Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold372
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: 1060101
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 9
Found at i:553882 original size:22 final size:22
Alignment explanation
Indices: 553857--553898 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
553847 ATTATCCATC
553857 TTTTCTACTTGAAAAAAAACTA
1 TTTTCTACTTGAAAAAAAACTA
* * *
553879 TTTTTTATTTTAAAAAAAAC
1 TTTTCTACTTGAAAAAAAAC
553899 CATATTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (22 bp):
TTTTCTACTTGAAAAAAAACTA
Found at i:554361 original size:18 final size:19
Alignment explanation
Indices: 554340--554393 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
554330 ATAATTTAAT
554340 ATAATTATATAATA-AAAA
1 ATAATTATATAATATAAAA
*
554358 ATAATTA-AAAATATAAAA
1 ATAATTATATAATATAAAA
554376 ATAATATATATATATATA
1 ATAAT-TATATA-ATATA
554394 TATCAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 5 0.17
18 16 0.53
19 2 0.07
20 2 0.07
21 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATTATATAATATAAAA
Found at i:554554 original size:25 final size:23
Alignment explanation
Indices: 554526--554599 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 23
554516 CAAATAAGAT
*
554526 TATAATTTTAAAAATAATATAATTA
1 TATAATTTTAAAAATAAT-TAA-AA
*
554551 TATAA-TATAAAAATAATTAAAA
1 TATAATTTTAAAAATAATTAAAA
* * *
554573 TATAATATTAATAAT--TTTAAA
1 TATAATTTTAAAAATAATTAAAA
554594 TATAAT
1 TATAAT
554600 ATAATATATG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.26
22 6 0.14
23 9 0.21
24 11 0.26
25 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAATTTTAAAAATAATTAAAA
Found at i:554566 original size:24 final size:22
Alignment explanation
Indices: 554534--554603 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 22
554524 ATTATAATTT
*
554534 TAAAAATAATATAATTATATAATA
1 TAAAAATAAT-TAA-AATATAATA
554558 TAAAAATAATTAAAATATAATA
1 TAAAAATAATTAAAATATAATA
* *
554580 T--TAATAATTTTAAATATAATA
1 TAAAAATAA-TTAAAATATAATA
554601 TAA
1 TAA
554604 TATATGATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.12
21 13 0.32
22 9 0.22
23 3 0.08
24 10 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAAATAATTAAAATATAATA
Found at i:554577 original size:11 final size:12
Alignment explanation
Indices: 554534--554607 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 12
554524 ATTATAATTT
554534 TAAAA-ATAATA
1 TAAAATATAATA
*
554545 TAATTATATAATA
1 TAA-AATATAATA
554558 TAAAA-ATAAT-
1 TAAAATATAATA
554568 TAAAATATAATA
1 TAAAATATAATA
*
554580 TTAATAATTTTAA-A
1 -TAA-AA-TATAATA
*
554594 TATAATATAATA
1 TAAAATATAATA
554606 TA
1 TA
554608 TGATTATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
10 5 0.10
11 17 0.34
12 7 0.14
13 14 0.28
14 3 0.06
15 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:554596 original size:21 final size:19
Alignment explanation
Indices: 554533--554605 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 19
554523 GATTATAATT
*
554533 TTAAAA-ATAATATAATTA
1 TTAAAATATAATATAATAA
*
554551 -TATAATATAA-A-AATAA
1 TTAAAATATAATATAATAA
554567 TTAAAATATAATATTAATAA
1 TTAAAATATAATA-TAATAA
*
554587 TTTTAAATATAATATAATA
1 -TTAAAATATAATATAATA
554606 TATGATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.09
17 14 0.31
18 5 0.11
20 10 0.22
21 12 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAATATAATATAATAA
Found at i:554600 original size:26 final size:26
Alignment explanation
Indices: 554571--554695 Score: 85
Period size: 26 Copynumber: 4.5 Consensus size: 26
554561 AAATAATTAA
554571 AATATAATAT-TAATAATTTTAAATAT
1 AATATAATATATAATAATTTTAAAT-T
* *
554597 AATATAATATATGATTATTTTAAATT
1 AATATAATATATAATAATTTTAAATT
* *
554623 TATATAATATAAATTATTAATTTATTAAAATT
1 AATATAATAT--A-TAATAA-TT-TT-AAATT
* *
554655 TATTTAA-ATAT-ATAATATTTAAATAT
1 AATATAATATATAATAAT-TTTAAAT-T
554681 AATTATAATATATAA
1 AA-TATAATATATAA
554696 AAAGAAGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 21
0.71 0.09 0.19
Matches are distributed among these distances:
25 4 0.05
26 25 0.32
27 20 0.26
28 6 0.08
29 5 0.06
30 2 0.03
31 4 0.05
32 11 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
AATATAATATATAATAATTTTAAATT
Found at i:554606 original size:31 final size:29
Alignment explanation
Indices: 554519--554645 Score: 76
Period size: 31 Copynumber: 4.5 Consensus size: 29
554509 ATCAATTCAA
*
554519 ATAAGATTATAATTTT-AA--AA-ATAAT
1 ATAATATTATAATTTTAAATTAATATAAT
* * * *
554544 ATAAT-TATATAATATAAAAATAATTAAAAT
1 ATAATAT-TATAATTTTAAATTAA-TATAAT
554574 ATAATATTAATAATTTTAAATATAATATAAT
1 ATAATATT-ATAATTTTAAAT-TAATATAAT
*
554605 AT-ATGA-T-T-ATTTTAAATTTATATAAT
1 ATAAT-ATTATAATTTTAAATTAATATAAT
554631 ATAA-ATTATTAATTT
1 ATAATATTA-TAATTT
554646 ATTAAAATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
24 1 0.01
25 12 0.15
26 13 0.17
27 10 0.13
28 4 0.05
29 4 0.05
30 13 0.17
31 18 0.23
32 3 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATAATATTATAATTTTAAATTAATATAAT
Found at i:555224 original size:20 final size:22
Alignment explanation
Indices: 555198--555241 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
555188 TAATATATAC
*
555198 AAAAATTTCATTT-TCATAATT
1 AAAATTTTCATTTATCATAATT
*
555219 AAAATTTTTATTTATCATAATT
1 AAAATTTTCATTTATCATAATT
555241 A
1 A
555242 TTGATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAATTTTCATTTATCATAATT
Found at i:555790 original size:18 final size:18
Alignment explanation
Indices: 555767--555805 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
555757 TTTTTTTATA
* *
555767 ATTAATATATATGTATTT
1 ATTAATATAAATATATTT
555785 ATTAATATAAATATATTT
1 ATTAATATAAATATATTT
555803 ATT
1 ATT
555806 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTAATATAAATATATTT
Found at i:555798 original size:22 final size:21
Alignment explanation
Indices: 555761--555806 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
555751 AATAATTTTT
555761 TTTATAATTAATATATATGTA
1 TTTATAATTAATATATATGTA
*
555782 TTTATTAATATAA-ATATATTTA
1 TTTA-TAAT-TAATATATATGTA
555804 TTT
1 TTT
555807 TACATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 15 0.68
23 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTATAATTAATATATATGTA
Found at i:555856 original size:32 final size:33
Alignment explanation
Indices: 555820--555882 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 33
555810 ATGTAAAATT
555820 TTAAAAATAATTCAAT-ATTT-ATATTT-TATTGA
1 TTAAAAAT-ATT-AATAATTTAATATTTATATTGA
555852 TTAAAAATATTAATAATTTAATATTTATATT
1 TTAAAAATATTAATAATTTAATATTTATATT
555883 TTACTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 3 0.11
31 7 0.25
32 14 0.50
33 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (33 bp):
TTAAAAATATTAATAATTTAATATTTATATTGA
Found at i:555875 original size:38 final size:38
Alignment explanation
Indices: 555825--555903 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
555815 AAATTTTAAA
*
555825 AATAATTCAATATTTATATTTTATTGATTAAAAATATT
1 AATAATTCAATATTTATATTTTACTGATTAAAAATATT
* * *
555863 AATAATTTAATATTTATATTTTACTGATTGAGAATATT
1 AATAATTCAATATTTATATTTTACTGATTAAAAATATT
555901 AAT
1 AAT
555904 TTTTTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (38 bp):
AATAATTCAATATTTATATTTTACTGATTAAAAATATT
Found at i:555975 original size:27 final size:24
Alignment explanation
Indices: 555899--555976 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 24
555889 ATTGAGAATA
555899 TTAATTTTTTTAATATATATTTTAAAAG
1 TTAA-TTTTTTAAT-T-TA-TTTAAAAG
* **
555927 TTAATTTTTTAAATTAAATAAATAG
1 TTAATTTTTTAATTTATTTAAA-AG
555952 TTAAATATTTTTAATTTATTTAAAA
1 TT-AAT-TTTTTAATTTATTTAAAA
555977 CTCAATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 5 0.12
27 22 0.54
28 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (24 bp):
TTAATTTTTTAATTTATTTAAAAG
Found at i:556857 original size:11 final size:11
Alignment explanation
Indices: 556828--556902 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 11
556818 ATTTATTAAT
556828 ATATAAAAATTA
1 ATATAAAAA-TA
556840 AT-T-AAAATA
1 ATATAAAAATA
556849 ATATAAAAAT-
1 ATATAAAAATA
*
556859 ATCATAAATATA
1 AT-ATAAAAATA
556871 ATATAAATATATAA
1 ATATAAA-A-AT-A
*
556885 ATATAATAATA
1 ATATAAAAATA
556896 TATATAA
1 -ATATAA
556903 TATAAATTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 4 0.08
10 7 0.13
11 19 0.37
12 12 0.23
13 3 0.06
14 7 0.13
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:556871 original size:22 final size:21
Alignment explanation
Indices: 556828--556965 Score: 86
Period size: 20 Copynumber: 6.9 Consensus size: 21
556818 ATTTATTAAT
556828 ATATAAAAAT-TAATTAAA-ATA
1 ATATAAAAATAT-A-TAAATATA
556849 ATATAAAAATATCATAAATATA
1 ATATAAAAATAT-ATAAATATA
556871 ATAT--AAATATATAAATATA
1 ATATAAAAATATATAAATATA
* *
556890 ATAATATATATAATATAAAT-T-
1 AT-ATAAAAAT-ATATAAATATA
556911 AT-TAATAAAT-TA-AAAT-T-
1 ATATAA-AAATATATAAATATA
* *
556928 -TATTAAAATATAAAAATATA
1 ATATAAAAATATATAAATATA
*
556948 ATAT-AAAATATAAAAATA
1 ATATAAAAATATATAAATA
556966 AATTATTAAA
Statistics
Matches: 99, Mismatches: 5, Indels: 27
0.76 0.04 0.21
Matches are distributed among these distances:
16 5 0.05
17 9 0.09
18 6 0.06
19 14 0.14
20 25 0.25
21 19 0.19
22 13 0.13
23 8 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATAAAAATATATAAATATA
Found at i:556879 original size:31 final size:31
Alignment explanation
Indices: 556844--556909 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
556834 AAATTAATTA
*
556844 AAATAATATAAAAAT-ATCATAAATATAATAT
