Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold206
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: 2736418
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 22040 characters in sequence are not A, C, G, or T
File 7 of 20
Found at i:885715 original size:32 final size:33
Alignment explanation
Indices: 885679--885762 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 33
885669 TGTTCGTATT
*
885679 TTTATTTTTTTGTATATTTTAAATA-TTAAAAA
1 TTTATTTTTTTGTATATTTTAAATAGATAAAAA
* *
885711 TTTATTTATTTTTTAT-TTTTATATAGATAAAAA
1 TTTATTT-TTTTGTATATTTTAAATAGATAAAAA
* * *
885744 ATTATATTTATGT-TATTTT
1 TTTATTTTTTTGTATATTTT
885763 TTATATTGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
31 1 0.02
32 23 0.55
33 18 0.43
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
TTTATTTTTTTGTATATTTTAAATAGATAAAAA
Found at i:885768 original size:18 final size:19
Alignment explanation
Indices: 885745--885781 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
885735 AGATAAAAAA
885745 TTATATT-TATGTTATTTT
1 TTATATTGTATGTTATTTT
*
885763 TTATATTGTATTTTATTTT
1 TTATATTGTATGTTATTTT
885782 AATTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTATATTGTATGTTATTTT
Found at i:887652 original size:12 final size:12
Alignment explanation
Indices: 887622--887646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
887612 TAAATATGTT
887622 AAATTTTTTAAA
1 AAATTTTTTAAA
887634 AAATTTTTTAAA
1 AAATTTTTTAAA
887646 A
1 A
887647 TTTTTTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTTTAAA
Found at i:891262 original size:95 final size:95
Alignment explanation
Indices: 891099--891290 Score: 348
Period size: 95 Copynumber: 2.0 Consensus size: 95
891089 ACCACAAGGT
* *
891099 TTAATCTCTCGCAAACCTCTGCATTTTTTACTGCTTTTGATCTTCCTAAGAAATTTAGATGGATA
1 TTAATCTCTCGCAAACCTCTGCATTTTTGACTGCTTTTAATCTTCCTAAGAAATTTAGATGGATA
891164 AATTACCAGTCTTCATGCTTCTTTATCATA
66 AATTACCAGTCTTCATGCTTCTTTATCATA
*
891194 TTAATCTCTTGCAAACCTCTGCATTTTTGACTGCTTTTAATCTTCCTAAGAAATTTAGATGGATA
1 TTAATCTCTCGCAAACCTCTGCATTTTTGACTGCTTTTAATCTTCCTAAGAAATTTAGATGGATA
*
891259 AATTACCATTCTTCATGCTTCTTTATCATA
66 AATTACCAGTCTTCATGCTTCTTTATCATA
891289 TT
1 TT
891291 TTATCATTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (95 bp):
TTAATCTCTCGCAAACCTCTGCATTTTTGACTGCTTTTAATCTTCCTAAGAAATTTAGATGGATA
AATTACCAGTCTTCATGCTTCTTTATCATA
Found at i:894149 original size:2 final size:2
Alignment explanation
Indices: 894144--894189 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
894134 GTCTCGTAAT
* *
894144 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TG TA T- 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
*
894185 GA TA T
1 TA TA T
894190 TTAAATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:894383 original size:17 final size:18
Alignment explanation
Indices: 894363--894398 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
894353 TAAAATAACA
*
894363 TTTTTATA-ATTTTATTT
1 TTTTTATATATTTCATTT
894380 TTTTTATATATTTCATTT
1 TTTTTATATATTTCATTT
894398 T
1 T
894399 GGGTTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATATTTCATTT
Found at i:896348 original size:12 final size:12
Alignment explanation
Indices: 896333--896378 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
896323 AAAAAAATTA
896333 AAATATAATATG
1 AAATATAATATG
896345 AAATATAATATG
1 AAATATAATATG
* *
896357 -AATAAAATACG
1 AAATATAATATG
896368 -AATAT-ATATG
1 AAATATAATATG
896378 A
1 A
896379 CTAAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 4 0.14
11 13 0.45
12 12 0.41
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (12 bp):
AAATATAATATG
Found at i:897027 original size:23 final size:23
Alignment explanation
Indices: 896991--897041 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
896981 TCTTACTTGT
* *
896991 ATTAATTTTTAAATTTATAAAAA
1 ATTAAGTTTCAAATTTATAAAAA
897014 ATTAAGTTTCAAATTTATAAAAA
1 ATTAAGTTTCAAATTTATAAAAA
897037 ATTAA
1 ATTAA
897042 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAGTTTCAAATTTATAAAAA
Found at i:897794 original size:22 final size:21
Alignment explanation
Indices: 897769--897832 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
897759 TGATAACTAA
897769 AAATTAATCAAATTAATTAATT
1 AAATTAAT-AAATTAATTAATT
**
897791 AAATTAATATTTTAAGTTAATT
1 AAATTAATAAATTAA-TTAATT
*
897813 AAATTTATTAAATTAATTAA
1 AAA-TTAATAAATTAATTAA
897833 ACTAAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.14
22 21 0.60
23 9 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATTAATAAATTAATTAATT
Found at i:897795 original size:9 final size:9
Alignment explanation
Indices: 897769--897849 Score: 69
Period size: 9 Copynumber: 9.0 Consensus size: 9
897759 TGATAACTAA
*
897769 AAATTAATC
1 AAATTAATT
897778 AAATTAATT
1 AAATTAATT
897787 -AATTAAATT
1 AAATT-AATT
897796 AATATT--TT
1 AA-ATTAATT
*
897804 AAGTTAATT
1 AAATTAATT
*
897813 AAATTTATT
1 AAATTAATT
897822 AAATTAATT
1 AAATTAATT
*
897831 AAACTAAATT
1 AAA-TTAATT
*
897841 TAATTAATT
1 AAATTAATT
897850 TTTTTAAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
7 2 0.03
8 8 0.14
9 37 0.64
10 8 0.14
11 3 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (9 bp):
AAATTAATT
Found at i:898974 original size:17 final size:18
Alignment explanation
Indices: 898952--898986 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
898942 AATTTTCTCA
898952 TTTATTTTTTTT-AAAAT
1 TTTATTTTTTTTCAAAAT
898969 TTTATTTTTTTTCAAAAT
1 TTTATTTTTTTTCAAAAT
898987 ATTTTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTTTTTTCAAAAT
Found at i:898979 original size:18 final size:17
Alignment explanation
Indices: 898952--898986 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
898942 AATTTTCTCA
*
898952 TTTATTTTTTTTAAAAT
1 TTTATTTTTTTCAAAAT
898969 TTTATTTTTTTTCAAAAT
1 TTTA-TTTTTTTCAAAAT
898987 ATTTTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTTTTTCAAAAT
Found at i:899084 original size:12 final size:12
Alignment explanation
Indices: 899062--899117 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
899052 TGACACGAAA
899062 ATAAT-TAAAAT
1 ATAATATAAAAT
*
899073 TTAATATAAAAT
1 ATAATATAAAAT
*
899085 ATAATACGAAAA-
1 ATAATA-TAAAAT
899097 ATAATAT-AAAT
1 ATAATATAAAAT
899108 ATAATATAAA
1 ATAATATAAA
899118 TACATGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 3 0.08
11 11 0.30
12 19 0.51
13 4 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:899440 original size:18 final size:18
Alignment explanation
Indices: 899417--899462 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
899407 TATAATTATG
*
899417 ATATAATAAAATATATAA
1 ATATAATAAAATATACAA
*
899435 ATATAAT-AAATATACAC
1 ATATAATAAAATATACAA
899452 ATATTAATAAA
1 ATA-TAATAAA
899463 TTTACTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.46
18 11 0.46
19 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAATAAAATATACAA
Found at i:899443 original size:9 final size:9
Alignment explanation
Indices: 899386--899448 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
