -A T- TA AA 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
2197457 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
2197469 GCATAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2197754 original size:29 final size:28
Alignment explanation
Indices: 2197722--2197778 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2197712 TTTAATCTTT
2197722 TATAA-TTAAAAATATATAATTTAATTTAA
1 TATAATTTAAAAA-A-ATAATTTAATTTAA
*
2197751 TATAATTTTTAAAAAATAATTTAATTTA
1 TATAA-TTTAAAAAAATAATTTAATTTA
2197779 TTCTATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 18 0.72
30 1 0.04
31 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAATTTAAAAAAATAATTTAATTTAA
Found at i:2197901 original size:17 final size:19
Alignment explanation
Indices: 2197881--2197923 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
2197871 TATCAAACAT
2197881 ATTAAAAATATTT-AAT-C
1 ATTAAAAATATTTAAATAC
*
2197898 ATTAAAAATTTTTAAATAC
1 ATTAAAAATATTTAAATAC
2197917 ATTAAAA
1 ATTAAAA
2197924 TTTTCAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAAATATTTAAATAC
Found at i:2198173 original size:31 final size:30
Alignment explanation
Indices: 2198138--2198207 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
2198128 CATAATGAAG
*
2198138 TTTTTTAATTATATTTTGCATATAAATAATA
1 TTTTTTAATTAT-TTTTACATATAAATAATA
* *
2198169 TTTTTTAATTATTTTTACATATCATTAATA
1 TTTTTTAATTATTTTTACATATAAATAATA
2198199 TTTTATTAA
1 TTTT-TTAA
2198208 ATAAATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTTTAATTATTTTTACATATAAATAATA
Found at i:2198421 original size:2 final size:2
Alignment explanation
Indices: 2198414--2198445 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2198404 ATCCAATTTC
*
2198414 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2198446 CACTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2198597 original size:20 final size:20
Alignment explanation
Indices: 2198569--2198608 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2198559 TTTTTAATGG
2198569 AAATAGGTAATTAGATTTTT
1 AAATAGGTAATTAGATTTTT
* *
2198589 AAATTGGTAATTATATTTTT
1 AAATAGGTAATTAGATTTTT
2198609 CATTTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
AAATAGGTAATTAGATTTTT
Found at i:2200034 original size:13 final size:13
Alignment explanation
Indices: 2200016--2200040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2200006 TAGATTTTTG
2200016 TGTCAAGTACTTA
1 TGTCAAGTACTTA
2200029 TGTCAAGTACTT
1 TGTCAAGTACTT
2200041 GTACTAAAAT
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTCAAGTACTTA
Found at i:2204095 original size:23 final size:23
Alignment explanation
Indices: 2204064--2204107 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2204054 TTTTCCTTTC
* * *
2204064 CTTAGATCTAGACTAGAACATTT
1 CTTAAATCTAAACTAAAACATTT
2204087 CTTAAATCTAAACTAAAACAT
1 CTTAAATCTAAACTAAAACAT
2204108 CAATGTTCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (23 bp):
CTTAAATCTAAACTAAAACATTT
Found at i:2204208 original size:3 final size:3
Alignment explanation
Indices: 2204200--2204227 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2204190 ATCATATTTA
2204200 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2204228 GATATTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2204212 original size:15 final size:15
Alignment explanation
Indices: 2204175--2204233 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
2204165 AATTTTAATA
2204175 TATTTATATATATATAT
1 TATTTATAT-TAT-TAT
2204192 CATATTTATATTATTAT
1 --TATTTATATTATTAT
2204209 TA-TTATTATTATTAT
1 TATTTA-TATTATTAT
*
2204224 TATTGATATT
1 TATTTATATT
2204234 GAATTGTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 3 0.08
15 17 0.46
16 2 0.05
17 3 0.08
18 3 0.08
19 9 0.24
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTATATTATTAT
Found at i:2204774 original size:15 final size:15
Alignment explanation
Indices: 2204754--2204784 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2204744 GTTAAAAACT
2204754 GCAGTGAGATCAACC
1 GCAGTGAGATCAACC
2204769 GCAGTGAGATCAACC
1 GCAGTGAGATCAACC