1 AAAT-ATATAAAAATAATAATAAATATAATAT
* *
556875 AAATATATAAATATAATAATATATATAATAT
1 AAATATATAAAAATAATAATAAATATAATAT
556906 AAAT
1 AAAT
556910 TATTAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATATATAAAAATAATAATAAATATAATAT
Found at i:556884 original size:8 final size:8
Alignment explanation
Indices: 556848--556965 Score: 61
Period size: 8 Copynumber: 14.5 Consensus size: 8
556838 TAATTAAAAT
*
556848 AATATAAA
1 AATATATA
556856 AATATCATAA
1 AATAT-AT-A
556866 ATATAATATA
1 A-AT-ATATA
556876 AATATATA
1 AATATATA
556884 AATATA-A
1 AATATATA
556891 TAATATATA
1 -AATATATA
556900 TAATATA-A
1 -AATATATA
*
556908 ATTATTAATA
1 AATA-T-ATA
556918 AAT-TA-A
1 AATATATA
*
556924 AATTTATTA
1 AATATA-TA
556933 AA-ATATA
1 AATATATA
*
556940 AAAATAT-
1 AATATATA
556947 AATATA-A
1 AATATATA
*
556954 AATATAAA
1 AATATATA
556962 AATA
1 AATA
556966 AATTATTAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
6 4 0.04
7 22 0.24
8 36 0.40
9 15 0.17
10 7 0.08
11 4 0.04
12 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:556966 original size:13 final size:14
Alignment explanation
Indices: 556848--556983 Score: 68
Period size: 13 Copynumber: 9.1 Consensus size: 14
556838 TAATTAAAAT
556848 AATATAAAAATATCATA
1 AATAT-AAAATAT-A-A
556865 AATAT--AATAT-A
1 AATATAAAATATAA
556876 AATATATAAATATAA
1 AATATA-AAATATAA
556891 TAATATATATAATATAA
1 -AATATA-A-AATATAA
*
556908 ATTATTAATAA-ATTAA
1 AATA-TAA-AATA-TAA
556924 AATTTATTAAAATATAA
1 AA--TA-TAAAATATAA
*
556941 AA-ATATAATATAA
1 AATATAAAATATAA
556954 AATATAAAA-ATAA
1 AATATAAAATATAA
* *
556967 ATTATTAAATATTAA
1 AATATAAAATA-TAA
556982 AA
1 AA
556984 GTCAAGTTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
11 6 0.06
13 22 0.22
14 17 0.17
15 6 0.06
16 19 0.19
17 21 0.21
18 7 0.07
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAATATAA
Found at i:556976 original size:20 final size:20
Alignment explanation
Indices: 556820--557005 Score: 85
Period size: 20 Copynumber: 8.8 Consensus size: 20
556810 TACCTCACAT
*
556820 TTATTAATATATAAAAATTAA
1 TTATTAA-ATATAAAAATAAA
** *
556841 TTAAAATAATATAAAAATATCA
1 TTATTA-AATATAAAAATA-AA
* *
556863 TAAATATAATATAAATATATAAA
1 TTATTA-AATATAAA-A-ATAAA
* *
556886 TATAATAATATATATAATATAAA
1 T-TATTAA-ATATA-AAAATAAA
* *
556909 TTATT-AATA-AATTAA-AAT
1 TTATTAAATATAA-AAATAAA
556927 TTATTAAAATATAAAAATATAA
1 TTATT-AAATATAAAAATA-AA
*
556949 -TATAAAATATAAAAATAAA
1 TTATTAAATATAAAAATAAA
* *
556968 TTATTAAATATTAAAAGTCAAG
1 TTATTAAATA-TAAAAAT-AAA
*
556990 TTTTTAAAT-TAAAAAT
1 TTATTAAATATAAAAAT
557006 TAGTAAATGT
Statistics
Matches: 128, Mismatches: 21, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
18 8 0.06
19 4 0.03
20 36 0.28
21 27 0.21
22 29 0.23
23 10 0.08
24 12 0.09
25 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (20 bp):
TTATTAAATATAAAAATAAA
Found at i:558809 original size:21 final size:21
Alignment explanation
Indices: 558785--558829 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
558775 TTATTATTGA
* *
558785 TTTTAATTTTATTATAA-TAAT
1 TTTTAATCTCATTA-AATTAAT
558806 TTTTAATCTCATTAAATTAAT
1 TTTTAATCTCATTAAATTAAT
558827 TTT
1 TTT
558830 AATGATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAATCTCATTAAATTAAT
Found at i:559351 original size:24 final size:22
Alignment explanation
Indices: 559324--559381 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
559314 GTATTTGCTT
559324 TATA-ATTAATTTTTAAT-TATA
1 TATATATTAATTTTT-ATGTATA
559345 TAATATATT-ATTTTTATGTATA
1 T-ATATATTAATTTTTATGTATA
559367 TATATTATATAATTT
1 TATA-TAT-TAATTT
559382 ATGTTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 6 0.19
22 17 0.55
23 4 0.13
24 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATATTAATTTTTATGTATA
Found at i:559416 original size:34 final size:31
Alignment explanation
Indices: 559366--559442 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 31
559356 TTTTATGTAT
* *
559366 ATATATTATATAATTTATGTTATATAAAATTTTA
1 ATATATAATATAATTTATATT-TA-AAAA-TTTA
*
559400 ATATATAATATTATTTATATTTAAAAATTTA
1 ATATATAATATAATTTATATTTAAAAATTTA
*
559431 ATA-AAAATATAA
1 ATATATAATATAA
559443 AATTAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 7 0.18
31 7 0.18
32 4 0.11
33 2 0.05
34 18 0.47
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
ATATATAATATAATTTATATTTAAAAATTTA
Found at i:559417 original size:29 final size:30
Alignment explanation
Indices: 559372--559433 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
559362 GTATATATAT
*
559372 TATATAATTTATGTTATA-TAAAATTTTAA
1 TATATAATTTATGTTATATTAAAAATTTAA
559401 TATATAATATTAT-TTATATTTAAAAATTTAA
1 TATATAAT-TTATGTTATA-TTAAAAATTTAA
559432 TA
1 TA
559434 AAAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 13 0.45
30 4 0.14
31 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TATATAATTTATGTTATATTAAAAATTTAA
Found at i:559521 original size:21 final size:21
Alignment explanation
Indices: 559497--559559 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
559487 AAAATAAAAA
559497 TAAATTATTTATTTATAAATT
1 TAAATTATTTATTTATAAATT
*
559518 TAAAATTA-ATATTTA-AAATT
1 T-AAATTATTTATTTATAAATT
** *
559538 TAAAAAATTTATATTTTAAATT
1 TAAATTATTTAT-TTATAAATT
559560 CAACTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.27
21 9 0.27
22 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTATTTATTTATAAATT
Found at i:559558 original size:22 final size:20
Alignment explanation
Indices: 559506--559559 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
559496 ATAAATTATT
559506 TATTTATAAATTTAAAATTAA
1 TATTT-TAAATTTAAAATTAA
* *
559527 TATTTAAAATTTAAAAAATTTA
1 TATTTTAAATTT--AAAATTAA
559549 TATTTTAAATT
1 TATTTTAAATT
559560 CAACTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 5 0.18
22 17 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTTAAATTTAAAATTAA
Found at i:562356 original size:15 final size:15
Alignment explanation
Indices: 562336--562364 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
562326 AAATGGGCTG
562336 TATAAAGAGTTGCTC
1 TATAAAGAGTTGCTC
562351 TATAAAGAGTTGCT
1 TATAAAGAGTTGCT
562365 TCAAATAATC
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:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (15 bp):
TATAAAGAGTTGCTC
Found at i:564723 original size:15 final size:15
Alignment explanation
Indices: 564682--564723 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
564672 AGCCTTTGGC
564682 AAGAATTTAGATAAA
1 AAGAATTTAGATAAA
*
564697 AA-AAATTAGATAAA
1 AAGAATTTAGATAAA
*
564711 AAGAATTTTGATA
1 AAGAATTTAGATA
564724 TTATATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (15 bp):
AAGAATTTAGATAAA
Found at i:565217 original size:2 final size:2
Alignment explanation
Indices: 565210--565250 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
565200 GTATACTTTC
*
565210 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AG 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
565251 GGCCAAAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:569438 original size:20 final size:20
Alignment explanation
Indices: 569415--569484 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
569405 TATCAAAATT
569415 TATATAAAATAAATTATTAA
1 TATATAAAATAAATTATTAA
569435 TATATTAAAATAAA-TATATAA
1 TATA-TAAAATAAATTAT-TAA
569456 TAT-TATAAATATAATTA-TAA
1 TATATA-AAATA-AATTATTAA
569476 TATATAAAA
1 TATATAAAA
569485 AATATATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.05
20 21 0.48
21 19 0.43
22 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAAATAAATTATTAA
Found at i:569453 original size:16 final size:16
Alignment explanation
Indices: 569434--569477 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
569424 TAAATTATTA
*
569434 ATATATTAAAATAAAT
1 ATATATTATAATAAAT
* *
569450 ATATAATATTATAAAT
1 ATATATTATAATAAAT
569466 ATA-ATTATAATA
1 ATATATTATAATA
569478 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATTATAATAAAT
Found at i:569460 original size:19 final size:19
Alignment explanation
Indices: 569436--569512 Score: 81
Period size: 19 Copynumber: 4.1 Consensus size: 19
569426 AATTATTAAT
569436 ATATTA-AAATAAATATATA
1 ATATTATAAA-AAATATATA
569455 ATATTATAAATATAAT-TATA
1 ATATTATAAA-A-AATATATA
569475 ATA-TATAAAAAATATATAA
1 ATATTATAAAAAATATAT-A
*
569494 ATATAAT-AAAAATATATA
1 ATATTATAAAAAATATATA
569512 A
1 A
569513 CTTATCAATG
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
17 3 0.06
18 6 0.12
19 26 0.50
20 14 0.27
21 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATATTATAAAAAATATATA
Found at i:569488 original size:11 final size:10
Alignment explanation
Indices: 569433--569512 Score: 56
Period size: 11 Copynumber: 7.9 Consensus size: 10
569423 ATAAATTATT
*
569433 AATATATTAA
1 AATATATAAA
* *
569443 AATAAATATAT
1 AATATATA-AA
*
569454 AATAT-TATA
1 AATATATAAA
* *
569463 AATATAATTAT
1 AATAT-ATAAA
569474 AATATATAAA
1 AATATATAAA
*
569484 AA-ATATATA
1 AATATATAAA
569493 AATATAATAAA
1 AATAT-ATAAA
569504 AATATATAA
1 AATATATAA
569513 CTTATCAATG
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
9 13 0.25
10 19 0.37
11 20 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AATATATAAA
Found at i:569508 original size:30 final size:31
Alignment explanation
Indices: 569415--569512 Score: 103
Period size: 30 Copynumber: 3.2 Consensus size: 31
569405 TATCAAAATT
* *
569415 TATATAAAATAA-ATTATTAATAT-ATTAAAA
1 TATATAAAA-AATATTATAAATATAATAAAAA
* * * * *
569445 TAAATATATAATATTATAAATATAATTATAA
1 TATATAAAAAATATTATAAATATAATAAAAA