899376 AAAAAGTTAT
899386 ATAAATAT-
1 ATAAATATA
*
899394 A-AAATATC
1 ATAAATATA
*
899402 TTAAATATA
1 ATAAATATA
*
899411 ATTATGATATA
1 A-TA-AATATA
899422 ATAAA-ATA
1 ATAAATATA
899430 TATAAATATA
1 -ATAAATATA
899440 ATAAATATA
1 ATAAATATA
899449 CACATATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
7 6 0.14
8 4 0.09
9 21 0.48
10 7 0.16
11 6 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAATATA
Found at i:899463 original size:18 final size:17
Alignment explanation
Indices: 899417--899463 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
899407 TATAATTATG
*
899417 ATATAATAAAATATATAA
1 ATATAAT-AAATATACAA
*
899435 ATATAATAAATATACAC
1 ATATAATAAATATACAA
899452 ATATTAATAAAT
1 ATA-TAATAAAT
899464 TTACTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAATAAATATACAA
Found at i:899672 original size:22 final size:18
Alignment explanation
Indices: 899628--899678 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
899618 TTATTAAAAT
899628 TATTAAAATTTATTTTTA
1 TATTAAAATTTATTTTTA
899646 TATTAATAATTATATATTTTA
1 TATTAA-AATT-TAT-TTTTA
899667 TAATT-AAATTTA
1 T-ATTAAAATTTA
899679 AATAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 7 0.24
21 7 0.24
22 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAAAATTTATTTTTA
Found at i:899690 original size:22 final size:22
Alignment explanation
Indices: 899665--899709 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
899655 TTATATATTT
899665 TATA-ATTAAATTTAAATAAAAA
1 TATATATT-AATTTAAATAAAAA
* *
899687 TATATATTATTTTAATTAAAAA
1 TATATATTAATTTAAATAAAAA
899709 T
1 T
899710 TAACATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATATTAATTTAAATAAAAA
Found at i:907731 original size:22 final size:22
Alignment explanation
Indices: 907703--907744 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
907693 TATTTAAAAT
907703 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
907725 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
907745 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:913106 original size:14 final size:14
Alignment explanation
Indices: 913087--913114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
913077 TATATTAAAA
913087 AATATTTTTATATT
1 AATATTTTTATATT
913101 AATATTTTTATATT
1 AATATTTTTATATT
913115 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:913113 original size:22 final size:22
Alignment explanation
Indices: 913088--913129 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
913078 ATATTAAAAA
913088 ATATTTTTAT-ATTAATATTTTT
1 ATATTTTTATAATTAA-ATTTTT
913110 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
913130 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTTT
Found at i:913629 original size:17 final size:16
Alignment explanation
Indices: 913606--913652 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
913596 AAAATTTAAA
913606 TTTAAATTTTATATTT
1 TTTAAATTTTATATTT
*
913622 TATTAAATATTAT-TTT
1 T-TTAAATTTTATATTT
*
913638 TTAAAATATTTATAT
1 TTTAAAT-TTTATAT
913653 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.20
16 9 0.36
17 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAATTTTATATTT
Found at i:914836 original size:12 final size:12
Alignment explanation
Indices: 914814--914847 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
914804 AATCAAATTG
*
914814 AATTAAATTTAA
1 AATTTAATTTAA
*
914826 ATTTTAATTTAA
1 AATTTAATTTAA
914838 AATTTAATTT
1 AATTTAATTT
914848 TTTTAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTAA
Found at i:916662 original size:17 final size:18
Alignment explanation
Indices: 916619--916669 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
916609 TTGACCTTAG
916619 TTTTATATTAAATTATTCGA
1 TTTTATA-TAAATT-TTCGA
*
916639 ATTTATATAAATTTT-GA
1 TTTTATATAAATTTTCGA
*
916656 TTTTATATATATTT
1 TTTTATATAAATTT
916670 GTATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 14 0.50
18 2 0.07
19 6 0.21
20 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTATATAAATTTTCGA
Found at i:917051 original size:53 final size:53
Alignment explanation
Indices: 916994--917099 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
916984 TTTGATTGAC
* *
916994 TTAAACTCAATTAATTCGAAT-GTAAAATTCGATTAATTTAAACTTAAAATGAT
1 TTAAACTCAATTAATTCGAATAGTAAAATT-AATTAACTTAAACTTAAAATGAT
* * * *
917047 TTAAACTCAATTAATTCTAATATTAAACTTAATTAACTTAAATTTAAAATGAT
1 TTAAACTCAATTAATTCGAATAGTAAAATTAATTAACTTAAACTTAAAATGAT
917100 AATATTTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 40 0.87
54 6 0.13
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (53 bp):
TTAAACTCAATTAATTCGAATAGTAAAATTAATTAACTTAAACTTAAAATGAT
Found at i:917171 original size:16 final size:16
Alignment explanation
Indices: 917150--917198 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
917140 TAAATCATTG
*
917150 ATTTAAATTTTAAATA
1 ATTTAAATTTAAAATA
*
917166 ATTT-AATATAAAAATA
1 ATTTAAAT-TTAAAATA
*
917182 CTTTAAATTTAAAATA
1 ATTTAAATTTAAAATA
917198 A
1 A
917199 AAATAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAAATTTAAAATA
Found at i:917713 original size:27 final size:26
Alignment explanation
Indices: 917683--917742 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
917673 TAAATTAAAA
**
917683 TAATATAAATAATAATTTTAAAAAATT
1 TAATATAAATAATAA-TAAAAAAAATT
*
917710 TAATTATAAATATTAATAAAAAAAATT
1 TAA-TATAAATAATAATAAAAAAAATT
917737 TAATAT
1 TAATAT
917743 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.10
27 15 0.52
28 11 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAATATAAATAATAATAAAAAAAATT
Found at i:918016 original size:23 final size:24
Alignment explanation
Indices: 917981--918028 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
917971 AAAGCTTATT
917981 TATTATTCATTATAT-TATTAAAA
1 TATTATTCATTATATATATTAAAA
** *
918004 TATTATTTTTTATATATTTTAAAA
1 TATTATTCATTATATATATTAAAA
918028 T
1 T
918029 TAAATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTCATTATATATATTAAAA
Found at i:918291 original size:15 final size:16
Alignment explanation
Indices: 918271--918313 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
918261 CTATCAATAA
918271 AAAATTATAAATA-TT
1 AAAATTATAAATATTT
918286 AAAATT-TAAA-ATTT
1 AAAATTATAAATATTT
918300 AAAATTATTAAATA
1 AAAATTA-TAAATA
918314 ATAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 12 0.50
15 6 0.25
16 4 0.17
17 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTATAAATATTT
Found at i:918295 original size:14 final size:15
Alignment explanation
Indices: 918271--918312 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
918261 CTATCAATAA
918271 AAAATTAT-AAATATT
1 AAAATTATAAAAT-TT
918286 AAAATT-TAAAATTT
1 AAAATTATAAAATTT
*
918300 AAAATTATTAAAT
1 AAAATTATAAAAT
918313 AATAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATTATAAAATTT
Found at i:920894 original size:27 final size:26
Alignment explanation
Indices: 920832--920898 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
920822 AATTATTAAT
