Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold167
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: 4199719
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 197959 characters in sequence are not A, C, G, or T
File 7 of 22
Found at i:904777 original size:22 final size:22
Alignment explanation
Indices: 904734--904800 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
904724 ATTTTTTAAA
* *
904734 AATTATAATTAGATGA-AATTAT
1 AATTATAATTAAAT-ATATTTAT
904756 AATTATAATTAAATATATTTAT
1 AATTATAATTAAATATATTTAT
904778 -A-TATAAATT-AAT-TATTTA-
1 AATTAT-AATTAAATATATTTAT
904796 AATTA
1 AATTA
904801 ATTATTGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 7 0.18
20 8 0.21
21 6 0.15
22 18 0.46
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
AATTATAATTAAATATATTTAT
Found at i:904799 original size:13 final size:13
Alignment explanation
Indices: 904781--904806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
904771 TATTTATATA
904781 TAAATTAATTATT
1 TAAATTAATTATT
904794 TAAATTAATTATT
1 TAAATTAATTATT
904807 GATAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATTAATTATT
Found at i:905049 original size:21 final size:22
Alignment explanation
Indices: 905023--905063 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
905013 CTATTAAATA
* *
905023 TTTAAATTTATTA-AATTATTT
1 TTTAAAATTAATATAATTATTT
905044 TTTAAAATTAATATAATTAT
1 TTTAAAATTAATATAATTAT
905064 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAAATTAATATAATTATTT
Found at i:906877 original size:16 final size:17
Alignment explanation
Indices: 906858--906902 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
906848 TATCATAATG
906858 TTAATATATATTTT-TA
1 TTAATATATATTTTCTA
906874 TTAAT-TA-ATTATTCTA
1 TTAATATATATT-TTCTA
*
906890 TTAATATTTATTT
1 TTAATATATATTT
906903 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
14 3 0.12
15 4 0.17
16 12 0.50
17 2 0.08
18 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATATATATTTTCTA
Found at i:907482 original size:25 final size:26
Alignment explanation
Indices: 907448--907525 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
907438 AATTTAAAAT
*
907448 AAATATAAATAATTTTATTT-TTAATA
1 AAATA-AAATAATTTAATTTATTAATA
* *
907474 AAATAAAATTATTTAATTTATTAATT
1 AAATAAAATAATTTAATTTATTAATA
*
907500 ATAT-AAA-AATTTATATATTATTAATA
1 AAATAAAATAATTTA-AT-TTATTAATA
907526 TATCAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.12
25 17 0.40
26 21 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AAATAAAATAATTTAATTTATTAATA
Found at i:910624 original size:22 final size:22
Alignment explanation
Indices: 910589--910630 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
910579 TCTTTATAAT
910589 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
910611 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
910631 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:911025 original size:2 final size:2
Alignment explanation
Indices: 911018--911049 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
911008 TGATGGGACA
911018 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
911050 TATCAATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:911245 original size:15 final size:18
Alignment explanation
Indices: 911220--911256 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
911210 ATTTAGATAC
911220 TTTATTTTTTAA-A-ATA
1 TTTATTTTTTAATATATA
911236 TTTA-TTTTTAATATATA
1 TTTATTTTTTAATATATA
911253 TTTA
1 TTTA
911257 GATTATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTTTTAATATATA
Found at i:913324 original size:22 final size:21
Alignment explanation
Indices: 913286--913329 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
913276 TTTTTGATCG
* *
913286 TTATTTTTCTCATTTAATAAA
1 TTATTTTTCTCAATTAAAAAA
*
913307 TTATTTTTACTGAATTAAAAAA
1 TTATTTTT-CTCAATTAAAAAA
913329 T
1 T
913330 AAAGCATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTTTTCTCAATTAAAAAA
Found at i:917480 original size:24 final size:23
Alignment explanation
Indices: 917436--917485 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
917426 TCAATTCATA
917436 ATTTTATTTTATAAATAATTAAAT
1 ATTTTATTTTATAAATAATT-AAT
*
917460 ATTTTATTTTTTAAA-ATATTAAT
1 ATTTTATTTTATAAATA-ATTAAT
917483 ATT
1 ATT
917486 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTATTTTATAAATAATTAAT
Found at i:917814 original size:20 final size:20
Alignment explanation
Indices: 917789--917832 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
917779 GAGATTAATT
*
917789 ATTATAGTAGTAAAATAAAA
1 ATTATAATAGTAAAATAAAA
*
917809 ATTATAATAGTAAAATTAAA
1 ATTATAATAGTAAAATAAAA
917829 ATTA
1 ATTA
917833 ATGATAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTATAATAGTAAAATAAAA
Found at i:917942 original size:19 final size:19
Alignment explanation
Indices: 917918--917986 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
917908 TTGATTAAAA
917918 TATAAATATAATAAATAAT
1 TATAAATATAATAAATAAT
*
917937 TATAAAT-T-ATTAA-AAT
1 TATAAATATAATAAATAAT
** *
917953 TATATTTATATTAAATAAT
1 TATAAATATAATAAATAAT
* *
917972 AATATATA-AATAAAT
1 TATAAATATAATAAAT
917987 TATATTTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 8 0.21
17 5 0.13
18 10 0.26
19 16 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAATATAATAAATAAT
Found at i:917966 original size:17 final size:17
Alignment explanation
Indices: 917944--918003 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
917934 AATTATAAAT
917944 TATTAAAATTATATTTA
1 TATTAAAATTATATTTA
* *
917961 TATT-AAATAATA-ATA
1 TATTAAAATTATATTTA
*
917976 TATAAATAAATTATATTTA
1 TAT-TA-AAATTATATTTA
917995 TATTGAAAA
1 TATT-AAAA
918004 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 4 0.12
18 10 0.31
19 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTAAAATTATATTTA
Found at i:918005 original size:19 final size:18
Alignment explanation
Indices: 917944--918065 Score: 61
Period size: 19 Copynumber: 7.2 Consensus size: 18
917934 AATTATAAAT
917944 TATT-AAAATTATATTTA
1 TATTAAAAATTATATTTA
917961 TATTAAATAA-TA-A--TA
1 TATTAAA-AATTATATTTA
*
917976 TATAAATAAATTATATTTA
1 TATTAA-AAATTATATTTA
917995 TATTGAAAAA-TA-A--TA
1 TATT-AAAAATTATATTTA
918010 -A--AAAAATTATATTTA
1 TATTAAAAATTATATTTA
* * * *
918025 TATCAAACAATAAAATATA
1 TATTAAA-AATTATATTTA
*
918044 TATTAAAAATAACTATTTA
1 TATTAAAAATTA-TATTTA
918063 TAT
1 TAT
918066 CTATATTAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 32
0.67 0.07 0.27
Matches are distributed among these distances:
11 5 0.06
12 2 0.03
13 1 0.01
14 1 0.01
15 13 0.16
16 4 0.05
17 7 0.09
18 14 0.17
19 31 0.39
20 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (18 bp):
TATTAAAAATTATATTTA
Found at i:918017 original size:30 final size:33
Alignment explanation
Indices: 917948--918092 Score: 120
Period size: 34 Copynumber: 4.2 Consensus size: 33
917938 ATAAATTATT
917948 AAAATTATATTTATATTAAATAATAATATATAA
1 AAAATTATATTTATATTAAATAATAATATATAA
917981 ATAAATTATATTTATATTGAAA-AAT-A-ATA-AA
1 A-AAATTATATTTATATT-AAATAATAATATATAA
* *
918012 AAAATTATATTTATATCAAACAATAAAATATATATTA
1 AAAATTATATTTATATTAAATAAT--AATATATA--A
* * *
918049 AAAATAACTATTTATATCTATATTAAATAATA-ATTA
1 AAAATTA-TATTTATAT-TA-AAT-AATAATATATAA
918085 AAAATTAT
1 AAAATTAT
918093 TAACATATTA
Statistics
Matches: 91, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
29 3 0.03
30 18 0.20
31 3 0.03
32 3 0.03
33 3 0.03
34 22 0.24
35 5 0.05
36 7 0.08
37 7 0.08
38 11 0.12
39 5 0.05
40 1 0.01
41 3 0.03
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (33 bp):
AAAATTATATTTATATTAAATAATAATATATAA