569476 TATATAAAAAATA-TATAAATATAATAAAAA
1 TATATAAAAAATATTATAAATATAATAAAAA
569506 TATATAA
1 TATATAA
569513 CTTATCAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 2 0.04
30 38 0.68
31 16 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
TATATAAAAAATATTATAAATATAATAAAAA
Found at i:575997 original size:6 final size:7
Alignment explanation
Indices: 575980--576009 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
575970 TGCATCATTG
575980 TTTTTTA
1 TTTTTTA
575987 TTTTTTA
1 TTTTTTA
575994 TTTTTTA
1 TTTTTTA
576001 -TTTTTA
1 TTTTTTA
576007 TTT
1 TTT
576010 GTTGCACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:575999 original size:14 final size:13
Alignment explanation
Indices: 575980--576009 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
575970 TGCATCATTG
575980 TTTTTTATTTTTTA
1 TTTTTTA-TTTTTA
575994 TTTTTTATTTTTA
1 TTTTTTATTTTTA
576007 TTT
1 TTT
576010 GTTGCACTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:576386 original size:11 final size:10
Alignment explanation
Indices: 576356--576396 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
576346 AAATAAAATA
576356 TATAAATATT
1 TATAAATATT
576366 TATAAATATT
1 TATAAATATT
*
576376 TTTATAATATT
1 TATA-AATATT
576387 ATATAAATAT
1 -TATAAATAT
576397 AAAAACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 13 0.48
11 11 0.41
12 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATAAATATT
Found at i:576730 original size:18 final size:18
Alignment explanation
Indices: 576709--576765 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
576699 TTATTTTATT
576709 ATAAAAATATTATAAATA
1 ATAAAAATATTATAAATA
576727 ATAAAAATATT-T-AA-A
1 ATAAAAATATTATAAATA
* *
576742 ATATATAT-TTA-AAATA
1 ATAAAAATATTATAAATA
576758 ATAAAAAT
1 ATAAAAAT
576766 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.06
15 9 0.28
16 9 0.28
17 1 0.03
18 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAAATATTATAAATA
Found at i:576751 original size:13 final size:13
Alignment explanation
Indices: 576733--576757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
576723 AATAATAAAA
576733 ATATTTAAAATAT
1 ATATTTAAAATAT
576746 ATATTTAAAATA
1 ATATTTAAAATA
576758 ATAAAAATTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTAAAATAT
Found at i:576755 original size:22 final size:21
Alignment explanation
Indices: 576730--576805 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 21
576720 ATAAATAATA
*
576730 AAAATATTTAAAATATATATTT
1 AAAATA-TTAAAATATTTATTT
*
576752 AAAATAATAAAA-ATTTTAATTTT
1 AAAATATTAAAATA-TTT-A-TTT
576775 AAAA-ATTAAAATATTTATTT
1 AAAATATTAAAATATTTATTT
576795 AATTAATATTA
1 AA--AATATTA
576806 TATTAACGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 6 0.14
21 8 0.18
22 18 0.41
23 12 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATATTAAAATATTTATTT
Found at i:576794 original size:21 final size:22
Alignment explanation
Indices: 576730--576796 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
576720 ATAAATAATA
* *
576730 AAAATATTTAAAATATATATTT
1 AAAATAATTAAAATATTTATTT
*
576752 AAAATAATAAAAAT-TTTAATTT
1 AAAATAATTAAAATATTT-ATTT
*
576774 TAAA-AATTAAAATATTTATTT
1 AAAATAATTAAAATATTTATTT
576795 AA
1 AA
576797 TTAATATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATTAAAATATTTATTT
Found at i:577184 original size:2 final size:2
Alignment explanation
Indices: 577177--577207 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
577167 GTTTAGCAAA
*
577177 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
577208 CAAATTTTTA
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:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:577467 original size:41 final size:44
Alignment explanation
Indices: 577383--577487 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 44
577373 CTATATAATT
*
577383 AAGTTTTAAA--TTTATTTATAAATTGAATCGAATTATAATTTAA
1 AAGTTTTAAATTTTTATTTAT-AATTGAATCGAAATATAATTTAA
577426 AAGTTTTAAATTTTTATTTAT-ATTAGAATC-AAAT-TAA-TTAA
1 AAGTTTTAAATTTTTATTTATAATT-GAATCGAAATATAATTTAA
* *
577467 AAATTTT-ATTTTATTATTTAT
1 AAGTTTTAAATTT-TTATTTAT
577488 TATATTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
40 4 0.07
41 18 0.33
42 3 0.05
43 16 0.29
44 5 0.09
45 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (44 bp):
AAGTTTTAAATTTTTATTTATAATTGAATCGAAATATAATTTAA
Found at i:579715 original size:17 final size:17
Alignment explanation
Indices: 579671--579715 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
579661 ACTAAACTCA
*
579671 ATAAAAAAATTAT-AAT
1 ATAAATAAATTATAAAT
*
579687 A-ATATAAA-TATAAAT
1 ATAAATAAATTATAAAT
579702 ATAAATAAATTATA
1 ATAAATAAATTATA
579716 TATTCAAGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
14 3 0.13
15 9 0.39
16 7 0.30
17 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAATTATAAAT
Found at i:580286 original size:10 final size:9
Alignment explanation
Indices: 580262--580294 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
580252 AAACTTATAA
580262 TTTTTAATT
1 TTTTTAATT
580271 TTTTTAATT
1 TTTTTAATT
580280 TTATTTAATT
1 TT-TTTAATT
580290 TTTTT
1 TTTTT
580295 TTTGTAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTAATT
Found at i:580723 original size:28 final size:27
Alignment explanation
Indices: 580635--580726 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 27
580625 TTAACCACCG
* *
580635 TAATTATTTTTAAGA--TTTAATTAA-
1 TAATTATTTTTAAAATTTTTTATTAAT
* * *
580659 TAAATATTTATAAATATTTTTTAATTATT
1 TAATTATTTTTAAA-ATTTTTT-ATTAAT
*
580688 TAA-AATTTTTAAAATTTTTTATTAAAT
1 TAATTATTTTTAAAATTTTTTATT-AAT
580715 TAATTATTTTTA
1 TAATTATTTTTA
580727 TAAAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
24 11 0.21
25 1 0.02
26 3 0.06
27 15 0.29
28 19 0.37
29 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TAATTATTTTTAAAATTTTTTATTAAT
Found at i:580878 original size:11 final size:11
Alignment explanation
Indices: 580862--580907 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
580852 TTAATAATTT
580862 TTATATTTATA
1 TTATATTTATA
580873 TTATATTTATA
1 TTATATTTATA
*
580884 -TATTTTATATA
1 TTATATT-TATA
*
580895 TTATAATTATA
1 TTATATTTATA
580906 TT
1 TT
580908 TAAAGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 5 0.17
11 21 0.70
12 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATTTATA
Found at i:580894 original size:28 final size:26
Alignment explanation
Indices: 580857--580929 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
580847 TAAAATTAAT
580857 AATTTT-TATATTTATATTATATTTA
1 AATTTTATATATTTATATTATATTTA
580882 TATATTTTATATA-TTATAATTATATTTA
1 -A-ATTTTATATATTTAT-ATTATATTTA
*
580910 AAGTATTATATATTTATATT
1 AA-TTTTATATATTTATATT
580930 TAATATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 2 0.05
27 21 0.51
28 18 0.44
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
AATTTTATATATTTATATTATATTTA
Found at i:580897 original size:22 final size:21
Alignment explanation
Indices: 580869--580950 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
580859 TTTTTATATT
580869 TATATTATATTTATATATTTTA
1 TATATTATATTT-TATATTTTA
*
580891 TATATTATA-ATTATA-TTTA
1 TATATTATATTTTATATTTTA
* *
580910 AAGTATTATATATTTATATTTAA
1 TA-TATTATAT-TTTATATTTTA
*
580933 TATATTAATAATTTATAT
1 TATATT-ATATTTTATAT
580951 GATATAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
19 5 0.10
20 11 0.22
21 1 0.02
22 25 0.51
23 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
TATATTATATTTTATATTTTA
Found at i:581783 original size:2 final size:2
Alignment explanation
Indices: 581778--581817 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
581768 ATTTTTTTCA
581778 AT AT AT AT AT -T CAT 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
581818 TCCCTTAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:582386 original size:16 final size:15
Alignment explanation
Indices: 582352--582393 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
582342 AGGTTTTTTT
*
582352 AATTACATTATTAAAA
1 AATTA-ATTTTTAAAA
582368 AATTAATTTTTAAATA
1 AATTAATTTTTAAA-A
582384 AATTAATTTT
1 AATTAATTTT
582394 AATATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTAATTTTTAAAA
Found at i:582402 original size:14 final size:15
Alignment explanation
Indices: 582352--582404 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
582342 AGGTTTTTTT
582352 AATTACATTATTAAA-A
1 AATTA-ATT-TTAAATA
582368 AATTAATTTTTAAATA
1 AATTAA-TTTTAAATA
582384 AATTAATTTT-AATA
1 AATTAATTTTAAATA
*
582398 TATTAAT
1 AATTAAT
582405 AGTAATTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 10 0.29
15 10 0.29
16 14 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTAATTTTAAATA
Found at i:583260 original size:20 final size:19
Alignment explanation
Indices: 583216--583262 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
583206 TTAGTTTAAG
*
583216 TTTATTTAAAAATTTATTT
1 TTTATTTAAAAATATATTT
583235 TATTATTT-AAAATAATATATT
1 T-TTATTTAAAAAT-ATAT-TT
583256 TTTATTT
1 TTTATTT
583263 TTATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTAAAAATATATTT
Found at i:584238 original size:13 final size:14
Alignment explanation
Indices: 584209--584242 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
584199 ACTTAATTTA
584209 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
584223 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
584236 TTAATAA
1 TTAATAA
584243 AATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:584498 original size:17 final size:17