*
920832 ATATCAAATATAATTTAATATATAAAA
1 ATAT-AAATATAATTTAATATAAAAAA
* *
920859 ATGTTAATATAATTATAATA-AAAAATA
1 ATATAAATATAATT-TAATATAAAAA-A
920886 ATATAAATATAAT
1 ATATAAATATAAT
920899 AACAAAGGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (26 bp):
ATATAAATATAATTTAATATAAAAAA
Found at i:923486 original size:18 final size:19
Alignment explanation
Indices: 923463--923501 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
923453 TCATTCACGT
*
923463 AATAAATGATAATA-AATA
1 AATAAATAATAATATAATA
923481 AATAAATAATAATATAATA
1 AATAAATAATAATATAATA
923500 AA
1 AA
923502 AATAAAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAAATAATAATATAATA
Found at i:923491 original size:15 final size:16
Alignment explanation
Indices: 923471--923507 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
923461 GTAATAAATG
923471 ATAATAAATA-AATAA
1 ATAATAAATATAATAA
923486 ATAAT-AATATAATAA
1 ATAATAAATATAATAA
923501 A-AATAAA
1 ATAATAAA
923508 AGAGGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATAAATATAATAA
Found at i:924829 original size:12 final size:13
Alignment explanation
Indices: 924812--924844 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
924802 AAATTTATTA
924812 AAAATAAA-AAAT
1 AAAATAAATAAAT
924824 AAAATAAATAAAT
1 AAAATAAATAAAT
924837 AAATATAA
1 AAA-ATAA
924845 GCATTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 7 0.37
14 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:925539 original size:19 final size:20
Alignment explanation
Indices: 925501--925539 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
925491 TAATTAAATT
925501 TAATAGTTTAATTTTGTAAA
1 TAATAGTTTAATTTTGTAAA
* *
925521 TAATA-TTTTATTTTTTAAA
1 TAATAGTTTAATTTTGTAAA
925540 AAAATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TAATAGTTTAATTTTGTAAA
Found at i:925563 original size:19 final size:20
Alignment explanation
Indices: 925539--925580 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
925529 TATTTTTTAA
*
925539 AAAAATT-ATGAAAAATATT
1 AAAAATTAATGAAAAAAATT
*
925558 AAAAATTAATTAAAAAAATT
1 AAAAATTAATGAAAAAAATT
925578 AAA
1 AAA
925581 CAAGTGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTAATGAAAAAAATT
Found at i:925675 original size:27 final size:28
Alignment explanation
Indices: 925644--925714 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
925634 CTGTATATAT
*
925644 TAATATAAATAAATATA-AAATTAATAAA
1 TAATATAAATTAATATATAAATTAA-AAA
*
925672 -AATATAAATTGATA-ATAAATTAAAAA
1 TAATATAAATTAATATATAAATTAAAAA
925698 TAATATAATATTAATAT
1 TAATATAA-ATTAATAT
925715 TATTTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.11
27 26 0.72
28 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (28 bp):
TAATATAAATTAATATATAAATTAAAAA
Found at i:925676 original size:17 final size:18
Alignment explanation
Indices: 925651--925702 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
925641 TATTAATATA
925651 AATAAATATAAAATTAAT
1 AATAAATATAAAATTAAT
*
925669 AA-AAATAT-AAATTGAT
1 AATAAATATAAAATTAAT
*
925685 AATAAAT-TAAAAATAAT
1 AATAAATATAAAATTAAT
925702 A
1 A
925703 TAATATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 10 0.34
17 17 0.59
18 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AATAAATATAAAATTAAT
Found at i:925686 original size:16 final size:17
Alignment explanation
Indices: 925651--925708 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
925641 TATTAATATA
925651 AATAAATATAAAATTAAT
1 AATAAATAT-AAATTAAT
*
925669 AA-AAATATAAATTGAT
1 AATAAATATAAATTAAT
925685 AATAAAT-TAAA--AAT
1 AATAAATATAAATTAAT
925699 AATATAATAT
1 AATA-AATAT
925709 TAATATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 6 0.17
15 3 0.09
16 14 0.40
17 10 0.29
18 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAATATAAATTAAT
Found at i:927742 original size:2 final size:2
Alignment explanation
Indices: 927735--927772 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
927725 AGCTGTTCGA
927735 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
927773 TTGTAGACTG
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):
AT
Found at i:931884 original size:3 final size:3
Alignment explanation
Indices: 931876--931912 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
931866 TAAAGCATAT
931876 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
931913 CCAATATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:934965 original size:2 final size:2
Alignment explanation
Indices: 934958--934982 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
934948 ACTACAACAG
934958 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 A
934983 AGCTGAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:938352 original size:16 final size:16
Alignment explanation
Indices: 938332--938385 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
938322 AGGCAGGTTG
*
938332 AGGTTTGGGCTCGTTC
1 AGGTTCGGGCTCGTTC
* ** *
938348 GGGTTCAAGCTCATTC
1 AGGTTCGGGCTCGTTC
938364 AGGTTCGGGCTCGTTC
1 AGGTTCGGGCTCGTTC
938380 AGGTTC
1 AGGTTC
938386 AAGCTTGTTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (16 bp):
AGGTTCGGGCTCGTTC
Found at i:938572 original size:19 final size:19
Alignment explanation
Indices: 938532--938573 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
938522 TTTTCAGTAA
* *
938532 ATTTTTATTATATTATTAT
1 ATTTTTAATATATTAATAT
938551 ATTTTTAATATATTTAAT-T
1 ATTTTTAATATA-TTAATAT
938570 ATTT
1 ATTT
938574 ATTTATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATATATTAATAT
Found at i:938637 original size:18 final size:18
Alignment explanation
Indices: 938598--938637 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
938588 ATATTCATAT
*
938598 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
938616 ATAAAATTAATTT-TTCAA
1 ATAAAATTAATTTGTT-AA
938634 ATAA
1 ATAA
938638 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:938822 original size:23 final size:24
Alignment explanation
Indices: 938790--938837 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
938780 AATTAATATT
*
938790 TAAAAAATTTA-AAATATATTTAA
1 TAAAAAATTTAGAAACATATTTAA
* *
938813 TAAAATATTTAGAAACCTATTTAA
1 TAAAAAATTTAGAAACATATTTAA
938837 T
1 T
938838 CTTAACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAAAAATTTAGAAACATATTTAA
Found at i:939829 original size:16 final size:15
Alignment explanation
Indices: 939808--939865 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
939798 CTTGGGTCAG
939808 TCTCGGGTTCAGGTTC
1 TCTCGGGTTC-GGTTC
*
939824 TCTCGGGTTCGGGTTT
1 TCTCGGGTTC-GGTTC
*
939840 TTTCGGGTTCGAGTTC
1 TCTCGGGTTCG-GTTC
*
939856 TTTCGGGTTC
1 TCTCGGGTTC
939866 CCGTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
15 1 0.03
16 36 0.97
ACGTcount: A:0.03, C:0.21, G:0.33, T:0.43
Consensus pattern (15 bp):
TCTCGGGTTCGGTTC
Found at i:939846 original size:32 final size:32
Alignment explanation
Indices: 939810--939898 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
939800 TGGGTCAGTC
*