Found at i:920888 original size:25 final size:26
Alignment explanation
Indices: 920860--920945 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 26
920850 ATTATGTTTA
*
920860 AAAT-TTTTTTATATTATATTTATAT
1 AAATATTTTATATATTATATTTATAT
*
920885 AAAT-TTTTAGATATTAATAATTTATAT
1 AAATATTTTATATATT-AT-ATTTATAT
*
920912 -TATATTTTATATATT-TATATTATAT
1 AAATATTTTATATATTATAT-TTATAT
*
920937 TAATATTTT
1 AAATATTTT
920946 TTAAAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 2 0.04
25 20 0.39
26 11 0.22
27 18 0.35
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
AAATATTTTATATATTATATTTATAT
Found at i:920913 original size:38 final size:38
Alignment explanation
Indices: 920867--920941 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
920857 TTAAAATTTT
*
920867 TTTATATTATATTTATATAAATTTTTA-GATATTAATAA
1 TTTATATTATATTT-TATAAATTTATATGATATTAATAA
* *
920905 TTTATATTATATTTTATATATTTATATTATATTAATA
1 TTTATATTATATTTTATAAATTTATATGATATTAATA
920942 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (38 bp):
TTTATATTATATTTTATAAATTTATATGATATTAATAA
Found at i:920946 original size:27 final size:27
Alignment explanation
Indices: 920837--920946 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 27
920827 AACCTGTTAA
* * *
920837 TTTATATATTTTTATTATGTTTAAAATT
1 TTTATATATTTATATTAT-ATTAATATT
*
920865 TTTTTATA-TTATATT-TATATAA-ATT
1 TTTATATATTTATATTATAT-TAATATT
* *
920890 TTTAGATATTAATAATTTATATT-ATA-T
1 TTTATATATTTAT-A-TTATATTAATATT
920917 TTTATATATTTATATTATATTAATATT
1 TTTATATATTTATATTATATTAATATT
920944 TTT
1 TTT
920947 TAAAAATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
25 17 0.26
26 11 0.17
27 24 0.36
28 11 0.17
29 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATATATTTATATTATATTAATATT
Found at i:920948 original size:20 final size:20
Alignment explanation
Indices: 920867--920942 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
920857 TTAAAATTTT
*
920867 TTTATATTATATTTATATAAA
1 TTTATATTATA-TTATATATA
* *
920888 TTTTTA-GATATTA-ATA-A
1 TTTATATTATATTATATATA
*
920905 TTTATATTATATTTTATATA
1 TTTATATTATATTATATATA
920925 TTTATATTATATTA-ATAT
1 TTTATATTATATTATATAT
920943 TTTTTAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 10 0.22
20 17 0.37
21 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTATATTATATTATATATA
Found at i:924285 original size:20 final size:20
Alignment explanation
Indices: 924248--924285 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
924238 GTATTTTGAT
*
924248 ATATTATTTTAATTTTATCA
1 ATATTATTTTAATATTATCA
924268 ATATT-TTTTAAATATTAT
1 ATATTATTTT-AATATTAT
924286 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATTTTAATATTATCA
Found at i:928399 original size:17 final size:17
Alignment explanation
Indices: 928362--928400 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
928352 AACAAATTAT
*
928362 AAATATTAAAATTTAAT
1 AAATATTAAAATTTAAA
**
928379 AAATATTAATTTTTAAA
1 AAATATTAAAATTTAAA
928396 AAATA
1 AAATA
928401 ATTATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTAAAATTTAAA
Found at i:928846 original size:17 final size:17
Alignment explanation
Indices: 928824--928876 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
928814 AAATGTATTT
928824 ATATTAAAATTTATAAA
1 ATATTAAAATTTATAAA
*
928841 ATATT--AA-TTATTAAT
1 ATATTAAAATTTA-TAAA
*
928856 ATATTAAAATTTATATA
1 ATATTAAAATTTATAAA
928873 ATAT
1 ATAT
928877 GTTATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
17 13 0.45
18 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAAATTTATAAA
Found at i:928895 original size:32 final size:32
Alignment explanation
Indices: 928824--928922 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 32
928814 AAATGTATTT
* *
928824 ATATTAAAATTTATAAAATATTAATTATTAAT
1 ATATTAAAATTTATAAAATATTAATTAATAAA
* *
928856 ATATTAAAATTTATATAATATGTTATTAATAAA
1 ATATTAAAATTTATAAAATAT-TAATTAATAAA
* *
928889 AT-TTAAATATAATATAAATTAATTAATTAATAAA
1 ATATTAAA-AT-TTATAAAAT-ATTAATTAATAAA
928923 TTTTATATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
32 25 0.45
33 12 0.22
34 16 0.29
35 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATTAAAATTTATAAAATATTAATTAATAAA
Found at i:928991 original size:21 final size:21
Alignment explanation
Indices: 928947--928991 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
928937 ATTTTTTTAA
* *
928947 AATTAATATAATTAAATATAT
1 AATTAATAAAATTAAAAATAT
* *
928968 AATTATTAAAATTAAAAATTT
1 AATTAATAAAATTAAAAATAT
928989 AAT
1 AAT
928992 ATTTTAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAATAAAATTAAAAATAT
Found at i:929163 original size:17 final size:17
Alignment explanation
Indices: 929141--929193 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
929131 AAATGTATTT
929141 ATATTAAAATTTATAAA
1 ATATTAAAATTTATAAA
*
929158 ATATT--AA-TTATTAAT
1 ATATTAAAATTTA-TAAA
*
929173 ATATTAAAATTTATATA
1 ATATTAAAATTTATAAA
929190 ATAT
1 ATAT
929194 GTTATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
17 13 0.45
18 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAAATTTATAAA
Found at i:929165 original size:317 final size:317
Alignment explanation
Indices: 928785--929355 Score: 1097
Period size: 317 Copynumber: 1.8 Consensus size: 317
928775 TTTACTCAAA
928785 ATTAGTGGGTGCTTTTGTTAGGTACAATTAAATGTATTTATATTAAAATTTATAAAATATTAATT
1 ATTAGTGGGTGCTTTTGTTAGGTACAATTAAATGTATTTATATTAAAATTTATAAAATATTAATT
928850 ATTAATATATTAAAATTTATATAATATGTTATTAATAAAATTTAAATATAATATAAATTAATTAA
66 ATTAATATATTAAAATTTATATAATATGTTATTAATAAAATTTAAATATAATATAAATTAATTAA
*
928915 TTAATAAATTTTATATTTTATAATTTTTTTAAAATTAATATAATTAAATATATAATTATTAAAAT
131 TTAATAAATTTTATATTTTATAATTTTTTAAAAATTAATATAATTAAATATATAATTATTAAAAT
* *
928980 TAAAAATTTAATATTTTAAATCATATAACCGATGACATATTAGTTAGCTTTTGGCTCAATATAAT
196 TAAAAATTTAATATTTTAAATCACATAACCGATGACATATTAGTTAGCTTTTAGCTCAATATAAT
929045 TTACATGTCTTAACTTACTCATATTTTATTTAATTTAAAATAAAAATAATAATTTAT
261 TTACATGTCTTAACTTACTCATATTTTATTTAATTTAAAATAAAAATAATAATTTAT
929102 ATTAGTGGGTGCTTTTGTTAGGTACAATTAAATGTATTTATATTAAAATTTATAAAATATTAATT
1 ATTAGTGGGTGCTTTTGTTAGGTACAATTAAATGTATTTATATTAAAATTTATAAAATATTAATT
929167 ATTAATATATTAAAATTTATATAATATGTTATTAATAAAATTTAAATATAATATAAATTAATTAA
66 ATTAATATATTAAAATTTATATAATATGTTATTAATAAAATTTAAATATAATATAAATTAATTAA
*
929232 TTAATAAATTTTATATTTTATAATTTTTTAAAAATTAATATAATTAGATATATAATTATTAAAAT
131 TTAATAAATTTTATATTTTATAATTTTTTAAAAATTAATATAATTAAATATATAATTATTAAAAT
*
929297 TAAAAATTTAATATTTTAAATCACATCACCGATGACATATTAGTTAGCTTTTAGCTCAA
196 TAAAAATTTAATATTTTAAATCACATAACCGATGACATATTAGTTAGCTTTTAGCTCAA
929356 AAATAAAAAT
Statistics
Matches: 249, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
317 249 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (317 bp):
ATTAGTGGGTGCTTTTGTTAGGTACAATTAAATGTATTTATATTAAAATTTATAAAATATTAATT
ATTAATATATTAAAATTTATATAATATGTTATTAATAAAATTTAAATATAATATAAATTAATTAA
TTAATAAATTTTATATTTTATAATTTTTTAAAAATTAATATAATTAAATATATAATTATTAAAAT
TAAAAATTTAATATTTTAAATCACATAACCGATGACATATTAGTTAGCTTTTAGCTCAATATAAT
TTACATGTCTTAACTTACTCATATTTTATTTAATTTAAAATAAAAATAATAATTTAT
Found at i:929212 original size:32 final size:32
Alignment explanation
Indices: 929141--929239 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 32
929131 AAATGTATTT
* *
929141 ATATTAAAATTTATAAAATATTAATTATTAAT
1 ATATTAAAATTTATAAAATATTAATTAATAAA
* *
929173 ATATTAAAATTTATATAATATGTTATTAATAAA
1 ATATTAAAATTTATAAAATAT-TAATTAATAAA
* *
929206 AT-TTAAATATAATATAAATTAATTAATTAATAAA
1 ATATTAAA-AT-TTATAAAAT-ATTAATTAATAAA
929240 TTTTATATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
32 25 0.45
33 12 0.22
34 16 0.29