Alignment explanation
Indices: 584476--584518 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
584466 ACTTTGAAGG
584476 TAAAAAATA-TATATTTT
1 TAAAAAATATTATA-TTT
*
584493 TAAAAAATATTTTATTT
1 TAAAAAATATTATATTT
584510 TAAAAAATA
1 TAAAAAATA
584519 ATAAATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAAATATTATATTT
Found at i:601310 original size:20 final size:20
Alignment explanation
Indices: 601287--601324 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
601277 ATATGTTTAA
601287 TAAATA-AAATATAATATATT
1 TAAATATAAAT-TAATATATT
601307 TAAATATAAATTAATATA
1 TAAATATAAATTAATATA
601325 AAATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATAAATTAATATATT
Found at i:601322 original size:25 final size:23
Alignment explanation
Indices: 601276--601359 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
601266 TATAATACGG
* *
601276 AATATGTTTAATAAATAA-AATAT
1 AATATATTTAA-ATATAATAATAT
601299 AATATATTTAAATATAAATTAATAT
1 AATATATTTAAATAT-AA-TAATAT
* * *
601324 AAAATATTTAATTATCATAATAT
1 AATATATTTAAATATAATAATAT
*
601347 ATTTATATTTAAA
1 A-ATATATTTAAA
601360 ATTTTATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 3 0.06
23 19 0.39
24 9 0.18
25 18 0.37
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (23 bp):
AATATATTTAAATATAATAATAT
Found at i:601649 original size:11 final size:11
Alignment explanation
Indices: 601626--601669 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
601616 TATGTATTTA
601626 ATAATTAATATT
1 ATAATT-ATATT
601638 ATAATTATATT
1 ATAATTATATT
601649 ATAATTAT-TAT
1 ATAATTATAT-T
*
601660 ATATTTATAT
1 ATAATTATAT
601670 AAATTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 1 0.03
11 21 0.72
12 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATAATTATATT
Found at i:601659 original size:20 final size:19
Alignment explanation
Indices: 601614--601706 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 19
601604 GTTTTGAGAA
*
601614 ATTATGTATTTA-ATAATT
1 ATTATATATTTATATAATT
*
601632 AATATTATAATTATATTATAATT
1 ATTA-TAT-ATT-TA-TATAATT
601655 ATTATATATTTATATAAATT
1 ATTATATATTTATAT-AATT
*
601675 TTTATATATTTATATATATT
1 ATTATATATTTATATA-ATT
*
601695 ATTTTAT-TTTAT
1 ATTATATATTTAT
601707 TTTTATATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
18 3 0.05
19 11 0.18
20 31 0.50
21 5 0.08
22 3 0.05
23 9 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTATATATTTATATAATT
Found at i:601675 original size:10 final size:10
Alignment explanation
Indices: 601620--601753 Score: 68
Period size: 10 Copynumber: 13.6 Consensus size: 10
601610 AGAAATTATG
601620 TATTTA-ATA
1 TATTTATATA
*
601629 -ATTAATATTA
1 TATTTATA-TA
*
601639 TAATTATATTA
1 TATTTATA-TA
*
601650 TAATTATTATA
1 TATTTA-TATA
601661 TATTTATATA
1 TATTTATATA
* *
601671 AATTTTTATA
1 TATTTATATA
601681 TATTTATATA
1 TATTTATATA
*
601691 TA-TTAT-TT
1 TATTTATATA
601699 TATTT-TAT-
1 TATTTATATA
601707 T-TTTATATAA
1 TATTTATAT-A
* *
601717 TAATTTAAAAA
1 T-ATTTATATA
601728 T-TTTATATTA
1 TATTTATA-TA
*
601738 TAATTATATA
1 TATTTATATA
*
601748 CATTTA
1 TATTTA
601754 AAATTTATCA
Statistics
Matches: 96, Mismatches: 16, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
7 3 0.03
8 12 0.12
9 13 0.14
10 33 0.34
11 28 0.29
12 7 0.07
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTATATA
Found at i:602772 original size:31 final size:32
Alignment explanation
Indices: 602731--602790 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
602721 AATTTTAGTC
602731 ATAAAAAAAATATATAAATA-T-AATATATTTA
1 ATAAAAAAAATAT-TAAATATTAAATATATTTA
*
602762 ATAAATAAAATATTAAATATTAAATATAT
1 ATAAAAAAAATATTAAATATTAAATATAT
602791 ATTATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 13 0.50
32 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
ATAAAAAAAATATTAAATATTAAATATATTTA
Found at i:602806 original size:6 final size:6
Alignment explanation
Indices: 602788--602822 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
602778 ATATTAAATA
602788 TATATT ATATATT TATATT TATATT TATATT TATA
1 TATATT -TATATT TATATT TATATT TATATT TATA
602823 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:602857 original size:19 final size:17
Alignment explanation
Indices: 602820--602858 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
602810 ATTTATATTT
602820 ATAATTTTATAATTTTA
1 ATAATTTTATAATTTTA
*
602837 ATAATTTTTATCATGTTTA
1 ATAA-TTTTATAAT-TTTA
602856 ATA
1 ATA
602859 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATAATTTTATAATTTTA
Found at i:603168 original size:82 final size:81
Alignment explanation
Indices: 603018--603195 Score: 192
Period size: 82 Copynumber: 2.3 Consensus size: 81
603008 GTCCGCACCG
* * * * * *
603018 TATAAAGTAAAAAATATAATTATAAAATAAAATAATTATTCGTTATAATTATACCACTTTTCTTT
1 TATAAAATAAAAAATATAATTATAAAACAAAATAATCATTCGTCATAATTATACCACTTTTATCT
603083 TTTTTTATCTTAATAA
66 TTTTTTATCTTAATAA
* * * *
603099 TATAAAATAAAAAGATATAATTATAAAACAGAATGATCATT-GATCATAATTATATCATTTTTAT
1 TATAAAATAAAAA-ATATAATTATAAAACAAAATAATCATTCG-TCATAATTATACCACTTTTAT
603163 CTTTTTTT-TC------A
64 CTTTTTTTATCTTAATAA
603174 TATAAAATAAAAAATATAATTA
1 TATAAAATAAAAAATATAATTA
603196 ATTTCATCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
74 9 0.11
75 14 0.16
81 15 0.18
82 47 0.55
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (81 bp):
TATAAAATAAAAAATATAATTATAAAACAAAATAATCATTCGTCATAATTATACCACTTTTATCT
TTTTTTATCTTAATAA
Found at i:603292 original size:30 final size:28
Alignment explanation
Indices: 603237--603304 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
603227 TATTTACTAT
603237 TATAATTATATTTAAATTATTTTATATTTA
1 TATAA-TA-ATTTAAATTATTTTATATTTA
*
603267 TATAATAATTTAAAATTTTTATTATATTTA
1 TATAATAATTT-AAATTATT-TTATATTTA
*
603297 TATTATAA
1 TATAATAA
603305 AATAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 4 0.12
29 9 0.26
30 21 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TATAATAATTTAAATTATTTTATATTTA
Found at i:603795 original size:14 final size:14
Alignment explanation
Indices: 603771--603806 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 14
603761 TTAATTAATT
603771 AATTATAAAAATTTAA
1 AATT-TAAAAA-TTAA
603787 AATTTAAAAATTAA
1 AATTTAAAAATTAA
603801 AATTTA
1 AATTTA
603807 TTAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
15 6 0.30
16 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTAAAAATTAA
Found at i:603827 original size:17 final size:18
Alignment explanation
Indices: 603802--603849 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
603792 AAAAATTAAA
603802 ATTTATTAAATTATTAT-T
1 ATTT-TTAAATTATTATGT
* *
603820 ATTTTTAAA-AATTTTGT
1 ATTTTTAAATTATTATGT
603837 ATTTTTAAATTAT
1 ATTTTTAAATTAT
603850 AATAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.16
17 15 0.60
18 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTTAAATTATTATGT
Found at i:604469 original size:19 final size:19
Alignment explanation
Indices: 604426--604472 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
604416 TGATATATTT
*
604426 ATATTTAA-AATTTATTAT
1 ATATTTAATAATTTATTAC
*
604444 ATTTTTAATAATTT-TTACC
1 ATATTTAATAATTTATTA-C
604463 ATATTTAATA
1 ATATTTAATA
604473 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTAATAATTTATTAC
Found at i:604663 original size:26 final size:26
Alignment explanation
Indices: 604634--604695 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
604624 GAAGAGAAGG
604634 ATATATTTAATAAATAAATAAATAAA
1 ATATATTTAATAAATAAATAAATAAA
* * *
604660 ATATATTTAA-ATATTAATTAATAAA
1 ATATATTTAATAAATAAATAAATAAA
*
604685 AAATATTTAAT
1 ATATATTTAAT
604696 GTAAGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 21 0.68
26 10 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATATTTAATAAATAAATAAATAAA
Found at i:604754 original size:19 final size:18
Alignment explanation
Indices: 604709--604755 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
604699 AGTAATATAT
*
604709 TTATGTTTAA-AATTTTA
1 TTATATTTAATAATTTTA
*
604726 -TATTTTTAATAATTTTTA
1 TTATATTTAATAA-TTTTA
604744 TTATATTTAATA
1 TTATATTTAATA
604756 TAAAAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 5 0.20
19 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTTAATAATTTTA
Found at i:605343 original size:124 final size:124
Alignment explanation
Indices: 605178--607330 Score: 3359
Period size: 124 Copynumber: 17.4 Consensus size: 124
605168 ATCATAATTG
* * ** * * *
605178 TACCATCCTTATAGGTTTCTTCCAT-TAAAATAAAATATATAATTGTAAATTATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
605242 TGTCTATCTTCTTTATATAAAATAAAAAATATAATTGTAAAAAAGAATCATTTTTTATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * * *
605301 TACCATCCATGTCCGTTTCTACCATATAAAATAAAAGATATAATTATAGATCATTATACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
605366 TGTCTATC-TCGTTAATATAAAATAAAAAATATAATTGTAAAAAGGAATCACTTTTGATC
66 TGTCTATCTTC-TTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * *
605425 TACCATCTTTGTCGGTTTCCACCGTATAAAATAAAAGATTTAATTGTAGATCATTGCACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
605490 TGTCTATTTTCTTGATATAAAATAAAAAATATAATTGTAAAAAAGAATCATTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
*
605549 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTATCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
605614 TGTCTATCTTCTTAATCTAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* *
605673 TACCATCCTCGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAAATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