939810 TCGGGTTCAGGTTCTCTCGGGTTCGGGTTTTT
1 TCGGGTTCAGGTTCTCTCGGGTTCCGGTTTTT
* *
939842 TCGGGTTC-GAGTTCTTTCGGGTTCCCGTTTTTT
1 TCGGGTTCAG-GTTCTCTCGGGTT-CCGGTTTTT
* *
939875 TTGGGTTCAGGCTT-TCTTGGGTTC
1 TCGGGTTCAGG-TTCTCTCGGGTTC
939899 ATGCTGTCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 1 0.02
32 21 0.45
33 22 0.47
34 3 0.06
ACGTcount: A:0.03, C:0.19, G:0.31, T:0.46
Consensus pattern (32 bp):
TCGGGTTCAGGTTCTCTCGGGTTCCGGTTTTT
Found at i:939896 original size:16 final size:16
Alignment explanation
Indices: 939875--939919 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
939865 CCCGTTTTTT
*
939875 TTGGGTTCAGGCTTTC
1 TTGGGTTCAGGCTGTC
*
939891 TTGGGTTCATGCTGTC
1 TTGGGTTCAGGCTGTC
* *
939907 TCGGGTTCGGGCT
1 TTGGGTTCAGGCT
939920 ATTTCAGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.04, C:0.20, G:0.36, T:0.40
Consensus pattern (16 bp):
TTGGGTTCAGGCTGTC
Found at i:942948 original size:35 final size:36
Alignment explanation
Indices: 942872--942948 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
942862 CGATTTGGTA
942872 TAAT-TTTAAATTCTATTTAATAAATATAAATAATT
1 TAATATTTAAATTCTATTTAATAAATATAAATAATT
*
942907 T-TTATTTAAATT-TAATTATAA-AAATATAAAT-ATT
1 TAATATTTAAATTCT-ATT-TAATAAATATAAATAATT
942941 TAATATTT
1 TAATATTT
942949 TTAAACAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
34 6 0.17
35 27 0.75
36 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
TAATATTTAAATTCTATTTAATAAATATAAATAATT
Found at i:946527 original size:26 final size:27
Alignment explanation
Indices: 946498--946557 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
946488 TTAAATTATT
*
946498 TAATTAAAAATTTTAAATAT-TAAATA
1 TAATTAAAAATTTTAAAAATATAAATA
* *
946524 TAA-TAAATATTTTAAAAATATAAATT
1 TAATTAAAAATTTTAAAAATATAAATA
946550 TAATTAAA
1 TAATTAAA
946558 GAGTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 14 0.48
26 11 0.38
27 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTAAAAATTTTAAAAATATAAATA
Found at i:947211 original size:17 final size:17
Alignment explanation
Indices: 947163--947224 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
947153 TATATTACTG
*
947163 TAAAATAATATTTATATTT
1 TAAAATAAAATTTATA--T
* *
947182 TATAATTAAATTTATAT
1 TAAAATAAAATTTATAT
947199 TAAAATAAAATTT-TAAT
1 TAAAATAAAATTTAT-AT
*
947216 TAAATTAAA
1 TAAAATAAA
947225 TTAATATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 1 0.03
17 22 0.61
19 13 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATAAAATTTATAT
Found at i:947586 original size:27 final size:27
Alignment explanation
Indices: 947535--947588 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
947525 TAAAATTAAT
*
947535 ATATAATAATTAAAAATTTTAATTTGA
1 ATATAATAATTAAAAATTTAAATTTGA
947562 ATAT-ATAA-TAAATAATTTAAGATTTGA
1 ATATAATAATTAAA-AATTTAA-ATTTGA
947589 TTGATGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 10 0.42
27 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
ATATAATAATTAAAAATTTAAATTTGA
Found at i:947986 original size:24 final size:24
Alignment explanation
Indices: 947936--947979 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
947926 TACGCAACCT
947936 AAAATCAA--TAAATAAAAAATAA
1 AAAATCAATTTAAATAAAAAATAA
*
947958 AAAATCAATTTAAATATAAAAT
1 AAAATCAATTTAAATAAAAAAT
947980 CATAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATCAATTTAAATAAAAAATAA
Found at i:947991 original size:24 final size:24
Alignment explanation
Indices: 947944--947996 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
947934 CTAAAATCAA
*
947944 TAAATAAAAAATAAAAAATCAATT
1 TAAATAAAAAATAAAAAATAAATT
* * *
947968 TAAATATAAAATCATAAATAAATT
1 TAAATAAAAAATAAAAAATAAATT
*
947992 AAAAT
1 TAAAT
947997 TTAACAAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAATAAAAAATAAAAAATAAATT
Found at i:948567 original size:9 final size:9
Alignment explanation
Indices: 948541--948590 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
948531 GTACGATAAA
948541 AATAAAATAT
1 AATAAAA-AT
948551 AATAAAAAT
1 AATAAAAAT
948560 AATTAAAAAT
1 AA-TAAAAAT
*
948570 AA-CAAAAT
1 AATAAAAAT
948578 -ATGAAAAAT
1 AAT-AAAAAT
948587 AATA
1 AATA
948591 TTAACATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
7 1 0.03
8 5 0.15
9 10 0.29
10 18 0.53
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (9 bp):
AATAAAAAT
Found at i:948584 original size:27 final size:26
Alignment explanation
Indices: 948537--948589 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
948527 TGAGGTACGA
*
948537 TAAAAATAAAATATAATAAAAATAAT
1 TAAAAATAAAAAATAATAAAAATAAT
948563 TAAAAATAACAAAAT-ATGAAAAATAAT
1 TAAAAATAA-AAAATAAT-AAAAATAAT
948590 ATTAACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (26 bp):
TAAAAATAAAAAATAATAAAAATAAT
Found at i:949076 original size:11 final size:12
Alignment explanation
Indices: 949055--949083 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
949045 AATATACAAA
949055 TTTTTTCTTTTC
1 TTTTTTCTTTTC
949067 TTTTTT-TTTTC
1 TTTTTTCTTTTC
949078 TTTTTT
1 TTTTTT
949084 AATCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:949294 original size:66 final size:67
Alignment explanation
Indices: 949180--949310 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 67
949170 TTAATAAATT
*
949180 TTATATTTATCAATTATACTTTTAAATAACTTAAATATATGTATTAAACTTACTAAAATAATTAA
1 TTATATTTATCAATTATACTTTTAAATAACTTAAATATACGTATTAAACTTACTAAAATAATTAA
949245 AC
66 AC
*
949247 TTATATTTATCAATTATA-TATTT-AATAACTTGAATATACGTATTAAACTTACTAAAATAATTA
1 TTATATTTATCAATTATACT-TTTAAATAACTTAAATATACGTATTAAACTTACTAAAATAATTA
949310 A
65 A
949311 CTTCATACGG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
66 40 0.66
67 21 0.34
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (67 bp):
TTATATTTATCAATTATACTTTTAAATAACTTAAATATACGTATTAAACTTACTAAAATAATTAA
AC
Found at i:953752 original size:63 final size:63
Alignment explanation
Indices: 953653--953778 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
953643 CTAGGAATAC
* *
953653 TGATTGCCTTGATCCTCATCATTGTCCTCTCTGTTTGCCATGGTTTCAACTGTGGAAAATGAT
1 TGATTGCCATGATCCTCATCATTGTCCTCTCTGTTTGCCATGGTTCCAACTGTGGAAAATGAT
**
953716 TGATTGCCATGATCCTCATCATTGTCCTCTCTGTTTGCCATGGTTCCTGCTGTGGAAAATGAT
1 TGATTGCCATGATCCTCATCATTGTCCTCTCTGTTTGCCATGGTTCCAACTGTGGAAAATGAT
953779 AATTGCATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (63 bp):
TGATTGCCATGATCCTCATCATTGTCCTCTCTGTTTGCCATGGTTCCAACTGTGGAAAATGAT
Found at i:954896 original size:29 final size:29
Alignment explanation
Indices: 954864--954946 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
954854 TATAAATATT
* * * *
954864 AATATAAAAATAATTTTTATATTATTTTA
1 AATATAAAAATAAATTTTAAATTAATTCA
954893 AATA-ATAAAATAAATTTTAAATTAATTCA
1 AATATA-AAAATAAATTTTAAATTAATTCA
*
954922 AATATAAATAAAAAATTTTTAAATT
1 AATATAAA-AATAAA-TTTTAAATT
954947 TCGATTATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 29 0.64
30 6 0.13
31 9 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
AATATAAAAATAAATTTTAAATTAATTCA
Found at i:954901 original size:42 final size:40