35 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATTAAAATTTATAAAATATTAATTAATAAA
Found at i:930970 original size:24 final size:25
Alignment explanation
Indices: 930938--931011 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 25
930928 AGATTGATTT
* *
930938 TAATTAAATTTAAAAAT-ATTATAA
1 TAATAAAATTTAAAAATAATAATAA
**
930962 TAATAAAA-TTAATTATAATAATAA
1 TAATAAAATTTAAAAATAATAATAA
*
930986 TAATAAAATTT-AAATTAATAATAA
1 TAATAAAATTTAAAAATAATAATAA
931010 TA
1 TA
931012 TATATATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.15
24 33 0.80
25 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TAATAAAATTTAAAAATAATAATAA
Found at i:931089 original size:20 final size:20
Alignment explanation
Indices: 931066--931121 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
931056 TTATAATAAA
*
931066 AAATTATTAAATATATTATT
1 AAATTATTAAATATATTAGT
*
931086 AAATTA--AAATATATAAGT
1 AAATTATTAAATATATTAGT
* *
931104 AAATAATTAAAAATATTA
1 AAATTATTAAATATATTA
931122 AATTATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 15 0.52
20 14 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATTATTAAATATATTAGT
Found at i:931187 original size:39 final size:37
Alignment explanation
Indices: 931104--931193 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 37
931094 ATATATAAGT
*
931104 AAATAATT-AAAAA-TATTAAATTATATTTATGTCAA
1 AAATAATTAAAAAATTATTAAATTATATTTATATCAA
*
931139 ATAATAATTAAAAAATTATTAAAATTATATTTATATTAA
1 A-AATAATTAAAAAATTATT-AAATTATATTTATATCAA
*
931178 AAATAAATTAATAAAT
1 AAAT-AATTAAAAAAT
931194 AAAAGAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.02
36 7 0.15
37 5 0.11
38 7 0.15
39 27 0.57
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (37 bp):
AAATAATTAAAAAATTATTAAATTATATTTATATCAA
Found at i:931575 original size:27 final size:27
Alignment explanation
Indices: 931543--931597 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
931533 GTAATAAGAA
931543 CGTCGTTTACCTTTCCACAAGAGAAGT
1 CGTCGTTTACCTTTCCACAAGAGAAGT
931570 CGTCGTTTACCTTTCCACAAGAGAAGT
1 CGTCGTTTACCTTTCCACAAGAGAAGT
931597 C
1 C
931598 ATAGTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (27 bp):
CGTCGTTTACCTTTCCACAAGAGAAGT
Found at i:931604 original size:27 final size:27
Alignment explanation
Indices: 931547--931605 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
931537 TAAGAACGTC
* *
931547 GTTTACCTTTCCACAAGAGAAGTCGTC
1 GTTTACCTTTCCACAAGAGAAGTCATA
931574 GTTTACCTTTCCACAAGAGAAGTCATA
1 GTTTACCTTTCCACAAGAGAAGTCATA
931601 GTTTA
1 GTTTA
931606 TGAATTGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (27 bp):
GTTTACCTTTCCACAAGAGAAGTCATA
Found at i:931760 original size:26 final size:25
Alignment explanation
Indices: 931698--931760 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
931688 TATTAAATTT
* *
931698 ATTATTTATTTTTATTTTATCAATA
1 ATTATATAATTTTATTTTATCAATA
* *
931723 ATTATGTGATTTT-TTTTATCAATAAA
1 ATTATATAATTTTATTTTATCAAT--A
931749 ATTATATAATTT
1 ATTATATAATTT
931761 ATTGAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 10 0.32
25 10 0.32
26 11 0.35
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
ATTATATAATTTTATTTTATCAATA
Found at i:937253 original size:21 final size:22
Alignment explanation
Indices: 937211--937257 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
937201 ATATATTTAT
937211 ATTTTTTATAATATATTATAAA
1 ATTTTTTATAATATATTATAAA
* *
937233 CATTTTTT-TATTA-ATTTTAAA
1 -ATTTTTTATAATATATTATAAA
937254 ATTT
1 ATTT
937258 AAAAATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 4 0.18
23 7 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTTATAATATATTATAAA
Found at i:937639 original size:63 final size:63
Alignment explanation
Indices: 937504--937645 Score: 184
Period size: 63 Copynumber: 2.3 Consensus size: 63
937494 ATTATGTTGG
* *
937504 ATCTAA-AATTTAATATCTTATACACATGTTTAAATTTTATATCTTAAAAAATAAATATCGTT
1 ATCTAACAATTTAATATCTTATACACATGTTTAAATTTCATATCTTAAAAAATAAATATCATT
* * *
937566 ATCTACCAATTTAATA-CTTTATACGCATGTTTAAATTTCATGA-CTTAAAAAATAAATGTCATT
1 ATCTAACAATTTAATATC-TTATACACATGTTTAAATTTCAT-ATCTTAAAAAATAAATATCATT
*
937629 GTCTAACAA-TTAATATC
1 ATCTAACAATTTAATATC
937646 AAATTGTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
62 12 0.17
63 56 0.81
64 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.41
Consensus pattern (63 bp):
ATCTAACAATTTAATATCTTATACACATGTTTAAATTTCATATCTTAAAAAATAAATATCATT
Found at i:937898 original size:19 final size:18
Alignment explanation
Indices: 937870--937905 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
937860 AAACAAAAAA
937870 AATTTAATACTCGATTTG
1 AATTTAATACTCGATTTG
*
937888 AATTATAATACTTGATTT
1 AATT-TAATACTCGATTT
937906 TATTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
AATTTAATACTCGATTTG
Found at i:938089 original size:21 final size:20
Alignment explanation
Indices: 938065--938104 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
938055 ATGGAAAAAC
938065 TTAAAATATTATAAAAAATAT
1 TTAAAA-ATTATAAAAAATAT
* *
938086 TTAAAAATTTTTAAAAATA
1 TTAAAAATTATAAAAAATA
938105 AGCCAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAAATTATAAAAAATAT
Found at i:943914 original size:2 final size:2
Alignment explanation
Indices: 943907--943941 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
943897 AAAGGAGCAA
943907 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
943942 ACTCCCTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:948755 original size:2 final size:2
Alignment explanation
Indices: 948748--948772 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
948738 ATCATTATTT
948748 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
948773 TGTCAAAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:949202 original size:14 final size:14
Alignment explanation
Indices: 949184--949217 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
949174 TTTAAAAAAT
*
949184 AATTTTTATATTAA
1 AATTTATATATTAA
*
949198 TATTTATATATTAA
1 AATTTATATATTAA
949212 AATTTA
1 AATTTA
949218 ATTTTAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTATATATTAA
Found at i:950807 original size:13 final size:15
Alignment explanation
Indices: 950779--950810 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
950769 TTTTTTATTT
950779 TTTAAAATATTTATA
1 TTTAAAATATTTATA
950794 TTTAAAA-A-TTATA
1 TTTAAAATATTTATA
950807 TTTA
1 TTTA
950811 TTTTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAAATATTTATA
Found at i:951028 original size:22 final size:20
Alignment explanation
Indices: 951002--951052 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
950992 TGAATTTTTG
*
951002 AATATAAAAATAATATTTTAAA
1 AATATAAAAA-AATA-TATAAA
951024 AATATTAAAAAAATATATAAA
1 AATA-TAAAAAAATATATAAA
*
951045 AATTTAAA
1 AATATAAA
951053 TATATTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 8 0.31
23 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATAAAAAAATATATAAA
Found at i:952115 original size:12 final size:13
Alignment explanation
Indices: 952093--952126 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
952083 ATTATTGTTT
*
952093 TATATATATAAAA
1 TATAAATATAAAA
952106 TA-AAATATAAAA
1 TATAAATATAAAA
952118 TATAAATAT
1 TATAAATAT
952127 TTTATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TATAAATATAAAA
Found at i:952208 original size:9 final size:9
Alignment explanation
Indices: 952182--952229 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
952172 TTAATTATTA
*
952182 TTTAATTAT
1 TTTAAATAT
952191 TTTAAAATAT
1 TTT-AAATAT
*
952201 TTTGAATAT
1 TTTAAATAT
952210 TATTAAATAT
1 T-TTAAATAT
*
952220 TTTATATAT
1 TTTAAATAT
952229 T
1 T