605738 TATCTATCTTCTTCATATAAAATAAAAAATATAATTGCAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* **
605797 TACTATCCTTGTCGGTTTTTACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
605862 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTATAAAAAAGAATCATTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
*
605921 TACCATCCTTGTCAGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
605986 TGTCTATCTTCTTAATATAAAATAAAAAATATAATTGTAAAAAAAAAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGT-AAAAAAGAATCACTTTTGATC
**
606046 TACCATCCTTGTTTGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
*
606111 TATCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * *
606170 TACCATCCTTGTCTGTTTTCACCATATACAGTAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
606235 TGTCTATCTTCTACATATAAAATAAAAAATATAATTATAAAAAAGAATCATTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * *
606294 TACCATCATTATCGGTTTCCACCATATAAAATAAAAGATATAATTGTATATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
606359 TGTCTATCTTTTTAATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * * *
606418 TATCATCCTTGTCTGTTTCTACCATATAAAGTAAAAGATACAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
606483 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
*
606542 TACCATCCTTGTCAGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* *
606607 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTATAAAAAAGAATCATTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * * *
606666 TACTATCTTTGTAGGTTTTCACCATATAAAATAAAAGATATAATTGTAGATTATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
606731 TGTCTATCTTTTTAATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * *
606790 TACTATCTTTGTCGGTTTTCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACTACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
*
606855 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * *
606914 TACCATCCTTGT-AGTTTCCACCATATAAAATAAAAGATATAATTATAAATCATTGTATCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
606978 TGTCTATTTTCTTCATATAAACTAAAAAATATAATTGAAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* * * *
607037 TACCATCCTTATCTGTTTCCACCAT-TAAAATAAAAGATATAATTGTAGATCATTTTATCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
* * *
607101 TGTCTATCTTCTTCATAT-AAA-AAAATATATAATTATAAAAAAGAAACACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
* *
607158 TACCATCCTCGTCGGTTTCTACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
1 TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
*
607223 TGTCTATCTTCTTTATAT-AAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
66 TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
** *
607281 TGTCA-CCTTCGTCGATTTCCACCATATAAAATAAAAGATATAATTGTAGA
1 TACCATCCTT-GTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGA
607331 AAAAAATCAT
Statistics
Matches: 1864, Mismatches: 158, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
121 53 0.03
122 62 0.03
123 261 0.14
124 1368 0.73
125 120 0.06
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (124 bp):
TACCATCCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTT
TGTCTATCTTCTTCATATAAAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATC
Found at i:605493 original size:56 final size:56
Alignment explanation
Indices: 605432--605617 Score: 133
Period size: 56 Copynumber: 3.1 Consensus size: 56
605422 ATCTACCATC
*
605432 TTTGTCGGTTTCCACCGTATAAAATAAAAGATTTAATTGTAGATCATTGCACCACT
1 TTTGTCGGTTTCCACCGTATAAAATAAAAGATATAATTGTAGATCATTGCACCACT
** * ** *
605488 TTTGTCTATTTTC-TTGATATAAAATAAAAAATATAATTGTAAAAAAGAATCATTTTTGATCTAC
1 TTTGTCGGTTTCCACCG-TATAAAATAAAAGATATAATTGT-----AG-ATCA---TTG--C-AC
605552 CA-T
53 CACT
* * * *
605555 CCTTGTCGGTTTCCACCATATAAAATAAAAGATATAATTGTAGATCATTGTATCACT
1 -TTTGTCGGTTTCCACCGTATAAAATAAAAGATATAATTGTAGATCATTGCACCACT
605612 TTTGTC
1 TTTGTC
605618 TATCTTCTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
55 1 0.01
56 39 0.41
57 1 0.01
59 3 0.03
61 2 0.02
62 8 0.08
63 2 0.02
65 3 0.03
67 2 0.02
68 35 0.36
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (56 bp):
TTTGTCGGTTTCCACCGTATAAAATAAAAGATATAATTGTAGATCATTGCACCACT
Found at i:606377 original size:56 final size:56
Alignment explanation
Indices: 606317--606893 Score: 196
Period size: 56 Copynumber: 9.4 Consensus size: 56
606307 GGTTTCCACC
* *
606317 ATATAAAATAAAAGATATAATTGTATATCATTGTACCACTTTTGTCTATCTTTTTA
1 ATATAAAATAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
* ** * *
606373 ATATAAAATAAAAAATATAATTGTA-A-AAAAGAATCACTTTTGATCTATCATCCTTGTCTGTTT
1 ATATAAAATAAAAAATATAATTGTAGATCATTGTACCACTTTTG-TC--T-A------TCT-TTT
606436 CTA
55 -TA
** * * * *
606439 CCATATAAAGTAAAAGATACAATTGTAGATCATTGTACCACTTTTGTCTATCTTCTTC
1 ATATA-AAA-TAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
* ** * *
606497 ATATAAAATAAAAAATATAATTGTA-A-AAAAGAATCACTTTTGATCTACCATCCTTGTCAGTTT
1 ATATAAAATAAAAAATATAATTGTAGATCATTGTACCACTTTTG-TCT---AT-C-T-T---TTT
606560 CCA
56 --A
** * * *
606563 CCATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTCTTC
1 ATATA-AAA-TAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
* * * * **
606621 ATATAAAATAAAAAATATAATTATAAAAAAGAATCATTTTTGATCTACTATCTT-TGTAGGTTTT
1 ATATAAAATAAAAAATATAATTGT-----AG-ATCA-TTGT-A-CCACT-T-TTGTCTATCTTTT
*
606685 CA
55 TA
** * *
606687 CCATATAAAATAAAAGATATAATTGTAGATTATTGTACCACTTTTGTCTATCTTTTTA
1 ATATA-AAA-TAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
* * * * *
606745 ATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATCTACTATCT-T-TGTCGGTTT
1 ATATAAAATAAAAAATATAATTGT------AGATCA-TTGT-A-CCACT-TTTGTCTATC--TTT
*
606808 TCA
54 TTA
** * * * *
606811 CCATATAAAATAAAAGATATAATTGTAGATCATTGTACTACTTTTGTCTATCTTCTTC
1 ATATA-AAA-TAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
606869 ATATAAAATAAAAAATATAATTGTA
1 ATATAAAATAAAAAATATAATTGTA
606894 AAAAAAAATC
Statistics
Matches: 375, Mismatches: 84, Indels: 124
0.64 0.14 0.21
Matches are distributed among these distances:
54 22 0.06
55 7 0.02
56 84 0.22
57 15 0.04
58 30 0.08
59 13 0.03
60 11 0.03
61 9 0.02
62 16 0.04
63 9 0.02
64 11 0.03
65 13 0.03
66 31 0.08
67 15 0.04
68 60 0.16
69 7 0.02
70 22 0.06
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (56 bp):
ATATAAAATAAAAAATATAATTGTAGATCATTGTACCACTTTTGTCTATCTTTTTA
Found at i:606946 original size:67 final size:65
Alignment explanation
Indices: 606868--607348 Score: 198
Period size: 68 Copynumber: 7.7 Consensus size: 65
606858 CTATCTTCTT
606868 CATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATCTACCATCCTTGTAGTTTCC
1 CATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATCTACCATCCTT-T-GTTTCC
606933 AC
64 AC
* * **** *
606935 CATATAAAATAAAAGATATAATTATAAATCATTGTATCACTTTTG-TCT---AT--TTT-CTT--
1 CATATAAAATAAAAAATATAATTGTAAA--AAAAAATCACTTTTGATCTACCATCCTTTGTTTCC
606991 --
64 AC
*
606991 CATATAAACTAAAAAATATAATTG-AAAAAAAGAATCACTTTTGATCTACCATCCTTATCTGTTT
1 CATATAAAATAAAAAATATAATTGTAAAAAAA-AATCACTTTTGATCTACCATCC-T-T-TGTTT
607055 CCAC
62 CCAC
* * **** *
607059 CAT-TAAAATAAAAGATATAATTGTAGATCATTTTATCACTTTTG-TCT---AT-C-TT-CTT--
1 CATATAAAATAAAAAATATAATTGTA-A-AAAAAAATCACTTTTGATCTACCATCCTTTGTTTCC
607114 --
64 AC
* * *
607114 CATAT-AAA-AAAATATATAATTATAAAAAAGAAA-CACTTTTGATCTACCATCCTCGTCGGTTT
1 CATATAAAATAAAAAATATAATTGTAAAAAA-AAATCACTTTTGATCTACCATCCT--T-TGTTT
*
607176 CTAC
62 CCAC
* * **** * *
607180 CATATAAAATAAAAGATATAATTGTAGATCATTGTACCACTTTTG-TCT---AT-C-TTCTTT--
1 CATATAAAATAAAAAATATAATTGTA-A-AAAAAAATCACTTTTGATCTACCATCCTTTGTTTCC
607237 --
64 AC
* **
607237 -ATAT-AAATAAAAAATATAATTGTAAAAAAGAATCACTTTTGATCTGTCA-CCTTCGTCGATTT
1 CATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATCTACCATCCTT--T-G-TTT
607299 CCAC
62 CCAC
* *
607303 CATATAAAATAAAAGATATAATTGTAGAAAAAAATCA-TCTTTGATC
1 CATATAAAATAAAAAATATAATTGTAAAAAAAAATCACT-TTTGATC
607349 ATAATTGTAT
Statistics
Matches: 305, Mismatches: 51, Indels: 115
0.65 0.11 0.24
Matches are distributed among these distances:
52 9 0.03
53 17 0.06
54 28 0.09
55 31 0.10
56 28 0.09
57 3 0.01
58 3 0.01
59 2 0.01
60 5 0.02
61 5 0.02
62 8 0.03
63 3 0.01
64 3 0.01
65 5 0.02
66 7 0.02
67 52 0.17
68 59 0.19
69 27 0.09
70 10 0.03
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.36
Consensus pattern (65 bp):
CATATAAAATAAAAAATATAATTGTAAAAAAAAATCACTTTTGATCTACCATCCTTTGTTTCCAC
Found at i:607465 original size:25 final size:23
Alignment explanation
Indices: 607437--607514 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 23
607427 CTAAATTATG
607437 TATTT-AATATTTAATATTATTATTA
1 TATTTAAAT-TTTAATA-TATT-TTA
*
607462 TATTTAAATTTTCATATATTTTA
1 TATTTAAATTTTAATATATTTTA
*
607485 TATTTATAATATATTTATATATTTTTA
1 TATTTA-AAT-T-TTAATATA-TTTTA
607512 TAT
1 TAT
607515 AATAATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 9 0.20
24 7 0.15
25 12 0.26
26 10 0.22
27 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTAAATTTTAATATATTTTA
Found at i:607488 original size:34 final size:36
Alignment explanation
Indices: 607443--607515 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 36
607433 TATGTATTTA
*
607443 ATATTTAATA-TTATTATTATATTTA-A-ATTTTCAT
1 ATATTTAATATTTA-TAATATATTTATATATTTTCAT
* *
607477 ATATTTTATATTTATAATATATTTATATATTTTTAT
1 ATATTTAATATTTATAATATATTTATATATTTTCAT
607513 ATA
1 ATA
607516 ATAATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 19 0.58
35 4 0.12
36 10 0.30
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (36 bp):