Alignment explanation
Indices: 954823--954901 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
954813 ATTATTTAAA
*
954823 TAATAAAAAAATATTTTTATTTAAATTTAATTATAAATAT
1 TAATAAAAAAATATTTTTATTTAAATTTAATAATAAATAT
* *
954863 TAATATAAAAATAATTTTTATATT-ATTTTAAATAATAAA
1 TAATAAAAAAAT-ATTTTTAT-TTAAATTT-AATAATAAA
954902 ATAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.33
41 12 0.36
42 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (40 bp):
TAATAAAAAAATATTTTTATTTAAATTTAATAATAAATAT
Found at i:954906 original size:35 final size:36
Alignment explanation
Indices: 954812--954906 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 36
954802 TAACTTAAAT
* **
954812 TATTA-TTTAAATAATAAAA-AAATATTTTTATTTA
1 TATTATTTTAAATAATAAAATAAAAATAATTATTTA
* * * *
954846 AATTTAATTATAAATATTAATATAAAAATAATT-TTTA
1 TA-TT-ATTTTAAATAATAAAATAAAAATAATTATTTA
954883 TATTATTTTAAATAATAAAATAAA
1 TATTATTTTAAATAATAAAATAAA
954907 TTTTAAATTA
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
34 1 0.02
35 19 0.41
36 3 0.07
37 16 0.35
38 7 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
TATTATTTTAAATAATAAAATAAAAATAATTATTTA
Found at i:955202 original size:21 final size:20
Alignment explanation
Indices: 955167--955224 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
955157 ACATTACATA
*
955167 TAATAA-TTAAATAATAAA-
1 TAATAATTTTAATAATAAAT
*
955185 TATATATATTTTAATAATTAAT
1 TA-ATA-ATTTTAATAATAAAT
*
955207 TAATAATTTTTATAATAA
1 TAATAATTTTAATAATAA
955225 TTATTAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 12 0.38
21 13 0.41
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATAATTTTAATAATAAAT
Found at i:956998 original size:2 final size:2
Alignment explanation
Indices: 956991--957015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
956981 AATTGAAAGA
956991 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 A
957016 CAATTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:957253 original size:15 final size:15
Alignment explanation
Indices: 957233--957261 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
957223 ATAATACTTA
957233 AATTAATTAAATTTG
1 AATTAATTAAATTTG
957248 AATTAATTAAATTT
1 AATTAATTAAATTT
957262 AAATAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AATTAATTAAATTTG
Found at i:957785 original size:19 final size:20
Alignment explanation
Indices: 957738--957787 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
957728 AAATAATTTT
957738 AATTAAATTTTTTATTTATTG
1 AATTAAA-TTTTTATTTATTG
957759 AATT-AATTTTTATTTATT-
1 AATTAAATTTTTATTTATTG
*
957777 TATTAAATTTT
1 AATTAAATTTT
957788 CAATAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 18 0.67
20 2 0.07
21 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTAAATTTTTATTTATTG
Found at i:957811 original size:16 final size:16
Alignment explanation
Indices: 957792--957822 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
957782 AATTTTCAAT
*
957792 AATTTAATAAATATAA
1 AATTAAATAAATATAA
957808 AATTAAATAAATATA
1 AATTAAATAAATATA
957823 TGATCAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAATAAATATAA
Found at i:958395 original size:36 final size:39
Alignment explanation
Indices: 958345--958427 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 39
958335 ATTTAAAAAA
* * *
958345 TTATTTTATTATTTAAAATGATA-TT-AA-AAATTATTT
1 TTATATTAATATTTAAAATGAAATTTAAATAAATTATTT
* *
958381 TTATATTAATATTTATAATTAAATTTAAATAAATTATTT
1 TTATATTAATATTTAAAATGAAATTTAAATAAATTATTT
*
958420 TTTTATTA
1 TTATATTA
958428 TTTAAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 18 0.47
37 2 0.05
38 2 0.05
39 16 0.42
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (39 bp):
TTATATTAATATTTAAAATGAAATTTAAATAAATTATTT
Found at i:958430 original size:36 final size:34
Alignment explanation
Indices: 958334--958443 Score: 86
Period size: 36 Copynumber: 3.2 Consensus size: 34
958324 AGTCTGAGTT
*
958334 AATTTAAAAAATTA---TTTTATTATTTAAA-AT
1 AATTTAAAAAATTATTTTTTTATTATTTAAATAA
* * *
958364 GATATT-AAAAATTATTTTTATATTAATATTTATAATTA
1 AAT-TTAAAAAATTA-TTTT-T-TTATTATTTA-AATAA
958402 AATTTAAATAAATTATTTTTTTATTATTTAAATAA
1 AATTTAAA-AAATTATTTTTTTATTATTTAAATAA
958437 TAATTTA
1 -AATTTA
958444 TATTAAATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
30 10 0.16
31 2 0.03
34 1 0.02
35 5 0.08
36 24 0.39
37 5 0.08
38 8 0.13
39 6 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
AATTTAAAAAATTATTTTTTTATTATTTAAATAA
Found at i:958457 original size:15 final size:17
Alignment explanation
Indices: 958421--958479 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
958411 AAATTATTTT
*
958421 TTTATTATTTAAATAATAA
1 TTTA-TATTAAAAT-ATAA
958440 TTTATATT-AAAT-TAA
1 TTTATATTAAAATATAA
958455 TTT-TAATTAAAATATATA
1 TTTAT-ATTAAAATATA-A
958473 TTTATAT
1 TTTATAT
958480 CTGATTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 4 0.11
17 6 0.17
18 10 0.29
19 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTATATTAAAATATAA
Found at i:962117 original size:23 final size:22
Alignment explanation
Indices: 962075--962117 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
962065 TTATTATTTT
962075 TTTAAAAATAAAATTTAATAAA
1 TTTAAAAATAAAATTTAATAAA
* *
962097 TTTAAAATTTAAATTATAATA
1 TTTAAAAATAAAATT-TAATA
962118 TTTATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAAATAAAATTTAATAAA
Found at i:963161 original size:18 final size:18
Alignment explanation
Indices: 963111--963152 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
963101 TCATATCATA
*
963111 TTTATTAAATA-TTTTGTG
1 TTTATTAAA-AGTATTGTG
963129 TTTATTAAAAGTATTGTG
1 TTTATTAAAAGTATTGTG
963147 TTTATT
1 TTTATT
963153 TTATGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTATTAAAAGTATTGTG
Found at i:966256 original size:26 final size:24
Alignment explanation
Indices: 966213--966303 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 24
966203 ATAAATCTCC
**
966213 TTTTTCTTTATTAAAAATGGGTTTAA
1 TTTTT-TTTATTTTAAATGGGTTT-A
*** *
966239 TTTGTTTTTATTTTAAATTTTTTTC
1 TTT-TTTTTATTTTAAATGGGTTTA
*
966264 TCTTCTTTTTTTTTTAACATGGGTTTA
1 T-TT-TTTTTATTTTAA-ATGGGTTTA
966291 TTTTTTTTATTTT
1 TTTTTTTTATTTT
966304 TAATTTTTGG
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
25 10 0.20
26 31 0.63
27 8 0.16
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTTTTTTATTTTAAATGGGTTTA
Found at i:967002 original size:19 final size:19
Alignment explanation
Indices: 966964--967000 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
966954 GAATGAATTT
*
966964 TTTAAAGTTAAATTTTAAA
1 TTTAAAATTAAATTTTAAA
966983 TTTAAAATT-AATTTTAAA
1 TTTAAAATTAAATTTTAAA
967001 ATATTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTAAAATTAAATTTTAAA
Found at i:968470 original size:10 final size:9
Alignment explanation
Indices: 968429--968475 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
968419 TTTTTAAAAA
968429 ATTTTTAAT
1 ATTTTTAAT
***
968438 ATAAATAAT
1 ATTTTTAAT
968447 A-TTTTAAT
1 ATTTTTAAT
968455 ATTTTTAAT