952230 ATAATTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTAAATAT
Found at i:952282 original size:24 final size:25
Alignment explanation
Indices: 952241--952287 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
952231 TAATTTATAT
*
952241 TTAATATTTAAAATTAAATAATTAG
1 TTAATATTTAAAATTAAAAAATTAG
952266 TTAAT-TTTATAAA-TAAAAAATT
1 TTAATATTTA-AAATTAAAAAATT
952288 TAAACTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAATATTTAAAATTAAAAAATTAG
Found at i:952341 original size:15 final size:17
Alignment explanation
Indices: 952311--952342 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
952301 AAAGTATTAT
952311 TTTATATTTTATATTTA
1 TTTATATTTTATATTTA
952328 TTTAT-TTTTA-ATTTA
1 TTTATATTTTATATTTA
952343 ATTTTAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATATTTTATATTTA
Found at i:953312 original size:23 final size:24
Alignment explanation
Indices: 953277--953321 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
953267 TTATTAATCA
* *
953277 TAAAATGTATTAA-CATAATTTTT
1 TAAAATATATTAATAATAATTTTT
*
953300 TAAAATATTTTAATAATAATTT
1 TAAAATATATTAATAATAATTT
953322 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAAATATATTAATAATAATTTTT
Found at i:955147 original size:40 final size:40
Alignment explanation
Indices: 955103--955179 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
955093 AGTGTAAATA
*
955103 AATTAAATTTAAATTTTAAAATTAAAATTTATTTTAATTT
1 AATTAAATTTAAATTTTAAAATTAAAATTTAATTTAATTT
* * * *
955143 AATTAATTTTTATTTTTAAAATTTAAATTTAATTTAA
1 AATTAAATTTAAATTTTAAAATTAAAATTTAATTTAA
955180 AATAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
AATTAAATTTAAATTTTAAAATTAAAATTTAATTTAATTT
Found at i:955433 original size:21 final size:23
Alignment explanation
Indices: 955409--955454 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
955399 CTACCACCCT
955409 TATTTTAACAT-AT-TTATATTA
1 TATTTTAACATCATATTATATTA
* *
955430 TATTTTTACATCTTATTATATTA
1 TATTTTAACATCATATTATATTA
955453 TA
1 TA
955455 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 10 0.48
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTAACATCATATTATATTA
Found at i:956788 original size:27 final size:29
Alignment explanation
Indices: 956758--956822 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
956748 ATAATATAAA
*
956758 AATAATTAAA-ATATAATA-TTATAAAAT
1 AATAATTAAATATATAAAATTTATAAAAT
*
956785 AATAATATAAATATATAAAATTTATATAAT
1 AATAAT-TAAATATATAAAATTTATAAAAT
*
956815 ATTAATTA
1 AATAATTA
956823 TTAATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 6 0.19
28 4 0.12
29 9 0.28
30 13 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AATAATTAAATATATAAAATTTATAAAAT
Found at i:956802 original size:13 final size:12
Alignment explanation
Indices: 956746--956802 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 12
956736 TATACCTCAT
956746 ATATAATATAAA
1 ATATAATATAAA
956758 A-ATAAT-TAAA
1 ATATAATATAAA
956768 ATATAATATTATAAA
1 ATAT-A-A-TATAAA
956783 ATAATAATATAAA
1 AT-ATAATATAAA
956796 TATATAA
1 -ATATAA
956803 AATTTATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 5 0.13
11 7 0.18
12 2 0.05
13 11 0.29
14 4 0.11
15 7 0.18
16 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:959830 original size:24 final size:27
Alignment explanation
Indices: 959802--959867 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 27
959792 AAATTAATTA
959802 AATTAAATAAATTTATA-A-TT-AAAT
1 AATTAAATAAATTTATACATTTGAAAT
* * *
959826 TATTAAAGATATTT-TACATTTGAAAT
1 AATTAAATAAATTTATACATTTGAAAT
959852 AATTAAATATAATTTA
1 AATTAAATA-AATTTA
959868 AGTGGATCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.06
24 12 0.39
25 2 0.06
26 11 0.35
27 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
AATTAAATAAATTTATACATTTGAAAT
Found at i:960680 original size:26 final size:26
Alignment explanation
Indices: 960638--960691 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
960628 TTTAAAAAAT
*
960638 AAATTTGATTTTTATATTTGA-TTTA
1 AAATTTGATTTTTATATTTAAGTTTA
*
960663 AAATTTGGTTATTTATATTTAAGTTTA
1 AAATTTGATT-TTTATATTTAAGTTTA
960690 AA
1 AA
960692 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.36
26 10 0.40
27 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (26 bp):
AAATTTGATTTTTATATTTAAGTTTA
Found at i:960683 original size:6 final size:6
Alignment explanation
Indices: 960673--960706 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
960663 AAATTTGGTT
* *
960673 ATTTAT ATTTAA GTTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
960707 TTAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (6 bp):
ATTTAA
Found at i:960883 original size:30 final size:31
Alignment explanation
Indices: 960818--960890 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 31
960808 ACTTTTAATC
960818 TTAATATTATATTTTATATTATATCATATTATAA
1 TTAAT-TT-TATTTTATATTATAT-ATATTATAA
*
960852 TTATTTTTATTTTATATT-TATAT-TATATAA
1 TTAATTTTATTTTATATTATATATAT-TATAA
960882 TTAATTTTA
1 TTAATTTTA
960891 AAAATGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 1 0.03
30 15 0.42
31 3 0.08
32 11 0.31
33 2 0.06
34 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (31 bp):
TTAATTTTATTTTATATTATATATATTATAA
Found at i:961871 original size:21 final size:22
Alignment explanation
Indices: 961847--961940 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 22
961837 ATTTTAAAAA
961847 ATAAAAT-ATT-TATATTATTAT
1 ATAAAATAATTATATATT-TTAT
961868 ATAAAATAATTATATATTTTAT
1 ATAAAATAATTATATATTTTAT
* * * *
961890 ATTATATAA-TATAAATGATATAT
1 ATAAAATAATTATATAT--TTTAT
* * *
961913 ATTATATAATTATAAATTATTAT
1 ATAAAATAATTATATATT-TTAT
961936 ATAAA
1 ATAAA
961941 TATGCTTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
21 13 0.22
22 15 0.25
23 25 0.42
24 7 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
ATAAAATAATTATATATTTTAT
Found at i:961891 original size:30 final size:31
Alignment explanation
Indices: 961855--961925 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 31
961845 AAATAAAATA
961855 TTTATATTATTAT-ATA-AAATAATTATATAT
1 TTTATATTATTATAATATAAATAA-TATATAT
*
961885 TTTATATTA-TATAATATAAATGATATATAT
1 TTTATATTATTATAATATAAATAATATATAT
*
961915 TATATAATTAT
1 TTTAT-ATTAT
961926 AAATTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 23 0.66
31 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TTTATATTATTATAATATAAATAATATATAT
Found at i:961892 original size:7 final size:7
Alignment explanation
Indices: 961852--961937 Score: 59
Period size: 7 Copynumber: 11.9 Consensus size: 7
961842 AAAAAATAAA
961852 ATAT-TT
1 ATATATT
961858 ATATTATT
1 ATA-TATT
**
961866 ATATAAA
1 ATATATT
961873 ATA-ATT
1 ATATATT
961879 ATATATT
1 ATATATT
*
961886 TTATATT
1 ATATATT
*
961893 ATATAAT
1 ATATATT
*
961900 ATAAATGAT
1 ATATAT--T
961909 ATATATT
1 ATATATT
961916 ATATAATT
1 ATAT-ATT
*
961924 ATAAATT
1 ATATATT
961931 ATTATAT
1 A-TATAT
961938 AAATATGCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
6 7 0.11
7 33 0.54
8 15 0.25
9 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (7 bp):
ATATATT
Found at i:961917 original size:23 final size:25
Alignment explanation
Indices: 961887--961938 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
961877 TTATATATTT
961887 TATATTATATAA-TATAAATGA-TA
1 TATATTATATAATTATAAATGATTA
*
961910 TATATTATATAATTATAAATTATTA
1 TATATTATATAATTATAAATGATTA
961935 TATA
1 TATA
961939 AATATGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 12 0.46
24 8 0.31
25 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATTATATAATTATAAATGATTA
Found at i:961919 original size:18 final size:18
Alignment explanation