ATATTTAATATTTATAATATATTTATATATTTTCAT
Found at i:607514 original size:18 final size:17
Alignment explanation
Indices: 607439--607515 Score: 77
Period size: 18 Copynumber: 4.5 Consensus size: 17
607429 AAATTATGTA
607439 TTTA-ATATTTAATATT
1 TTTATATATTTAATATT
*
607455 ATTATTATATTTAA-ATT
1 TTTA-TATATTTAATATT
* *
607472 TTCATATATTTTATATT
1 TTTATATATTTAATATT
*
607489 TATAATATATTTATATATT
1 T-TTATATATTTA-ATATT
607508 TTTATATA
1 TTTATATA
607516 ATAATTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
16 11 0.22
17 9 0.18
18 23 0.47
19 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATATTTAATATT
Found at i:607519 original size:26 final size:27
Alignment explanation
Indices: 607475--607526 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
607465 TTAAATTTTC
*
607475 ATATATTTTATATTTATAA-TATATTT
1 ATATATTTTATATTAATAATTATATTT
607501 ATATATTTT-TATATAATAATTATATT
1 ATATATTTTATAT-TAATAATTATATT
607527 ATAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 14 0.61
27 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATATATTTTATATTAATAATTATATTT
Found at i:607529 original size:26 final size:26
Alignment explanation
Indices: 607443--607526 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
607433 TATGTATTTA
607443 ATATTTAATATTATTATTATATT--TAA-
1 ATATTT-ATA-TATT-TTATATTAATAAT
*
607469 AT-TTTCATATATTTTATATTTATAAT
1 ATATTT-ATATATTTTATATTAATAAT
607495 ATATTTATATATTTT-TATATAATAATT
1 ATATTTATATATTTTATAT-TAATAA-T
607522 ATATT
1 ATATT
607527 ATAAAATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
23 7 0.14
24 4 0.08
25 12 0.24
26 18 0.36
27 9 0.18
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATTTATATATTTTATATTAATAAT
Found at i:607542 original size:18 final size:18
Alignment explanation
Indices: 607513--607550 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
607503 ATATTTTTAT
607513 ATAATAATTATATTATAAA
1 ATAATAATTATATT-TAAA
607532 ATAAT-ATTATATTTAAA
1 ATAATAATTATATTTAAA
607549 AT
1 AT
607551 TATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATAATTATATTTAAA
Found at i:608028 original size:23 final size:23
Alignment explanation
Indices: 607998--608060 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
607988 TTAAATTATT
*
607998 TTTTAAAATTTTTAATTAATT-AA
1 TTTTAAAATTTTTAA-AAATTAAA
* *
608021 TTTTAAAAGTATTAAAAATTAAA
1 TTTTAAAATTTTTAAAAATTAAA
*
608044 TTTTAATTATTTTTAAA
1 TTTTAA-AATTTTTAAA
608061 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 4 0.12
23 21 0.66
24 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTAAAATTTTTAAAAATTAAA
Found at i:608070 original size:15 final size:16
Alignment explanation
Indices: 608039--608077 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
608029 GTATTAAAAA
608039 TTAAATTTTAATTATTT
1 TTAAATTTT-ATTATTT
608056 TTAAATTTT-TTATTT
1 TTAAATTTTATTATTT
608071 TTAAATT
1 TTAAATT
608078 ATAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAAATTTTATTATTT
Found at i:608579 original size:21 final size:22
Alignment explanation
Indices: 608553--608610 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
608543 TAATTATTAT
608553 AATAAATTATAAAAAATAT-AA
1 AATAAATTATAAAAAATATGAA
* *
608574 AATAAATTA-AAATATTATGAA
1 AATAAATTATAAAAAATATGAA
608595 AA-AATATTATAAAAAA
1 AATAA-ATTATAAAAAA
608611 ATACTTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.30
21 17 0.57
22 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AATAAATTATAAAAAATATGAA
Found at i:608600 original size:13 final size:13
Alignment explanation
Indices: 608558--608613 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
608548 ATTATAATAA
608558 ATTATAAAAAATAT
1 ATTATAAAAAA-AT
**
608572 AAAATAAATTAAAAT
1 ATTATAAA--AAAAT
*
608587 ATTATGAAAAAAT
1 ATTATAAAAAAAT
608600 ATTATAAAAAAAT
1 ATTATAAAAAAAT
608613 A
1 A
608614 CTTAAACACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 18 0.53
14 6 0.18
15 7 0.21
16 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
ATTATAAAAAAAT
Found at i:608876 original size:28 final size:27
Alignment explanation
Indices: 608844--608938 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 27
608834 ATCAAAAGTT
608844 TAAATAAAAAATTAATATAAATATAATA
1 TAAATAAAAAATT-ATATAAATATAATA
* *
608872 TAAATATATAATTATATAAA-ATAAATTA
1 TAAATAAAAAATTATATAAATAT-AA-TA
*
608900 TAAATATATAAAATTTATTTAAAT-T--TA
1 TAAATA-A-AAAA-TTATATAAATATAATA
608927 TAAATAAAAAAT
1 TAAATAAAAAAT
608939 AAAATTAACA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
24 1 0.02
25 4 0.07
26 3 0.05
27 17 0.30
28 19 0.34
30 3 0.05
31 9 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATAAAAAATTATATAAATATAATA
Found at i:608888 original size:21 final size:20
Alignment explanation
Indices: 608864--608934 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
608854 ATTAATATAA
* *
608864 ATATAATATAAATATATAATT
1 ATATAAAATAAAT-TATAAAT
608885 ATATAAAATAAATTATAAAT
1 ATATAAAATAAATTATAAAT
**
608905 ATATAAAATTTATT-TAAAT
1 ATATAAAATAAATTATAAAT
*
608924 TTAT-AAATAAA
1 ATATAAAATAAA
608935 AAATAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 18 0.42
21 12 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATAAAATAAATTATAAAT
Found at i:608898 original size:14 final size:16
Alignment explanation
Indices: 608869--608910 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
608859 TATAAATATA
608869 ATATAAATATATAATT
1 ATATAAATATATAATT
608885 ATATAAA-ATA-AA-T
1 ATATAAATATATAATT
608898 -TATAAATATATAA
1 ATATAAATATATAA
608911 AATTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.25
13 4 0.17
14 4 0.17
15 3 0.12
16 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAATATATAATT
Found at i:608928 original size:19 final size:20
Alignment explanation
Indices: 608865--608934 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
608855 TTAATATAAA
*
608865 TATAATATAAA-TATATAATT
1 TATAAAATAAATTATA-AATT
*
608885 ATATAAAATAAATTATAAATA
1 -TATAAAATAAATTATAAATT
**
608906 TATAAAATTTATT-TAAATT
1 TATAAAATAAATTATAAATT
608925 TAT-AAATAAA
1 TATAAAATAAA
608935 AAATAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
20 11 0.27
21 13 0.32
22 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAAATAAATTATAAATT
Found at i:609518 original size:12 final size:12
Alignment explanation
Indices: 609482--609511 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
609472 ATTTTATATA
609482 AATTT-TAAATT
1 AATTTATAAATT
609493 AATTTATAAATT
1 AATTTATAAATT
609505 AATTTAT
1 AATTTAT
609512 GATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTATAAATT
Found at i:610212 original size:35 final size:33
Alignment explanation
Indices: 610163--610268 Score: 99
Period size: 35 Copynumber: 3.1 Consensus size: 33
610153 TGTTGTGAAT
610163 TTTAATAAAAAAATATATAATATAAATATAATATA
1 TTTAAT-AAAAAATATATAATAT-AATATAATATA
* * *
610198 TTTAATAAATAAATAAATAATAT-GTTTAAATATTA
1 TTTAATAAA-AAATATATAATATAATAT-AATA-TA
* * *
610233 ATTAATATAAAATATTTAATATAA-ATAATATA
1 TTTAATAAAAAATATATAATATAATATAATATA
610265 TTTA
1 TTTA
610269 TATTTAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
32 5 0.09
33 6 0.11
34 19 0.33
35 27 0.47
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTAATAAAAAATATATAATATAATATAATATA
Found at i:610217 original size:24 final size:25
Alignment explanation
Indices: 610187--610275 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 25
610177 ATATAATATA
610187 AATATAATATATTTAATAAATAAAT
1 AATATAATATATTTAATAAATAAAT
* * *
610212 AA-ATAATATGTTTAA-ATATTAATT
1 AATATAATATATTTAATA-AATAAAT
*
610236 AATATAAAATATTTAAT--ATAAAT
1 AATATAATATATTTAATAAATAAAT
*
610259 AATATATTTATATTTAA
1 AATATA-ATATATTTAA
610276 AATTTTATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 11 0.22
24 27 0.53
25 13 0.25
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
AATATAATATATTTAATAAATAAAT
Found at i:612997 original size:23 final size:25
Alignment explanation
Indices: 612964--613027 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
612954 TATAATACAG
*
612964 ATATAATATATTTAATACAT-AA-A
1 ATATAAAATATTTAATACATAAATA
*
612987 ATATAAAATATTTAA-ATATAAATTA
1 ATATAAAATATTTAATACATAAA-TA
613012 ATATAAAATA-TTAATA
1 ATATAAAATATTTAATA
613028 TATATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.09
23 16 0.46
24 4 0.11
25 12 0.34
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATAAAATATTTAATACATAAATA
Found at i:613038 original size:23 final size:23
Alignment explanation
Indices: 612986--613051 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
612976 TAATACATAA
612986 AATATAAAATATTTAAATATAAATT
1 AATATAAAATA-TT-AATATAAATT
*
613011 AATATAAAATATTAATATATATGT
1 AATATAAAATATTAATATAAAT-T
* *
613035 -ATATAATATATTTATAT
1 AATATAAAATATTAATAT
613052 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 23 0.62
24 3 0.08
25 11 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATATAAAATATTAATATAAATT
Found at i:613284 original size:26 final size:26
Alignment explanation
Indices: 613255--613315 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
613245 GAAGAGAAGG
613255 ATATATTTAACAAATAAATAAATA-AA
1 ATATATTTAA-AAATAAATAAATATAA
* * *
613281 ATATATTTAAATATTAATTAATATAA
1 ATATATTTAAAAATAAATAAATATAA
613307 A-ATATTTAA
1 ATATATTTAA
613316 TATAAGTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
ATATATTTAAAAATAAATAAATATAA
Found at i:613325 original size:27 final size:25
Alignment explanation
Indices: 613275--613325 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
613265 CAAATAAATA