1 ATTTTTAAT
968464 CATTTTTAAT
1 -ATTTTTAAT
968474 AT
1 AT
968476 AAGTATAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
8 5 0.17
9 16 0.53
10 9 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:968504 original size:18 final size:18
Alignment explanation
Indices: 968483--968519 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
968473 TATAAGTATA
968483 ATTTTTATT-TTTCAATAG
1 ATTTTTATTATTT-AATAG
968501 ATTTTTATTATTTAATAG
1 ATTTTTATTATTTAATAG
968519 A
1 A
968520 AATATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTATTATTTAATAG
Found at i:968505 original size:36 final size:36
Alignment explanation
Indices: 968429--968507 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
968419 TTTTTAAAAA
*
968429 ATTTTTAATATAAATAATATTTTAATATTTTTAATC
1 ATTTTTAATATAAATAATATTTTAATATTTTCAATC
*
968465 ATTTTTAATATAAGTATAAT-TTTT-AT-TTTTCAATAG
1 ATTTTTAATATAA--ATAATATTTTAATATTTTCAAT-C
968501 ATTTTTA
1 ATTTTTA
968508 TTATTTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 7 0.18
36 22 0.58
37 4 0.11
38 5 0.13
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (36 bp):
ATTTTTAATATAAATAATATTTTAATATTTTCAATC
Found at i:968622 original size:35 final size:34
Alignment explanation
Indices: 968501--968627 Score: 94
Period size: 35 Copynumber: 3.6 Consensus size: 34
968491 TTTTCAATAG
* *
968501 ATTTTTATTATTTAATAGAAATATAATTTTAATA
1 ATTTTTATTATTTAATATAAATATAATTTTAATT
* * ** *
968535 ATCTTAAATTATTATTTTACATTTATATAATTTTATTT
1 AT-TT---TTATTATTTAATATAAATATAATTTTAATT
* *
968573 GCA-TTCTATAATTTAATATAAATATAATTTTAATT
1 --ATTTTTATTATTTAATATAAATATAATTTTAATT
*
968608 ATTTTTAATTATTTATTATA
1 ATTTTT-ATTATTTAATATA
968628 TATGTGCACA
Statistics
Matches: 68, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
33 1 0.01
34 5 0.07
35 36 0.53
38 25 0.37
40 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (34 bp):
ATTTTTATTATTTAATATAAATATAATTTTAATT
Found at i:968944 original size:18 final size:18
Alignment explanation
Indices: 968911--968945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
968901 ATTTAATATT
*
968911 TTTAAAAAATTTTATTTA
1 TTTAAAAAATTATATTTA
*
968929 TTTAAAAGATTATATTT
1 TTTAAAAAATTATATTT
968946 TATATTCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAAAAATTATATTTA
Found at i:970949 original size:2 final size:2
Alignment explanation
Indices: 970942--970977 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
970932 AACATGTAAG
970942 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
970978 GGCAACCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:971417 original size:23 final size:22
Alignment explanation
Indices: 971354--971417 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
971344 ATGTAATAAT
* *
971354 TAAATCATAAATATTTATTTAAA
1 TAAATGATTAATATTT-TTTAAA
* * *
971377 TAATTTATTAATAATTTTTATAA
1 TAAATGATTAATATTTTTTA-AA
*
971400 TAAATGATTGATATTTTT
1 TAAATGATTAATATTTTT
971418 AGATAATTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (22 bp):
TAAATGATTAATATTTTTTAAA
Found at i:972588 original size:70 final size:72
Alignment explanation
Indices: 972471--972609 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 72
972461 CTTCCATGGG
972471 AATCAAAATAAATAAAATTTATTAATTAATTAATAAAATAAAGTATTTCCAATTTCATAGAATCA
1 AATCAAAATAAATAAAA--TATTAATTAATTAATAAAATAAAGTATTTCCAATTTCATAGAATCA
972536 CATCACAGA
64 CATCACAGA
* * * * *
972545 AATCAAAATAAAT-AAA-ATTAATTAATTTATAGAATAATGTATTTTCATTTTCATAGAATCACA
1 AATCAAAATAAATAAAATATTAATTAATTAATAAAATAAAGTATTTCCAATTTCATAGAATCACA
972608 TC
66 TC
972610 TTTCATGTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
70 44 0.73
73 3 0.05
74 13 0.22
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (72 bp):
AATCAAAATAAATAAAATATTAATTAATTAATAAAATAAAGTATTTCCAATTTCATAGAATCACA
TCACAGA
Found at i:974390 original size:13 final size:15
Alignment explanation
Indices: 974364--974395 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
974354 ACGAATATTT
974364 TAAATTTATATAATA
1 TAAATTTATATAATA
974379 TAAA-TTAT-TAATA
1 TAAATTTATATAATA
974392 TAAA
1 TAAA
974396 AAATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATTTATATAATA
Found at i:975231 original size:22 final size:22
Alignment explanation
Indices: 975205--975246 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
975195 TATTATTATT
975205 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
*
975227 TAAATATTGATATAAAAATA
1 TAAATATTAATATAAAAATA
975247 ATAGTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:977887 original size:37 final size:37
Alignment explanation
Indices: 977845--977925 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
977835 TTTAAGTAAT
*
977845 AGTATCAATCTTTTATA-AAATTAATTATCATTTCAAA
1 AGTATCAATCTTCTATAGAAA-TAATTATCATTTCAAA
* *
977882 AGTATCAATCTTCTATAGTAATAATTATTATTTCAAA
1 AGTATCAATCTTCTATAGAAATAATTATCATTTCAAA
977919 AGTATCA
1 AGTATCA
977926 TTTCATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 38 0.95
38 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (37 bp):
AGTATCAATCTTCTATAGAAATAATTATCATTTCAAA
Found at i:978932 original size:15 final size:16
Alignment explanation
Indices: 978912--978946 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
978902 CATTATTATG
978912 ATTTAAAT-ATATTAA
1 ATTTAAATAATATTAA
*
978927 ATTTAAATAATTTTAA
1 ATTTAAATAATATTAA
978943 ATTT
1 ATTT
978947 TAATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAAATAATATTAA
Found at i:978954 original size:23 final size:25
Alignment explanation
Indices: 978913--978961 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
978903 ATTATTATGA
*
978913 TTTAAATATATTAAATTTAAATAAT
1 TTTAAATATATTAAATTTAAAAAAT
*
978938 TTTAAAT-T-TTAATTTTAAAAAAT
1 TTTAAATATATTAAATTTAAAAAAT
978961 T
1 T
978962 ATCTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 1 0.05
25 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTAAATATATTAAATTTAAAAAAT
Found at i:979273 original size:27 final size:25
Alignment explanation
Indices: 979243--979293 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
979233 ATAACTTAAT
* *
979243 ATATTTTTATTATTTATATGTAATATG
1 ATATATTTATT-TTTAT-TATAATATG
979270 ATATATTTATTTTTATTATAATAT
1 ATATATTTATTTTTATTATAATAT
979294 AAATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 5 0.23
27 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (25 bp):
ATATATTTATTTTTATTATAATATG
Found at i:979303 original size:2 final size:2
Alignment explanation
Indices: 979286--979334 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
979276 TTATTTTTAT
* *
979286 TA TA -A TA TA AA TA TA TA TA TA TA TA TA TA TA AA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
979326 TA T- TA TA TA
1 TA TA TA TA TA
979335 ATTACAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:980474 original size:21 final size:22
Alignment explanation
Indices: 980431--980475 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
980421 ATTAATAAAA
* *
980431 AAAATTATTTAAATTTAACTAT
1 AAAATTATATAAATATAACTAT