2204784 G
1 G
2204785 ATTCCCATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.29, T:0.13
Consensus pattern (15 bp):
GCAGTGAGATCAACC
Found at i:2210436 original size:16 final size:18
Alignment explanation
Indices: 2210417--2210449 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2210407 AATTTAGTTA
2210417 AATTTT-ATT-TTTATAT
1 AATTTTAATTATTTATAT
2210433 AATTTTAATTATTTATA
1 AATTTTAATTATTTATA
2210450 ATATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTAATTATTTATAT
Found at i:2211345 original size:21 final size:19
Alignment explanation
Indices: 2211276--2211341 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
2211266 ATTTTATTAT
*
2211276 TAAATATAATAATATAT-AA
1 TAAATAT-ATAATATTTAAA
* *
2211295 TAAAAATAT-ATATTTAAT
1 TAAATATATAATATTTAAA
2211313 TAAATAGTATAATATTTAACA
1 TAAATA-TATAATATTTAA-A
2211334 TAAATATA
1 TAAATATA
2211342 ATAAGTCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 5 0.13
18 8 0.21
19 9 0.24
20 10 0.26
21 6 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAATATATAATATTTAAA
Found at i:2213562 original size:27 final size:30
Alignment explanation
Indices: 2213524--2213584 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
2213514 ATTATATTAA
*
2213524 ATTTAAATT-A-ATTT-TTAATTTAAATTT
1 ATTTAAATTAATATTTATTAATTAAAATTT
2213551 ATTTAAATTAATATTTATTAATTAAAATTT
1 ATTTAAATTAATATTTATTAATTAAAATTT
2213581 -TTTA
1 ATTTA
2213585 TTTAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.30
28 1 0.03
29 8 0.27
30 12 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTAAATTAATATTTATTAATTAAAATTT
Found at i:2213566 original size:16 final size:15
Alignment explanation
Indices: 2213524--2213594 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 15
2213514 ATTATATTAA
2213524 ATTTAAATT-AA-TT
1 ATTTAAATTAAATTT
*
2213537 -TTTAATTTAAATTT
1 ATTTAAATTAAATTT
2213551 ATTTAAATTAATATTT
1 ATTTAAATTAA-ATTT
2213567 A-TT-AATTAAAATTT
1 ATTTAAATT-AAATTT
*
2213581 -TTT-ATTTAAATTT
1 ATTTAAATTAAATTT
2213594 A
1 A
2213595 ATTATAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
12 7 0.15
13 8 0.17
14 15 0.31
15 13 0.27
16 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTAAATTAAATTT
Found at i:2213599 original size:14 final size:14
Alignment explanation
Indices: 2213533--2213594 Score: 65
Period size: 13 Copynumber: 4.4 Consensus size: 14
2213523 AATTTAAATT
2213533 AATTT-TTAATTTA
1 AATTTATTAATTTA
*
2213546 AATTTATTTAAATTA
1 AATTTA-TTAATTTA
*
2213561 ATATTTATTAATTAA
1 A-ATTTATTAATTTA
*
2213576 AATTT-TTTATTTA
1 AATTTATTAATTTA
2213589 AATTTA
1 AATTTA
2213595 ATTATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 16 0.40
14 4 0.10
15 15 0.38
16 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTATTAATTTA
Found at i:2213607 original size:43 final size:41
Alignment explanation
Indices: 2213533--2213620 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 41
2213523 AATTTAAATT
* *
2213533 AATTTTTAATTTAAATTTATTTAAATTAATATTTATTAATTAA
1 AATTTTTAATTTAAATTTATTTAAA-TAATATATAAT-ATTAA
*
2213576 AATTTTTTATTTAAATTTAATTATAAA-AATATATAATATTAA
1 AATTTTTAATTTAAATTT-ATT-TAAATAATATATAATATTAA
2213618 AAT
1 AAT
2213621 AAAAGGGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
42 8 0.20
43 25 0.62
44 3 0.08
45 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (41 bp):
AATTTTTAATTTAAATTTATTTAAATAATATATAATATTAA
Found at i:2213971 original size:11 final size:11
Alignment explanation
Indices: 2213957--2213981 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2213947 TATTAAAAAA
2213957 ATAATATAAAT
1 ATAATATAAAT
2213968 ATAATATAAAT
1 ATAATATAAAT
2213979 ATA
1 ATA
2213982 CGAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:2214623 original size:16 final size:16
Alignment explanation
Indices: 2214594--2214629 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2214584 ATGTGATAAA
2214594 AATT-ATATAATATAT
1 AATTAATATAATATAT
*
2214609 AATTAATATATTATAT
1 AATTAATATAATATAT
2214625 AATTA
1 AATTA
2214630 GAAAAACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATATAATATAT
Done.