*
613275 AATAAAATATATTTAAATATTAATT
1 AATAAAATATATTTAAATAGTAATT
613300 AATATAAA-ATATTTAATATAAGTAAT
1 AATA-AAATATATTTAA-AT-AGTAAT
613326 ATATTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 12 0.55
26 5 0.23
27 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATAAAATATATTTAAATAGTAATT
Found at i:613375 original size:19 final size:18
Alignment explanation
Indices: 613330--613376 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
613320 AGTAATATAT
*
613330 TTATGTTTAA-AATTTTA
1 TTATATTTAATAATTTTA
*
613347 -TATTTTTAATAATTTTTA
1 TTATATTTAATAA-TTTTA
613365 TTATATTTAATA
1 TTATATTTAATA
613377 TAAACAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 5 0.20
19 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTTAATAATTTTA
Found at i:614140 original size:11 final size:11
Alignment explanation
Indices: 614124--614172 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
614114 TTTATAAATT
614124 TTATATTTATA
1 TTATATTTATA
614135 TTATATTTATA
1 TTATATTTATA
* *
614146 TAATTTTTATA
1 TTATATTTATA
* *
614157 TAATAATTATA
1 TTATATTTATA
614168 TTATA
1 TTATA
614173 AAATAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATATTTATA
Found at i:614147 original size:28 final size:29
Alignment explanation
Indices: 614101--614157 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
614091 AATATTATTA
*
614101 TTATATTTAAATTTTTATAAATTTTATAT
1 TTATATTTAAATTTATATAAATTTTATAT
* *
614130 TTATA-TTATATTTATATAATTTTTATAT
1 TTATATTTAAATTTATATAAATTTTATAT
614158 AATAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTATATTTAAATTTATATAAATTTTATAT
Found at i:614199 original size:15 final size:17
Alignment explanation
Indices: 614152--614204 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 17
614142 TATATAATTT
*
614152 TTATATAATA-ATTATA
1 TTATAAAATATATTATA
614168 TTATAAAATAATATTATA
1 TTATAAAAT-ATATTATA
614186 TT-TAAAAT-TATTATA
1 TTATAAAATATATTATA
614201 TTAT
1 TTAT
614205 TTAAAACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.27
16 9 0.27
17 7 0.21
18 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAAAATATATTATA
Found at i:614396 original size:14 final size:14
Alignment explanation
Indices: 614377--614406 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
614367 ATTTTATAAA
614377 AAATAAAAATAATT
1 AAATAAAAATAATT
*
614391 AAATAAAAATTATT
1 AAATAAAAATAATT
614405 AA
1 AA
614407 TTCAATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:616624 original size:15 final size:15
Alignment explanation
Indices: 616596--616633 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
616586 GAATATATTT
616596 TATT-AATA-AATAA
1 TATTAAATATAATAA
*
616609 TTTTAAATATAATAA
1 TATTAAATATAATAA
616624 TATTAAATAT
1 TATTAAATAT
616634 GATTATACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 4 0.19
15 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTAAATATAATAA
Found at i:617724 original size:30 final size:30
Alignment explanation
Indices: 617690--617754 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
617680 CACATTACTG
* * *
617690 TTGATTCGTGACATTGAGGTGTTTTGAGTT
1 TTGATTCGTGACATTCAGGTGCTTTAAGTT
* *
617720 TTGATTTGTGATATTCAGGTGCTTTAAGTT
1 TTGATTCGTGACATTCAGGTGCTTTAAGTT
617750 TTGAT
1 TTGAT
617755 CTTTAAGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.06, G:0.26, T:0.49
Consensus pattern (30 bp):
TTGATTCGTGACATTCAGGTGCTTTAAGTT
Found at i:618506 original size:20 final size:21
Alignment explanation
Indices: 618471--618521 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
618461 TATAGTTACG
618471 TATTTAATATAAATATATTTAAA
1 TATTTAA-A-AAATATATTTAAA
* *
618494 T-TTTAAAAAATATTTTTATA
1 TATTTAAAAAATATATTTAAA
618514 TATTTAAA
1 TATTTAAA
618522 GAGTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 7 0.28
22 5 0.20
23 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTAAAAAATATATTTAAA
Found at i:619869 original size:22 final size:23
Alignment explanation
Indices: 619835--619888 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
619825 TGATATTACG
* *
619835 TTTATATTATTTTTATATAATAA
1 TTTAAATTATTTTTATAAAATAA
619858 TTTAAATT-TTTTTATAAAATAA
1 TTTAAATTATTTTTATAAAATAA
*
619880 TAT-AATTAT
1 TTTAAATTAT
619889 ATGTATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 16 0.59
23 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAATTATTTTTATAAAATAA
Found at i:620771 original size:31 final size:30
Alignment explanation
Indices: 620732--620791 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
620722 AATGAACATG
620732 TAAATATTAAAAAATAATATTTATATAAAA
1 TAAATATTAAAAAATAATATTTATATAAAA
***
620762 TAAATTATTAATGTATAATATTTATATAAA
1 TAAA-TATTAAAAAATAATATTTATATAAA
620792 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
TAAATATTAAAAAATAATATTTATATAAAA
Found at i:620808 original size:31 final size:31
Alignment explanation
Indices: 620745--620810 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
620735 ATATTAAAAA
*
620745 ATAATATTTATATAAAATAAATTATTAATGT
1 ATAATATTTATATAAAATAAAATATTAATGT
* *
620776 ATAATATTTATATAAATTTAAAATATT-TTGT
1 ATAATATTTATATAAA-ATAAAATATTAATGT
620807 ATAA
1 ATAA
620811 AAATAACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (31 bp):
ATAATATTTATATAAAATAAAATATTAATGT
Found at i:621627 original size:35 final size:37
Alignment explanation
Indices: 621563--621633 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
621553 AATGATATGT
*
621563 ATTATATATATATATAAATATACATAAAATAAAATAA
1 ATTATATATATATATAAAAATACATAAAATAAAATAA
* * *
621600 ATTATTTATATATA-AAAAATATA-AAAATATAATA
1 ATTATATATATATATAAAAATACATAAAATAAAATA
621634 TTTTACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 10 0.33
36 7 0.23
37 13 0.43
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (37 bp):
ATTATATATATATATAAAAATACATAAAATAAAATAA
Found at i:621652 original size:29 final size:30
Alignment explanation
Indices: 621588--621662 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
621578 AAATATACAT
*
621588 AAAAT-AAAATA-AATTATTTATATATAAA
1 AAAATAAAAATATAATTATTTACATATAAA
621616 AAATATAAAAATATAA-TATTTTACATAT-AA
1 AAA-ATAAAAATATAATTA-TTTACATATAAA
621646 AAAATAACATAATATAA
1 AAAATAA-A-AATATAA
621663 CTATATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 3 0.08
29 6 0.15
30 14 0.35
31 17 0.43
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATAAAAATATAATTATTTACATATAAA
Found at i:621692 original size:9 final size:10
Alignment explanation
Indices: 621680--621726 Score: 53
Period size: 9 Copynumber: 4.7 Consensus size: 10
621670 ATTTTTTTTA
621680 TTCTTTTTC-
1 TTCTTTTTCT
621689 TTCTTTTCTCTT
1 TTCTTTT-TC-T
*
621701 TTCTTTTTCG
1 TTCTTTTTCT
621711 TTC-TTTTCT
1 TTCTTTTTCT
621720 TTCTTTT
1 TTCTTTT
621727 CTGCCTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 15 0.47
10 8 0.25
11 2 0.06
12 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:621804 original size:4 final size:4
Alignment explanation
Indices: 621787--621816 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
621777 TTTTAATATT
*
621787 ATGG ATGA ATGG ATGG ATGG ATGG ATGG AT
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG AT
621817 AGTAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (4 bp):
ATGG
Found at i:621827 original size:3 final size:3
Alignment explanation
Indices: 621819--621843 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
621809 GGATGGATAG
621819 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
621844 GAAAGATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:622226 original size:6 final size:6
Alignment explanation
Indices: 622186--622260 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
622176 TATATTAGAC
* * *
622186 ATAAAT AT-AAT ATTATT AT-AAT A-AAAA AT-AAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
* *
622230 A-AAAA ATTAAT ATAAAT ATAACAT -TAAAT AT
1 ATAAAT ATAAAT ATAAAT ATAA-AT ATAAAT AT
622261 TTTAAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
5 21 0.39
6 31 0.57
7 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:622234 original size:23 final size:22
Alignment explanation
Indices: 622192--622250 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
622182 AGACATAAAT
* *
622192 ATAATATTATTAT-AATAAAAA
1 ATAATATAAATATAAATAAAAA
622213 ATAATATAAATATAAATAAAAA
1 ATAATATAAATATAAATAAAAA
622235 ATTAATATAAATATAA
1 A-TAATATAAATATAA
622251 CATTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 11 0.32
22 9 0.26
23 14 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAATATAAATATAAATAAAAA
Found at i:622268 original size:32 final size:32
Alignment explanation
Indices: 622215--622352 Score: 108
Period size: 32 Copynumber: 4.3 Consensus size: 32
622205 AATAAAAAAT
*
622215 AATATAAATATAAATA-A--AAAATTAATATA
1 AATATAAATATAAATATATTAAAATTTATATA
*
622244 AATATAACAT-TAAATATTTTAAAATTTATATA
1 AATATAA-ATATAAATATATTAAAATTTATATA
** * *
622276 CTTTTAATTATAAATATATTAAAATTTATATA
1 AATATAAATATAAATATATTAAAATTTATATA
*
622308 AATATTATAATATTTTAAATATAATTATAATTTA-AT-
1 AATA-TA-AATA---TAAATAT-ATTAAAATTTATATA
622344 AATATAAAT
1 AATATAAAT
622353 TATTCAAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
29 13 0.15
30 2 0.02
31 1 0.01
32 37 0.43
33 2 0.02
34 6 0.07
35 2 0.02
36 4 0.05
37 9 0.10
38 10 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AATATAAATATAAATATATTAAAATTTATATA
Found at i:622304 original size:18 final size:18
Alignment explanation
Indices: 622283--622341 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
622273 ATACTTTTAA