*
980453 AAAA-TATATAAATATAATTAT
1 AAAATTATATAAATATAACTAT
980474 AA
1 AA
980476 TTATAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATATAAATATAACTAT
Found at i:984484 original size:77 final size:76
Alignment explanation
Indices: 984392--984534 Score: 259
Period size: 77 Copynumber: 1.9 Consensus size: 76
984382 GAGCTTGGGC
*
984392 ATGGGAGTGGGTTCAAGTGGTACACGAGGTTAGAGCTTGAGTCTCAGCCCACGACGCTAGAACTT
1 ATGGGAGGGGGTTCAAGTGGTACACGAGGTTAGAGCTTGAGTCTCAGCCCACGACGCTAGAACTT
984457 AATATGGGCAT
66 AATATGGGCAT
*
984468 ATGGGAGGGGGGTTCAAGTGTTACACGAGGTTAGAGCTTGAGTCTCAGCCCACGACGCTAGAACT
1 ATGGGA-GGGGGTTCAAGTGGTACACGAGGTTAGAGCTTGAGTCTCAGCCCACGACGCTAGAACT
984533 TA
65 TA
984535 GTATACCCGG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 6 0.09
77 58 0.91
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (76 bp):
ATGGGAGGGGGTTCAAGTGGTACACGAGGTTAGAGCTTGAGTCTCAGCCCACGACGCTAGAACTT
AATATGGGCAT
Found at i:985381 original size:36 final size:36
Alignment explanation
Indices: 985310--985407 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
985300 TGTGGAATGT
* *
985310 TTATTTTACTAAGTAAAATAAAATATAATAGAATAA
1 TTATTTTACAAAATAAAATAAAATATAATAGAATAA
* *
985346 TTATTTTACAAAAATAAAATAAAATA-ATTATAATAA
1 TTATTTTAC-AAAATAAAATAAAATATAATAGAATAA
* * ***
985382 TAATTTAATTTAATAAAATAAAATAT
1 TTATTTTACAAAATAAAATAAAATAT
985408 TATGATATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 14 0.27
36 23 0.45
37 14 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (36 bp):
TTATTTTACAAAATAAAATAAAATATAATAGAATAA
Found at i:986763 original size:51 final size:51
Alignment explanation
Indices: 986686--986817 Score: 210
Period size: 51 Copynumber: 2.6 Consensus size: 51
986676 CATCTGATAA
* *
986686 CTTAGAAATCTTTGTCTGTAACTCTCTTTATCTTGCAACCAATACCTTTGC
1 CTTAGAAATCTTTGTCTGTAATTCTCTTTATCTTGCAACCAACACCTTTGC
* * *
986737 CTTAGAATTCCTTGTCTGTAATTCTCTTTATCTTGCAACCAACACCTTTGG
1 CTTAGAAATCTTTGTCTGTAATTCTCTTTATCTTGCAACCAACACCTTTGC
*
986788 CTCAGAAATCTTTGTCTGTAATTCTCTTTA
1 CTTAGAAATCTTTGTCTGTAATTCTCTTTA
986818 ACACTTTGGG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (51 bp):
CTTAGAAATCTTTGTCTGTAATTCTCTTTATCTTGCAACCAACACCTTTGC
Found at i:987038 original size:38 final size:39
Alignment explanation
Indices: 986979--987069 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 39
986969 ATTATGATAT
* *
986979 AATATTA-ATATATT-TTT-AAATTTTAT-ATAATATAA
1 AATATTATATATATTATTTCAAAATTTATAAAAATATAA
*
987014 ATTATTATATA-ATTATTTCAAAATTTATAAAAATATAA
1 AATATTATATATATTATTTCAAAATTTATAAAAATATAA
*
987052 AATATTTTATATATTATT
1 AATATTATATATATTATT
987070 ATAACATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
35 9 0.20
36 6 0.13
37 8 0.17
38 17 0.37
39 6 0.13
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
AATATTATATATATTATTTCAAAATTTATAAAAATATAA
Found at i:987352 original size:19 final size:19
Alignment explanation
Indices: 987290--987352 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
987280 TATTAAAATT
* *
987290 TTAAATATAAATATA-ATA
1 TTAAATATAATTAGATATA
*
987308 TTAAATATATAATATTGATCATA
1 TT-AA-ATATAAT-TAGAT-ATA
987331 TTAAATATAATTAGATATA
1 TTAAATATAATTAGATATA
987350 TTA
1 TTA
987353 TAAATATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 10 0.28
21 9 0.25
22 2 0.06
23 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
TTAAATATAATTAGATATA
Found at i:987614 original size:18 final size:18
Alignment explanation
Indices: 987588--987624 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
987578 ATATATGAAT
* *
987588 ATTTTAAATTTATATAAA
1 ATTTAAAATGTATATAAA
987606 ATTTAAAATGTATATAAA
1 ATTTAAAATGTATATAAA
987624 A
1 A
987625 AAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTAAAATGTATATAAA
Found at i:988096 original size:23 final size:24
Alignment explanation
Indices: 988068--988123 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
988058 AAGAGTTACG
988068 AATATTATAAT-TTAAATTTTAAA
1 AATATTATAATATTAAATTTTAAA
* **
988091 TATATTA-AATATTATTTTTTAAA
1 AATATTATAATATTAAATTTTAAA
988114 AATTATTATA
1 AA-TATTATA
988124 TAAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
23 17 0.65
24 5 0.19
25 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTATAATATTAAATTTTAAA
Found at i:988955 original size:22 final size:23
Alignment explanation
Indices: 988916--988967 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
988906 AAATTTTAAA
*
988916 ATATTTATATATTTATATTATAAT
1 ATATTT-TATATTCATATTATAAT
*
988940 ATATTTTATA-TCATATTTTAAT
1 ATATTTTATATTCATATTATAAT
988962 -TATTTT
1 ATATTTT
988968 TTTATGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 4 0.15
24 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTTTATATTCATATTATAAT
Found at i:989160 original size:23 final size:23
Alignment explanation
Indices: 989112--989169 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
989102 TTATTATTTT
*
989112 TTCATCAATTATGTTTCAATATA
1 TTCATCAATTATGTTTCAATAAA
989135 TTCATC-ATTATCGTTT-ACATAAA
1 TTCATCAATTAT-GTTTCA-ATAAA
*
989158 TTCATAAATTAT
1 TTCATCAATTAT
989170 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.20
23 19 0.63
24 5 0.17
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (23 bp):
TTCATCAATTATGTTTCAATAAA
Found at i:989337 original size:22 final size:22
Alignment explanation
Indices: 989295--989337 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
989285 TAATGAAAGG
*
989295 ATAATTAAGAATACTTGATTAC
1 ATAATTAAGAATACTTCATTAC
*
989317 ATAATTAAGAATATTTCATTA
1 ATAATTAAGAATACTTCATTA
989338 ACAAGCATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAATTAAGAATACTTCATTAC
Found at i:990936 original size:9 final size:9
Alignment explanation
Indices: 990912--990951 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
990902 TTATATTATA
990912 TAAATA-TT
1 TAAATATTT
990920 TAAA-ATTT
1 TAAATATTT
990928 TAAATATTT
1 TAAATATTT
990937 T-AATATTTT
1 TAAATA-TTT
990946 TAAATA
1 TAAATA
990952 AAAAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 1 0.04
8 14 0.50
9 9 0.32
10 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAAATATTT
Found at i:990979 original size:21 final size:21
Alignment explanation
Indices: 990945--990994 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
990935 TTTAATATTT
990945 TTAAA-TAA-AAAATTTTAAA
1 TTAAATTAATAAAATTTTAAA
* *
990964 TTAAATTAATAAAATTTTTAC
1 TTAAATTAATAAAATTTTAAA
990985 TTAAATTAAT
1 TTAAATTAAT
990995 TTGATCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 19 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATTAATAAAATTTTAAA
Found at i:991369 original size:22 final size:20
Alignment explanation
Indices: 991322--991376 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
991312 AAATTATTAA
* *
991322 TTTAATAAATTTAATTTATT
1 TTTATTAAATTTAATTAATT
*
991342 TATATTAAATTTTAGATTAATT
1 TTTATTAAA-TTTA-ATTAATT
991364 TTTATT-AATTTAA
1 TTTATTAAATTTAA
991377 ATAAGTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
21 6 0.21