Indices: 961892--961941 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
961882 TATTTTATAT
*
961892 TATATAATATAAATGATA
1 TATATTATATAAATGATA
*
961910 TATATTATAT-AATTATA
1 TATATTATATAAATGATA
*
961927 AATTATTATATAAAT
1 TA-TATTATATAAAT
961942 ATGCTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.26
18 17 0.63
19 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATTATATAAATGATA
Found at i:962651 original size:13 final size:12
Alignment explanation
Indices: 962631--962660 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
962621 TTTAAAAGGT
962631 AATTTTTAATAA
1 AATTTTTAATAA
962643 AATTATTTAATAA
1 AATT-TTTAATAA
962656 AATTT
1 AATTT
962661 AATTATCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTTTAATAA
Found at i:963507 original size:14 final size:15
Alignment explanation
Indices: 963466--963534 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 15
963456 AATATTAAAA
963466 AAATATTTTTATTAAT
1 AAATATTTTTA-TAAT
963482 ATTGAAGTATTTTTATAAT
1 A---AA-TATTTTTATAAT
**
963501 AAA-ATTTAAATAA-
1 AAATATTTTTATAAT
963514 AAATATTTTTATTAAT
1 AAATATTTTTA-TAAT
963530 AAATA
1 AAATA
963535 ATAATTTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
13 3 0.07
14 13 0.31
15 3 0.07
16 8 0.19
19 7 0.17
20 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AAATATTTTTATAAT
Found at i:964095 original size:11 final size:11
Alignment explanation
Indices: 964054--964137 Score: 68
Period size: 11 Copynumber: 7.5 Consensus size: 11
964044 AAATTAAAAA
*
964054 ATATTATATAT
1 ATATTATATTT
964065 ATATT-T-TTAAT
1 ATATTATATT--T
964076 ATATT-TATTT
1 ATATTATATTT
964086 ATATTATATTT
1 ATATTATATTT
964097 ATATTATA-TT
1 ATATTATATTT
*
964107 ATAATTATTTTTT
1 AT-ATTA-TATTT
964120 ATGTATTATATTT
1 A--TATTATATTT
964133 ATATT
1 ATATT
964138 TTATAATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
9 1 0.02
10 11 0.18
11 33 0.54
12 3 0.05
13 8 0.13
14 4 0.07
15 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (11 bp):
ATATTATATTT
Found at i:964126 original size:20 final size:20
Alignment explanation
Indices: 964084--964141 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
964074 ATATATTTAT
*
964084 TTAT-ATTATATTTATATTATA
1 TTATAATTATATTT-TA-TGTA
*
964105 TTATAATTATTTTTTATGTA
1 TTATAATTATATTTTATGTA
*
964125 TTATATTTATATTTTAT
1 TTATAATTATATTTTAT
964142 AATAAAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 18 0.56
21 6 0.19
22 8 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATAATTATATTTTATGTA
Found at i:964135 original size:31 final size:32
Alignment explanation
Indices: 964054--964137 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
964044 AAATTAAAAA
* * * *
964054 ATATTATATATATATTTTTAATATATTTATTT
1 ATATTATATTTATATTTATATTATAATTATTT
964086 ATATTATATTTATA-TTATATTATAATTATTT
1 ATATTATATTTATATTTATATTATAATTATTT
*
964117 -T-TTATGTATTATATTTATATT
1 ATATTATAT-TTATATTTATATT
964138 TTATAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 6 0.13
31 21 0.47
32 13 0.29
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (32 bp):
ATATTATATTTATATTTATATTATAATTATTT
Found at i:964163 original size:36 final size:34
Alignment explanation
Indices: 964053--964163 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 34
964043 TAAATTAAAA
*
964053 AATATTATATATATATTTT-TAAT-ATATTTATTT
1 AATATTATATTTATATTTTATAATAATATTT-TTT
* *
964086 -ATATTATATTTATATTATATTATAATTATTTTTT
1 AATATTATATTTATATTTTATAATAA-TATTTTTT
* *
964120 ATGTATTATATTTATATTTTATAATAAAATTGTGTTT
1 A-ATATTATATTTATATTTTATAATAATATT-T-TTT
964157 AATATTA
1 AATATTA
964164 GATCACAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
32 16 0.25
33 3 0.05
34 4 0.06
35 8 0.13
36 28 0.44
37 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (34 bp):
AATATTATATTTATATTTTATAATAATATTTTTT
Found at i:964630 original size:5 final size:5
Alignment explanation
Indices: 964620--964697 Score: 58
Period size: 5 Copynumber: 16.2 Consensus size: 5
964610 AATAATTAAA
* * *
964620 AATAT AATAT AATAT AATAT AAAAAT AATAT AA-AT -ATAT GAATAT GATAA
1 AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AATAT -AATAT AATAT
* *
964670 AAT-T TATAT AATAT AA-AT TAT-T AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
964698 TTAAAAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
3 1 0.02
4 12 0.21
5 35 0.62
6 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:964631 original size:21 final size:20
Alignment explanation
Indices: 964607--964655 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
964597 AGCTACGTGA
964607 ATAAATAAT-TAAAAATATAAT
1 ATAAATAATAT-AAAA-ATAAT
964628 ATAATATAATATAAAAATAAT
1 ATAA-ATAATATAAAAATAAT
964649 ATAAATA
1 ATAAATA
964656 TATGAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 9 0.35
23 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAATAATATAAAAATAAT
Found at i:964663 original size:17 final size:17
Alignment explanation
Indices: 964607--964687 Score: 71
Period size: 17 Copynumber: 4.9 Consensus size: 17
964597 AGCTACGTGA
*
964607 ATAAATAAT-TAAAAAT
1 ATAAATAATATAAATAT
964623 ATAATATAATAT-AATAT
1 ATAA-ATAATATAAATAT
*
964640 AAAAATAATATAAATAT
1 ATAAATAATATAAATAT
*
964657 ATGAAT-ATGATAAA-AT
1 ATAAATAAT-ATAAATAT
* *
964673 TTATATAATATAAAT
1 ATAAATAATATAAAT
964688 TATTAATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 23 0.44
17 28 0.54
18 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAATAATATAAATAT
Found at i:965171 original size:16 final size:15
Alignment explanation
Indices: 965135--965169 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
965125 TTAAATACAC
*
965135 TTTTTCTAACTTAAG
1 TTTTTCTAACTCAAG
965150 TTTTTCTAACTCAAG
1 TTTTTCTAACTCAAG
965165 TTTTT
1 TTTTT
965170 TCCAACGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTTCTAACTCAAG
Found at i:981739 original size:25 final size:25
Alignment explanation
Indices: 981711--981787 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
981701 AATATTAAAA
981711 TTAAAAAATAATATCTAAAAATATT
1 TTAAAAAATAATATCTAAAAATATT
* ** * * *
981736 TTAATATTTTATATTTAAAATTATT
1 TTAAAAAATAATATCTAAAAATATT
* * *
981761 TT-GAAAATAATATGTAAAGATATT
1 TTAAAAAATAATATCTAAAAATATT
981785 TTA
1 TTA
981788 TATAAAGGCT
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (25 bp):
TTAAAAAATAATATCTAAAAATATT
Found at i:981773 original size:24 final size:22
Alignment explanation
Indices: 981715--981787 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 22
981705 TTAAAATTAA
981715 AAAATAATATCTAAAAATATTTT
1 AAAATAATATCT-AAAATATTTT
* * *
981738 AATATTTTATATTTAAAATTATTTT
1 AA-A-ATAATATCTAAAA-TATTTT
*
981763 GAAAATAATATGTAAAGATATTTT
1 -AAAATAATATCTAAA-ATATTTT
981787 A
1 A
981788 TATAAAGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 3 0.08
24 20 0.51
25 14 0.36
26 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATAATATCTAAAATATTTT
Found at i:982410 original size:12 final size:12
Alignment explanation
Indices: 982390--982451 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 12
982380 TTAATAATAT
*
982390 TAAATATAATTA
1 TAAAAATAATTA
*
982402 TATAAATAAATTA
1 TAAAAAT-AATTA
982415 TAAAAATAATTA
1 TAAAAATAATTA
* *
982427 -AAATATAATAA
1 TAAAAATAATTA
*
982438 AAATAAATAATTA
1 TAA-AAATAATTA
982451 T
1 T
982452 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 9 0.23
12 12 0.31
13 18 0.46
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAAATAATTA
Found at i:982418 original size:11 final size:12
Alignment explanation
Indices: 982390--982435 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
982380 TTAATAATAT
982390 TAAATATAATTA
1 TAAATATAATTA
982402 TATAA-ATAAATTA