622283 TTATAAATATATTAAAAT
1 TTATAAATATATTAAAAT
622301 TTATATAA-ATATTATAATAT
1 TTATA-AATATATTA-AA-AT
*
622321 TT-TAAATATAATTATAAT
1 TTATAAATAT-ATTAAAAT
622339 TTA
1 TTA
622342 ATAATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
18 17 0.50
19 9 0.26
20 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATAAATATATTAAAAT
Found at i:622316 original size:43 final size:41
Alignment explanation
Indices: 622238--622336 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 41
622228 ATAAAAAATT
622238 AATATAAATATAACATTAAATATTTTAAAATTTAT-ATACTTTTA
1 AATATAAATAT---ATTAAATATTTTAAAATTTATAATA-TTTTA
*
622282 ATTATAAATATATTAAA-ATTTATATAAATATTATAATATTTTA
1 AATATAAATATATTAAATATTT-TA-AAAT-TTATAATATTTTA
*
622325 AATATAATTATA
1 AATATAAATATA
622337 ATTTAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
40 4 0.08
41 8 0.17
42 4 0.08
43 19 0.40
44 13 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (41 bp):
AATATAAATATATTAAATATTTTAAAATTTATAATATTTTA
Found at i:622593 original size:19 final size:20
Alignment explanation
Indices: 622556--622594 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
622546 ATATTTTTTA
622556 TTTAATAGATATTTTAATTT
1 TTTAATAGATATTTTAATTT
622576 TTTAATA-A-ATTATTAATTT
1 TTTAATAGATATT-TTAATTT
622595 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 8 0.44
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTAATAGATATTTTAATTT
Found at i:631909 original size:210 final size:209
Alignment explanation
Indices: 631615--632678 Score: 1425
Period size: 210 Copynumber: 5.1 Consensus size: 209
631605 ACAGTTGCAC
* * * *
631615 CAAACTGGAAGTTGTTCCAATAACAGGAAGATGTTCATCCCTTGAA-ATGCTTAGGA-TTTCTTC
1 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAGA-GCTT--GACATTC-TC
631678 --TTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCT-CTCTCCACTTGTCTCAAAGAATTAC
62 AATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTAC-CTCCACTTGTCTCAAAGAATTAC
*
631740 ATCTATTCTGTTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGT
126 ATCTATTCCGTTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGT
* *
631805 TTAGATATAAATGGTTGTGG
191 TTAG-TATAAATGGCTGTGA
* * * *
631825 CAAATTGGAAATTATTCCAATAACAGGAAGATGCTCATCCCTTGAAGAGCTTTACATTCGCGATT
1 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAGAGCTTGACATTCTCAATT
* *
631890 GTGAAAAATTAAGCAAGATAGGAGGCGGGGTGTTTACCTCCACTTGTCTCAAAGAATTA-ACTCT
66 GTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACA-TCT
* *
631954 ATT-CGATTGTCCAAATTTAAGTTCCATTCCAGATTTGAAAGGATTTTCCTCTCTTCGAAGTTTA
130 ATTCCG-TTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA
* *
632018 -TATATAACTGACTGTAA
194 GTATA-AA-TGGCTGTGA
* * *
632035 CAAATTGGGAATTATTCCAATAACAGGAAGATGTTCATCCCTCGAAAAGCTTGACATTCTCAATT
1 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAGAGCTTGACATTCTCAATT
* * * * *
632100 GTGAAGAATTAAGCAGGATTGGAGGCGGGCTGTCTGCCTCTACTTGTCTCAAAGAATTA-ACTCT
66 GTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACA-TCT
* * * * *
632164 ACTCCGTTGCCCTAATTTAAGTTCCATTTCAGGTTTGGAAGGATTTTCCTCTCTTCGAAGATTAG
130 ATTCCGTTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA-
* *
632229 GTATATATGACTGTGA
194 GTATAAATGGCTGTGA
*
632245 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTG-AGAAGCTTGACATTTTCAAT
1 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAG-AGCTTGACATTCTCAAT
*
632309 TGTGAAAAATTAAGCAGGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACATCT
65 TGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACATCT
* * *
632374 A-TCCGGTTGTCATACTTTAAGTTCGATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA
130 ATTCC-GTTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA
***
632438 TGTATACGGGGCTGTGA
194 -GTATAAATGGCTGTGA
* *
632455 CAGATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTG-AGAAGCTTGACATTTTCAAT
1 CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAG-AGCTTGACATTCTCAAT
* * * *
632519 TGTGAAAAATTAAGCAAGATAGGAGGCGAGCTATCTATCTTCACTTGTCTCAAAGAATTACATCT
65 TGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACATCT
* *
632584 A-TCCGATTGTCCTACTTTAAGTTCCATTTCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA
130 ATTCCG-TTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTA
* *
632648 TGTATAGAGGGCTGTGA
194 -GTATAAATGGCTGTGA
632665 CAAATTGGAAATTA
1 CAAATTGGAAATTA
632679 GATGTTCATC
Statistics
Matches: 767, Mismatches: 71, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
208 6 0.01
209 12 0.02
210 739 0.96
211 6 0.01
212 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (209 bp):
CAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAAGAGCTTGACATTCTCAATT
GTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACATCTA
TTCCGTTGTCCTAATTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTAGT
ATAAATGGCTGTGA
Found at i:633000 original size:330 final size:330
Alignment explanation
Indices: 632386--633008 Score: 1052
Period size: 330 Copynumber: 1.9 Consensus size: 330
632376 CCGGTTGTCA
* * * ** *
632386 TACTTTAAGTTCGATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTATGTATACGGGGCT
1 TACTTCAAGTTCCATTCCAGATTTGGAAGGATTTCCCTCTCTTCGAAGTTTACATATACGGGACT
*
632451 GTGACAGATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
* *
632516 AATTGTGAAAAATTAAGCAAGATAGGAGGCGAGCTATCTATCTTCACTTGTCTCAAAGAATTACA
131 AATTGTAAAAAATTAAGCAAGATAGGAGGCGAGCTATCTATCTCCACTTGTCTCAAAGAATTACA
* *
632581 TCTATCCGATTGTCCTACTTTAAGTTCCATTTCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTT
196 TCTATCCGATTGTCCTACTTTAAGTTCCATTCCAGATTTGGAAGGATATTCCTCTCTTCGAAGTT
**
632646 TATGTATAGAGGGCTGTGACAAATTGGAAATTAGATGTTCATCCCTTGAGAAGCTTTACATTTCC
261 TATGTATAGAGAACTGTGACAAATTGGAAATTAGATGTTCATCCCTTGAGAAGCTTTACATTTCC
632711 AATCG
326 AATCG
*
632716 TACTTCAAGTTCCATTCCAGATTTGGAAGGATTTCCCTCTCTTCGAAGTTTACATATATGGGACT
1 TACTTCAAGTTCCATTCCAGATTTGGAAGGATTTCCCTCTCTTCGAAGTTTACATATACGGGACT
*
632781 GTGACAAATTGGAAATTATTCCAATATCAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
* *
632846 AATTGTAAAAAATTAAGCAAGATAGGAGGCGAGCTGTCTATCTCCACTTGTCTCAAAGAATTACG
131 AATTGTAAAAAATTAAGCAAGATAGGAGGCGAGCTATCTATCTCCACTTGTCTCAAAGAATTACA
*
632911 TCTATCCGGTTGTCCTACTTTAAGTTCCATTCCAGATTTGGAAGGATATTCCTCTCTTCGAAGTT
196 TCTATCCGATTGTCCTACTTTAAGTTCCATTCCAGATTTGGAAGGATATTCCTCTCTTCGAAGTT
632976 TA-GATATA-AGTAACTGTGACAAATTGGAAATTA
261 TATG-TATAGAG-AACTGTGACAAATTGGAAATTA
633009 TTCCAATAAC
Statistics
Matches: 273, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
329 3 0.01
330 270 0.99
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (330 bp):
TACTTCAAGTTCCATTCCAGATTTGGAAGGATTTCCCTCTCTTCGAAGTTTACATATACGGGACT
GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
AATTGTAAAAAATTAAGCAAGATAGGAGGCGAGCTATCTATCTCCACTTGTCTCAAAGAATTACA
TCTATCCGATTGTCCTACTTTAAGTTCCATTCCAGATTTGGAAGGATATTCCTCTCTTCGAAGTT
TATGTATAGAGAACTGTGACAAATTGGAAATTAGATGTTCATCCCTTGAGAAGCTTTACATTTCC
AATCG
Found at i:633084 original size:210 final size:210
Alignment explanation
Indices: 632716--633537 Score: 1245
Period size: 210 Copynumber: 3.9 Consensus size: 210
632706 TTTCCAATCG
* * *
632716 TACTTCAAGTTCCATTCCAGATTTGGAAGGATTTCCCTCTCTTCGAAGTTTACATATATGGGACT
1 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTACATATAAGGGACT
*
632781 GTGACAAATTGGAAATTATTCCAATATCAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
* * *
632846 AATTGTAAAAAATTAAGCAAGATAGGAGGCGAGCTGTCTATCTCCACTTGTCTCAAAGAATTACG
131 AATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACG
632911 TCTATCCGGTTGTCC
196 TCTATCCGGTTGTCC
* * **
632926 TACTTTAAGTTCCATTCCAGATTTGGAAGGATATTCCTCTCTTCGAAGTTTAGATATAAGTAACT
1 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTACATATAAGGGACT
632991 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGA-AGAGCTT-ACGATTT
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGA-AGCTTGAC-ATTT
* * * * * *
633054 TCCAGTGTGAAAAATTCAGCAAGATAGGAGGCGGGCTGTCTACCTTCGCTTGTCTCAAAGACTTA
129 TCAATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTA
** *
633119 CGTCTATTAGATTGTCC
194 CGTCTATCCGGTTGTCC
* * *
633136 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTATATATACGGGGCT
1 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTACATATAAGGGACT
* * *
633201 GTGACAAATTGGAAATTATTCCAATAACCGGAAGATGTTCATCTCTTGAGAAGCTTGACATTTCC
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
* *
633266 GATTGTGAAAAATTAAGCAAGGTAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACG
131 AATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACG
633331 TCTATCCGGTTGTCC
196 TCTATCCGGTTGTCC
* *
633346 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCTTCTCTTCGAAGTTTACATATAAGTGACT
1 TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTACATATAAGGGACT
* * * ** **
633411 GTGACAGAGTGGAAATTGTTCCAATAACAGGAAGATGTTCATCCCTTGA-AGAGCTTTCCATTCG
66 GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGA-AGCTTGACATTTT
* *
633475 CAATTGTGAAAAATTAAGCGAGATAGGAGACGGGCTGTCTACCTCCACTTGTCTCAAAGAATT
130 CAATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATT
633538 GAGCATAAGC
Statistics
Matches: 550, Mismatches: 57, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
209 4 0.01
210 543 0.99
211 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (210 bp):
TACTTTAAGTTCCATTCCAGATTTGGAAGGATTTTCCTCTCTTCGAAGTTTACATATAAGGGACT
GTGACAAATTGGAAATTATTCCAATAACAGGAAGATGTTCATCCCTTGAGAAGCTTGACATTTTC
AATTGTGAAAAATTAAGCAAGATAGGAGGCGGGCTGTCTACCTCCACTTGTCTCAAAGAATTACG
TCTATCCGGTTGTCC
Done.