22 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTATTAAATTTAATTAATT
Found at i:991610 original size:21 final size:22
Alignment explanation
Indices: 991569--991630 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
991559 AATTTATTGA
*
991569 TAAAATATTAAATTTTTAATTT
1 TAAAATATTAAATTTTAAATTT
991591 TAAAA-ATTATAA-TTTAAATTT
1 TAAAATATTA-AATTTTAAATTT
** * *
991612 TTTACTATTAAATTATAAA
1 TAAAATATTAAATTTTAAA
991631 AAAAATTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAATATTAAATTTTAAATTT
Found at i:993698 original size:19 final size:19
Alignment explanation
Indices: 993674--993719 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
993664 ACTTAAAATA
993674 AAAAT-ATAAAAATATATTT
1 AAAATAATAAAAAT-TATTT
*
993693 AAAATAATAATAATTATTT
1 AAAATAATAAAAATTATTT
*
993712 AATATAAT
1 AAAATAAT
993720 TATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATAAAAATTATTT
Found at i:993720 original size:13 final size:14
Alignment explanation
Indices: 993697--993726 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
993687 ATATTTAAAA
993697 TAATAATAATTATT
1 TAATAATAATTATT
993711 TAAT-ATAATTATT
1 TAATAATAATTATT
993724 TAA
1 TAA
993727 ATTAATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATAATAATTATT
Found at i:993735 original size:22 final size:21
Alignment explanation
Indices: 993704--993746 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
993694 AAATAATAAT
* *
993704 AATTATTTAATATAATTATTTA
1 AATTAATTAACAT-ATTATTTA
993726 AATTAATTAACATATTATTTA
1 AATTAATTAACATATTATTTA
993747 TCTTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTAATTAACATATTATTTA
Found at i:994528 original size:18 final size:17
Alignment explanation
Indices: 994488--994534 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
994478 TTTTTATTTT
994488 AATATATATATATATATG
1 AATATA-ATATATATATG
*
994506 AATATAATATGATATATT
1 AATATAATAT-ATATATG
*
994524 TATATAATATA
1 AATATAATATA
994535 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
AATATAATATATATATG
Found at i:994765 original size:20 final size:20
Alignment explanation
Indices: 994740--994808 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
994730 TTTAACTTAA
994740 TAAATATATTATATAAATAT
1 TAAATATATTATATAAATAT
994760 TAAATATATTTCTATTATATACATA-
1 TAAATATA--T-TA-TATA-A-ATAT
*
994785 TAAATTTA-TATATAAATAT
1 TAAATATATTATATAAATAT
994804 TAAAT
1 TAAAT
994809 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
18 3 0.07
19 6 0.15
20 12 0.29
21 2 0.05
22 1 0.02
23 2 0.05
24 4 0.10
25 8 0.20
26 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATATATTATATAAATAT
Found at i:994798 original size:18 final size:19
Alignment explanation
Indices: 994775--994810 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
994765 ATATTTCTAT
*
994775 TATATACATA-TAAATTTA
1 TATATAAATATTAAATTTA
994793 TATATAAATATTAAATTT
1 TATATAAATATTAAATTT
994811 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATAAATATTAAATTTA
Found at i:994959 original size:14 final size:15
Alignment explanation
Indices: 994940--994968 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
994930 ACTAATATAT
994940 AATAAAT-ATATTAA
1 AATAAATAATATTAA
994954 AATAAATAATATTAA
1 AATAAATAATATTAA
994969 TATTATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAATAATATTAA
Found at i:995296 original size:28 final size:29
Alignment explanation
Indices: 995252--995316 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
995242 CAACACTATA
995252 TTAAATAAATATCATTAA-TA-TAATAATTT
1 TTAAAT-AATATCATTAATTATTAA-AATTT
* *
995281 TTTAATAATATTATTAATTATTAAAATTT
1 TTAAATAATATCATTAATTATTAAAATTT
995310 TTAAATA
1 TTAAATA
995317 TAACTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 10 0.32
29 18 0.58
30 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAAATAATATCATTAATTATTAAAATTT
Found at i:995780 original size:27 final size:27
Alignment explanation
Indices: 995750--995803 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
995740 AATATTAAAC
*
995750 TTTTATTAATAATAATA-ATAATAATTT
1 TTTTATTAA-AATAAAATATAATAATTT
*
995777 TTTTTTTAAAATAAAATATAATAATTT
1 TTTTATTAAAATAAAATATAATAATTT
995804 AAATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTATTAAAATAAAATATAATAATTT
Found at i:996147 original size:24 final size:24
Alignment explanation
Indices: 996120--996177 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
996110 TTTTTTTAAT
*
996120 TTAATTTTTTAATTCTTATT-TCTA
1 TTAATTTTTT-ATTATTATTATCTA
* *
996144 TTAACTTTTTATTATTATTATTTA
1 TTAATTTTTTATTATTATTATCTA
*
996168 TTATTTTTTT
1 TTAATTTTTT
996178 TACCCTTCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (24 bp):
TTAATTTTTTATTATTATTATCTA
Found at i:999454 original size:32 final size:32
Alignment explanation
Indices: 999418--999482 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
999408 AGACTTGTGC
*
999418 ATGCAAACGTTTTCTCTTTATAATTTGGTTTA
1 ATGCAAACATTTTCTCTTTATAATTTGGTTTA
999450 ATGCAAACATTTTCTCTTTATAATTTGGTTTA
1 ATGCAAACATTTTCTCTTTATAATTTGGTTTA
999482 A
1 A
999483 GATATAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (32 bp):
ATGCAAACATTTTCTCTTTATAATTTGGTTTA
Found at i:1001428 original size:33 final size:33
Alignment explanation
Indices: 1001391--1001489 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1001381 AATGATTAAA
* * * *
1001391 AAAATCAGATTAAAAATTAAATCGTTAAGATAT
1 AAAATTAGATTAGAGATTAAATTGTTAAGATAT
1001424 AAAATTAGATTAGAGATTAAATTGTTAAGATAT
1 AAAATTAGATTAGAGATTAAATTGTTAAGATAT
*
1001457 AAAATTAGATTAGAGATTAAATTGTTGAGATAT
1 AAAATTAGATTAGAGATTAAATTGTTAAGATAT
1001490 TCGATTATCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.34
Consensus pattern (33 bp):
AAAATTAGATTAGAGATTAAATTGTTAAGATAT
Found at i:1001637 original size:19 final size:18
Alignment explanation
Indices: 1001590--1001639 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1001580 TATTAAATGT
* *
1001590 AATAAATATTTAA-GAAA
1 AATATATATTTAATTAAA
1001607 AATATATATTTAATTAAA
1 AATATATATTTAATTAAA
*
1001625 AATATGATTTTTAAT
1 AATAT-ATATTTAAT
1001640 ATGAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 12 0.43
18 8 0.29
19 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATATATTTAATTAAA
Found at i:1002818 original size:2 final size:2
Alignment explanation
Indices: 1002811--1002840 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1002801 CATTCGAATA
1002811 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
1002841 GAAGCTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1006076 original size:17 final size:18
Alignment explanation
Indices: 1006054--1006109 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
1006044 ACTTAAAACG
1006054 TAAAATATAA-AAAATAT
1 TAAAATATAATAAAATAT
*
1006071 TAAAATTTAATAAAA-AT
1 TAAAATATAATAAAATAT
1006088 TAAAGATA-AATAATAATAT
1 TAAA-ATATAATAA-AATAT
1006107 TAA
1 TAA
1006110 TAGTGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 20 0.61
18 8 0.24
19 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAATATAATAAAATAT
Done.