1 TA-AATAT-AATTA
*
982415 TAAAAATAATTA
1 TAAATATAATTA
982427 -AAATATAAT
1 TAAATATAAT
982436 AAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 8 0.27
12 11 0.37
13 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAATATAATTA
Found at i:982469 original size:33 final size:32
Alignment explanation
Indices: 982432--982495 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
982422 AATTAAAATA
*
982432 TAATAAAAATAAATAATTATTTTAAAATTTATG
1 TAATAAAAATAAATAA-TATATTAAAATTTATG
* * *
982465 TAATATAAATGATTAATATATTAAAATTTAT
1 TAATAAAAATAAATAATATATTAAAATTTAT
982496 ATATAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
TAATAAAAATAAATAATATATTAAAATTTATG
Found at i:982499 original size:14 final size:14
Alignment explanation
Indices: 982467--982517 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
982457 AATTTATGTA
*
982467 ATATAAATGATTAAT
1 ATATAAAT-ATTTAT
982482 ATATTAAA-ATTTAT
1 ATA-TAAATATTTAT
*
982496 ATATAAATATTTAA
1 ATATAAATATTTAT
982510 ATA-AAATA
1 ATATAAATA
982518 AAAATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 9 0.28
14 16 0.50
15 3 0.09
16 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATATAAATATTTAT
Found at i:982499 original size:29 final size:29
Alignment explanation
Indices: 982414--982504 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
982404 TAAATAAATT
* *
982414 ATAAA-AATA-ATTAAAATATA-ATAAAA
1 ATAAATAATATATTAAAATTTATATATAA
*
982440 ATAAATAATTATTTTAAAATTTATGTAATATAA
1 ATAAATAA-TATATTAAAATTTA--T-ATATAA
* *
982473 ATGATTAATATATTAAAATTTATATATAA
1 ATAAATAATATATTAAAATTTATATATAA
982502 ATA
1 ATA
982505 TTTAAATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 5 0.10
27 2 0.04
28 2 0.04
29 17 0.33
30 1 0.02
32 13 0.25
33 11 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAAATAATATATTAAAATTTATATATAA
Found at i:982509 original size:29 final size:29
Alignment explanation
Indices: 982419--982538 Score: 77
Period size: 30 Copynumber: 4.0 Consensus size: 29
982409 AAATTATAAA
* * **
982419 AATA-ATTAAAATATA-ATAAAAATAAAT
1 AATATATTAAAATTTATATATAAATATTT
*
982446 AATTATTTTAAAATTTATGTAATATAAATGA-TT
1 AA-TATATTAAAATTTA--T-ATATAAAT-ATTT
982479 AATATATTAAAATTTATATATAAATATTT
1 AATATATTAAAATTTATATATAAATATTT
* * *
982508 AAATAAAATAAAAATTATA-ATAAAATATTT
1 -AATATATTAAAATTTATATAT-AAATATTT
982538 A
1 A
982539 TTAAAATATA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 22 0.29
30 24 0.32
32 13 0.17
33 10 0.13
34 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AATATATTAAAATTTATATATAAATATTT
Found at i:982526 original size:30 final size:29
Alignment explanation
Indices: 982477--982546 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
982467 ATATAAATGA
* * *
982477 TTAATATATTAAAATTTAT-ATATAAATAT
1 TTAATAAAATAAAAATTATAATA-AAATAT
982506 TTAAATAAAATAAAAATTATAATAAAATAT
1 TT-AATAAAATAAAAATTATAATAAAATAT
*
982536 TTATTAAAATA
1 TTAATAAAATA
982547 TACATAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 10 0.29
30 22 0.63
31 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
TTAATAAAATAAAAATTATAATAAAATAT
Found at i:988105 original size:20 final size:20
Alignment explanation
Indices: 988028--988105 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 20
988018 AAATTATATA
988028 TTTATATATT-ATAATTTA-
1 TTTATATATTAATAATTTAT
988046 TTTATAT-TTAA-AA--TAT
1 TTTATATATTAATAATTTAT
* * *
988062 TATAT-TTTTACATAAATT-T
1 TTTATATATTA-ATAATTTAT
988081 TTTATATATTAATAATTTAT
1 TTTATATATTAATAATTTAT
988101 TTTAT
1 TTTAT
988106 TTTATGTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
15 3 0.06
16 7 0.15
17 5 0.11
18 10 0.21
19 11 0.23
20 11 0.23
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATATATTAATAATTTAT
Found at i:988683 original size:17 final size:15
Alignment explanation
Indices: 988643--988686 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
988633 GAGAGAGAAA
988643 GAAAGAAAAGAAAAAG
1 GAAAGAAAA-AAAAAG
988659 GAAA-AAAAAAGAAAG
1 GAAAGAAAAAA-AAAG
988674 GTAAAGAAAAAAA
1 G-AAAGAAAAAAA
988687 TGTGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 9 0.36
16 8 0.32
17 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAAGAAAAAAAAAG
Found at i:988744 original size:27 final size:28
Alignment explanation
Indices: 988701--988759 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
988691 TGTTCATATT
988701 ATTTTTTCAAAAGTTTTAAATATT-ATA
1 ATTTTTTCAAAAGTTTTAAATATTAATA
* * *
988728 ATTTTTT-ATAAATTTTTATATGTTAATA
1 ATTTTTTCA-AAAGTTTTAAATATTAATA
988756 ATTT
1 ATTT
988760 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.70
28 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTTTTCAAAAGTTTTAAATATTAATA
Found at i:990959 original size:21 final size:21
Alignment explanation
Indices: 990935--990975 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
990925 CATTGATGGA
*
990935 GGAGGAAGAGGAAGAGGAAGC
1 GGAGGAAGACGAAGAGGAAGC
*
990956 GGAGGAAGACGAGGAGGAAG
1 GGAGGAAGACGAAGAGGAAG
990976 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.54, T:0.00
Consensus pattern (21 bp):
GGAGGAAGACGAAGAGGAAGC
Found at i:993413 original size:2 final size:2
Alignment explanation
Indices: 993406--993433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
993396 TGCCTTGTCT
993406 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
993434 CGATCCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:995921 original size:2 final size:2
Alignment explanation
Indices: 995916--995944 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
995906 GTGTGTGTGT
995916 GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
995945 TGCAAACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1002156 original size:12 final size:12
Alignment explanation
Indices: 1002139--1002179 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
1002129 GATGAGCTCT
1002139 ATTTTTAAAATA
1 ATTTTTAAAATA
1002151 ATTTTTAAAAATA
1 ATTTTT-AAAATA
* *
1002164 ACTTTTAAAATT
1 ATTTTTAAAATA
1002176 ATTT
1 ATTT
1002180 AATTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:1002161 original size:13 final size:13
Alignment explanation
Indices: 1002139--1002173 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1002129 GATGAGCTCT
1002139 ATTTTT-AAAATA
1 ATTTTTAAAAATA
1002151 ATTTTTAAAAATA
1 ATTTTTAAAAATA
*
1002164 ACTTTTAAAA
1 ATTTTTAAAA
1002174 TTATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTTAAAAATA
Found at i:1002266 original size:23 final size:22
Alignment explanation
Indices: 1002228--1002271 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1002218 TTTTATTTTC
* *
1002228 TAAAATAATAAAAAAATTTAAG
1 TAAAAAAATAAAAAAAATTAAG
1002250 TAAAAAAATAAAAAAAAATTAA
1 TAAAAAAAT-AAAAAAAATTAA
1002272 ATACAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
TAAAAAAATAAAAAAAATTAAG
Found at i:1002398 original size:13 final size:12
Alignment explanation
Indices: 1002356--1002398 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
1002346 TTATTTGATG
1002356 TAATGATATTAATT
1 TAAT-ATATTAA-T
*
1002370 TAATATATTAAA
1 TAATATATTAAT
1002382 TAATATAATTAAT
1 TAATAT-ATTAAT
1002395 TAAT
1 TAAT
1002399 TAAATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 16 0.62
14 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TAATATATTAAT
Found at i:1003362 original size:11 final size:11
Alignment explanation
Indices: 1003343--1003492 Score: 60
Period size: 11 Copynumber: 13.5 Consensus size: 11
1003333 TGATAATATT
*
1003343 ATATGATATAA
1 ATATAATATAA
1003354 ATATAATATAA
1 ATATAATATAA
*
1003365 AAATAAT-TAAA
1 ATATAATAT-AA
1003376 ATAATATTATATAA
1 AT-ATA--ATATAA
*
1003390 AAATAATATAA
1 ATATAATATAA
**
1003401 ATATTTTA-AA
1 ATATAATATAA
*
1003411 AT-TTATATAA
1 ATATAATATAA
*
1003421 A-ATAATTATTA
1 ATATAA-TATAA
* * *
1003432 TTATATTAAAA
1 ATATAATATAA
*
1003443 ATTATATTAATAA
1 A-TATAAT-ATAA
* *
1003456 AAATAATTTAA
1 ATATAATATAA
1003467 ATATAATA-ATA
1 ATATAATATA-A
*
1003478 TTATAATA-AA
1 ATATAATATAA
1003488 ATATA
1 ATATA
1003493 TAAATACATT
Statistics
Matches: 104, Mismatches: 23, Indels: 25
0.68 0.15 0.16
Matches are distributed among these distances:
9 4 0.04
10 16 0.15
11 55 0.53
12 16 0.15
13 7 0.07
14 5 0.05
15 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
ATATAATATAA
Found at i:1003387 original size:25 final size:26
Alignment explanation
Indices: 1003353--1003401 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1003343 ATATGATATA
1003353 AATATAATATAAAAATAAT-TAAAAT
1 AATATAATATAAAAATAATATAAAAT
*
1003378 AATATTATATAAAAATAATATAAA
1 AATATAATATAAAAATAATATAAA
1003402 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATAATATAAAAATAATATAAAAT
Found at i:1003419 original size:31 final size:32
Alignment explanation
Indices: 1003348--1003508 Score: 109
Period size: 36 Copynumber: 4.9 Consensus size: 32
1003338 ATATTATATG
* *
1003348 ATATAAATATAATATAAAAATAATTAAAATAATATT
1 ATATAAAAATAATATAAATAT-ATT-AAA-AAT-TT
*
1003384 ATATAAAAATAATATAAATAT-TTTAAAATTT
1 ATATAAAAATAATATAAATATATTAAAAATTT
* *
1003415 ATAT-AAAATAATTATTATTATATTAAAAATTAT
1 ATATAAAAATAA-TATAAATATATTAAAAATT-T
* * *
1003448 ATTAATAAAAATAATTTAAATATAAT-AATA-TT
1 A-T-ATAAAAATAATATAAATATATTAAAAATTT
* *
1003480 ATA-ATAAAAT-ATATAAATACATTATAAAT
1 ATATA-AAAATAATATAAATATATTAAAAAT
1003509 AATCAGATTA
Statistics
Matches: 100, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
29 11 0.11
30 15 0.15
31 14 0.14
32 13 0.13
33 5 0.05
34 6 0.06
35 10 0.10
36 26 0.26
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATAAAAATAATATAAATATATTAAAAATTT
Found at i:1003776 original size:35 final size:35
Alignment explanation
Indices: 1003730--1003803 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
1003720 TTTGAAGAAG
*
1003730 ATTCATTATGAATCCAAAAATCTTACCAAATAATT
1 ATTCATCATGAATCCAAAAATCTTACCAAATAATT
*
1003765 ATTCATCATGAATCCAAAAATCTTACCAAATAGTT
1 ATTCATCATGAATCCAAAAATCTTACCAAATAATT
1003800 ATTC
1 ATTC
1003804 TTTCTCCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (35 bp):
ATTCATCATGAATCCAAAAATCTTACCAAATAATT
Found at i:1006773 original size:11 final size:11
Alignment explanation
Indices: 1006758--1006803 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
1006748 ATAAGATTTA
1006758 TATATTTATAT
1 TATATTTATAT
*
1006769 CATATTTATAT
1 TATATTTATAT
*
1006780 TATTTTTATTTAT
1 TATATTTA--TAT
1006793 TATATTTATAT
1 TATATTTATAT
1006804 AAAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.66
13 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1006790 original size:58 final size:57
Alignment explanation
Indices: 1006655--1006806 Score: 141
Period size: 58 Copynumber: 2.6 Consensus size: 57
1006645 TCATATATTT
* *
1006655 ATATTCATATTATTTTTA-TTATAATTATATATATTTAAAATATTATATATTTATAA
1 ATATTTATATTATTTTTATTTATAATTATATAAATTTAAAATATTATATATTTATAA
* * ** *
1006711 AT-TTTTTGATAAATTAATATTTAT-ATTATATAAATTTATAAGAT-TTATATATTTATATC
1 ATATTTAT-AT-TATTTTTATTTATAATTATATAAATTTA-AA-ATATTATATATTTATA-A
1006770 ATATTTATATTATTTTTATTTATTATATTTATATAAA
1 ATATTTATATTATTTTTATTTA-TA-A-TTATATAAA
1006807 AATTTTATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
55 3 0.04
56 4 0.05
57 18 0.24
58 28 0.38
59 7 0.09
60 4 0.05
61 1 0.01
62 9 0.12
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (57 bp):
ATATTTATATTATTTTTATTTATAATTATATAAATTTAAAATATTATATATTTATAA
Found at i:1007320 original size:18 final size:18
Alignment explanation
Indices: 1007278--1007320 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1007268 AGTATATATA
* *
1007278 TTTATTATATATTATTAT
1 TTTATTAAATAATATTAT
**
1007296 TAAATTAAATAATATTAT
1 TTTATTAAATAATATTAT
1007314 TTTATTA
1 TTTATTA
1007321 TAAAAATTTA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATTAAATAATATTAT
Found at i:1007983 original size:16 final size:17
Alignment explanation
Indices: 1007946--1007984 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1007936 ACATTTTTAC
1007946 ATTTATATTATGCTGTA
1 ATTTATATTATGCTGTA
* *
1007963 TTTTATGTTATGCT-TA
1 ATTTATATTATGCTGTA
1007979 ATTTAT
1 ATTTAT
1007985 TTTTCATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (17 bp):
ATTTATATTATGCTGTA
Found at i:1008557 original size:22 final size:20
Alignment explanation
Indices: 1008516--1008588 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
1008506 AATTATGTGA
*
1008516 AATTTAAATTTATTTATTATT
1 AATTTAAATTTAATTATTA-T
* *
1008537 TATATTAAATTTAATTGTTAT
1 AAT-TTAAATTTAATTATTAT
*
1008558 AATTTAAATTTAAATTA-AAT
1 AATTTAAATTT-AATTATTAT
*
1008578 AATTTTAATTT
1 AATTTAAATTT
1008589 TTAGATATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 20 0.47
21 9 0.21
22 14 0.33
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (20 bp):
AATTTAAATTTAATTATTAT
Found at i:1016074 original size:8 final size:8
Alignment explanation
Indices: 1016061--1016086 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1016051 TATATTTATT
1016061 TTATTTAA
1 TTATTTAA
1016069 TTATTTAA
1 TTATTTAA
1016077 TTATTTAA
1 TTATTTAA
1016085 TT
1 TT
1016087 TAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:1016129 original size:18 final size:19
Alignment explanation
Indices: 1016108--1016247 Score: 78
Period size: 18 Copynumber: 7.3 Consensus size: 19
1016098 ATATAAATAA
1016108 TATATTTTTTATATTT-TT
1 TATATTTTTTATATTTATT
1016126 TATATTTATTTA-ATTTGA-T
1 TATATTT-TTTATATTT-ATT
*
1016145 TATTATATTTTAT-TTTATT
1 TA-TATTTTTTATATTTATT
* ** *
1016164 TATATAAATAATATATTTTTT
1 TATAT--TTTTTATATTTATT
* *
1016185 TATAATTTTTAT-TTAATT
1 TATATTTTTTATATTTATT
1016203 TATATTTATTTA-ATTTGATAAT
1 TATATTT-TTTATATTT-AT--T
*
1016225 TATATTTTATATA-TTATT
1 TATATTTTTTATATTTATT
1016243 TATAT
1 TATAT
1016248 ACATAATATT
Statistics
Matches: 94, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
18 31 0.33
19 27 0.29
20 13 0.14
21 14 0.15
22 9 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
TATATTTTTTATATTTATT
Found at i:1016174 original size:67 final size:69
Alignment explanation
Indices: 1016050--1016256 Score: 235
Period size: 67 Copynumber: 2.9 Consensus size: 69
1016040 TATAAATAAC
* * *
1016050 TTATATTTATTT-TATTTAATT-ATTTAATTATT-TAATTTAATTTTATTTATATAAATAATATA
1 TTATATTTATTTATATTTATTTAATTTGATTATTAT-ATTTTATTTTATTTATATAAATAATATA
1016112 -TTTT
65 TTTTT
1016116 TTATATTT-TTTATATTTATTTAATTTGATTATTATATTTTATTTTATTTATATAAATAATATAT
1 TTATATTTATTTATATTTATTTAATTTGATTATTATATTTTATTTTATTTATATAAATAATATA-
1016180 TTTTT
65 TTTTT
* *
1016185 TATAATTTTTATTTAATTTATATTTATTTAATTTGATAATTATATTTTATATATTATTTATATAC
1 T-T-A----TATTT-ATTTATATTTATTTAATTTGATTATTATATTTTAT-T-TTATTTATATAA
1016250 ATAATAT
57 ATAATAT
1016257 TTATTGAATT
Statistics
Matches: 121, Mismatches: 5, Indels: 17
0.85 0.03 0.12
Matches are distributed among these distances:
65 3 0.02
66 16 0.13
67 37 0.31
68 1 0.01
69 5 0.04
70 1 0.01
71 1 0.01
75 5 0.04
77 33 0.27
78 1 0.01
79 18 0.15
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (69 bp):
TTATATTTATTTATATTTATTTAATTTGATTATTATATTTTATTTTATTTATATAAATAATATAT
TTTT
Found at i:1017194 original size:2 final size:2
Alignment explanation
Indices: 1017187--1017222 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1017177 ATTTGGATAC
1017187 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
1017223 GATTGAATTT
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:1023239 original size:32 final size:31
Alignment explanation
Indices: 1023181--1023251 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
1023171 AATTATACTG
* * *
1023181 ATTAATATTTATTTTATATAAATTTTAATAT
1 ATTAATATTTATATTAAATAAATTTTAAAAT
*
1023212 ATTAATAATTTATATTAAATAATTTTTAAAAT
1 ATTAAT-ATTTATATTAAATAAATTTTAAAAT
*
1023244 ATTTATAT
1 ATTAATAT
1023252 AGTATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATATTTATATTAAATAAATTTTAAAAT
Found at i:1023374 original size:21 final size:21
Alignment explanation
Indices: 1023331--1023371 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1023321 TTTTAAAATT
*
1023331 TAAAATTTTATTAATAATAAA
1 TAAAATTTTATTAAAAATAAA
1023352 TAAAATTTT-TTAAAAATAAA
1 TAAAATTTTATTAAAAATAAA
1023372 ATATATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATTTTATTAAAAATAAA
Found at i:1024110 original size:84 final size:84
Alignment explanation
Indices: 1024001--1024165 Score: 294
Period size: 84 Copynumber: 2.0 Consensus size: 84
1023991 GTGGCTTCCT
* *
1024001 TCGTTGTCATCGTCGTTGTCGGATGAACTCGATTTGCTTCCCACTGATTCTTCTGAACTATCATC
1 TCGTCGTCATCGTCGTTGTCAGATGAACTCGATTTGCTTCCCACTGATTCTTCTGAACTATCATC
1024066 ACATGGAAGGAGTTTTGCG
66 ACATGGAAGGAGTTTTGCG
* *
1024085 TCGTCGTCATCGTTGTTGTCAGATGAACTCGATTTGCTTCCCACTGATTCTTCTGAACTATCATT
1 TCGTCGTCATCGTCGTTGTCAGATGAACTCGATTTGCTTCCCACTGATTCTTCTGAACTATCATC
1024150 ACATGGAAGGAGTTTT
66 ACATGGAAGGAGTTTT
1024166 ATCCGGTTAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (84 bp):
TCGTCGTCATCGTCGTTGTCAGATGAACTCGATTTGCTTCCCACTGATTCTTCTGAACTATCATC
ACATGGAAGGAGTTTTGCG
Found at i:1025846 original size:13 final size:13
Alignment explanation
Indices: 1025825--1025865 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1025815 CCTTTGAATT
*
1025825 AAAACGAAAGAAA-
1 AAAAAGAAA-AAAG
1025838 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
1025851 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
1025864 AA
1 AA
1025866 GAGGCTACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 3 0.12
13 23 0.88
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:1025849 original size:7 final size:7
Alignment explanation
Indices: 1025837--1025865 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1025827 AACGAAAGAA
1025837 AAAAAAG
1 AAAAAAG
1025844 AAAAAAG
1 AAAAAAG
1025851 -AAAAAG
1 AAAAAAG
1025857 AAAAAAG
1 AAAAAAG
1025864 AA
1 AA
1025866 GAGGCTACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1034237 original size:194 final size:194
Alignment explanation
Indices: 1033897--1034285 Score: 557
Period size: 194 Copynumber: 2.0 Consensus size: 194
1033887 AACAGTAGGA
* * * *
1033897 ACAACAAAGCAAGGACAAGACAACAGCAACTGCCAGAAAGCAGAAATGAGTTGATGCAAGGCGAA
1 ACAACAAAGCAAGGACAAGACAACAGCAACAGCCAGAAAGCAAAAATGAGTTGATGCAAGCCAAA
* * *
1033962 CATCAGCCTGATCAGAAAGGAGTGACAGCCCCCATCTCGTTAAAGATGCCAAATTGTTGTGAATC
66 CATCAGCCTGACCAGAAAGGAGTGACAGCCCCCATCTCGCTAAAGATGCCAAATTGTTATGAATC
*** *** *
1034027 AGTGTTGTGAAGCAAAATAACATGGGGGGA-AGGCGGGGAGAACCGGAAAGCTAGCTGGATTGCT
131 AGTGACATGAAGCAAAATAACATGGGAAAACAGG-GGGAAGAACCGGAAAGCTAGCTGGATTGCT
* * *
1034091 ACAAGAAAGCGAGGACAAGACGACAGCAACAGCCAGAAAGCAAAAATGAGTTGATGCAAGCCAAA
1 ACAACAAAGCAAGGACAAGACAACAGCAACAGCCAGAAAGCAAAAATGAGTTGATGCAAGCCAAA
* *
1034156 CATCAGCCTGACCAGAAAGGAGTGACAGCCCCCATTTCGCTAAAGATGCCAAGTTGTTAT-ACAT
66 CATCAGCCTGACCAGAAAGGAGTGACAGCCCCCATCTCGCTAAAGATGCCAAATTGTTATGA-AT
* *
1034220 CGGTGACATGAAGCAAAATAGCATGGGAAAACAGGGGGAAGAACCGGAAAGCTAGCTGGATTGCT
130 CAGTGACATGAAGCAAAATAACATGGGAAAACAGGGGGAAGAACCGGAAAGCTAGCTGGATTGCT
1034285 A
1 A
1034286 AAGGAGAAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
193 1 0.01
194 168 0.98
195 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (194 bp):
ACAACAAAGCAAGGACAAGACAACAGCAACAGCCAGAAAGCAAAAATGAGTTGATGCAAGCCAAA
CATCAGCCTGACCAGAAAGGAGTGACAGCCCCCATCTCGCTAAAGATGCCAAATTGTTATGAATC
AGTGACATGAAGCAAAATAACATGGGAAAACAGGGGGAAGAACCGGAAAGCTAGCTGGATTGCT
Found at i:1035764 original size:14 final size:16
Alignment explanation
Indices: 1035735--1035775 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
1035725 GATAGCAGAA
*
1035735 AGAAAGAAAGAAAGGA-
1 AGAAA-AAAAAAAGGAC
1035751 A-AAAAAAAAAAGGAC
1 AGAAAAAAAAAAGGAC
1035766 AGAAAAAAAA
1 AGAAAAAAAA
1035776 TTATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGGAC
Found at i:1035817 original size:20 final size:21
Alignment explanation
Indices: 1035786--1035828 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
1035776 TTATATATTG
*
1035786 ATATTGATATTTTTATTTAAA
1 ATATTGATATTTTTATATAAA
1035807 ATATT-ATATTTTTATATAAA
1 ATATTGATATTTTTATATAAA
1035827 AT
1 AT
1035829 TTTTAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTGATATTTTTATATAAA
Found at i:1035900 original size:21 final size:20
Alignment explanation
Indices: 1035844--1035907 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
1035834 GATATTAATA
*
1035844 ATTTATTTTATT-CATATAT
1 ATTTATTTTATTGTATATAT
* *
1035863 ATATATTTTTATAGTATATAT
1 ATTTA-TTTTATTGTATATAT
1035884 ATTTATTTTATGTGTATAT-T
1 ATTTATTTTAT-TGTATATAT
1035904 ATTT
1 ATTT
1035908 TCATATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 17 0.46
21 16 0.43
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTATTTTATTGTATATAT
Found at i:1037287 original size:17 final size:17
Alignment explanation
Indices: 1037249--1037300 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1037239 ATTTTAAAAT
1037249 AAATTTTAT-TAATT-A
1 AAATTTTATGTAATTAA
*
1037264 TAATTTTATGTAATTAA
1 AAATTTTATGTAATTAA
*
1037281 AAATTTTATGAATATTAA
1 AAATTTTATGTA-ATTAA
1037299 AA
1 AA
1037301 CTCCTTAGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.26
16 5 0.16
17 11 0.35
18 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
AAATTTTATGTAATTAA
Found at i:1037358 original size:3 final size:3
Alignment explanation
Indices: 1037350--1037388 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1037340 ATAATCTTCT
1037350 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1037389 TCTAAGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1037597 original size:11 final size:11
Alignment explanation
Indices: 1037554--1037604 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
1037544 TATTTATAAA
*
1037554 TATTTTTT-TA
1 TATTTTTTATT
1037564 TATTTTTATATT
1 TATTTTT-TATT
* *
1037576 TATGTTATATT
1 TATTTTTTATT
1037587 TATTTTTTATT
1 TATTTTTTATT
1037598 ATATTTT
1 -TATTTT
1037605 AATTAACTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 7 0.21
11 14 0.42
12 12 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:1038204 original size:27 final size:28
Alignment explanation
Indices: 1038174--1038237 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
1038164 TTGTATGCAC
* **
1038174 TTATATAATTTTTAT-TTGTTTAAAATA
1 TTATATAATTTATATAAAGTTTAAAATA
*
1038201 TTATA-AATTTATATAAAGTTTTAAATA
1 TTATATAATTTATATAAAGTTTAAAATA
1038228 TTA-ATAATTT
1 TTATATAATTT
1038238 GTTTTATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTATATAATTTATATAAAGTTTAAAATA
Found at i:1038316 original size:11 final size:10
Alignment explanation
Indices: 1038295--1038334 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
1038285 TTTTATGTCG
1038295 TATTATATTT
1 TATTATATTT
*
1038305 TAATTATTTTT
1 T-ATTATATTT
1038316 TATTATATTT
1 TATTATATTT
1038326 ATATTATAT
1 -TATTATAT
1038335 CTAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTATATTT
Found at i:1038416 original size:17 final size:17
Alignment explanation
Indices: 1038390--1038430 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1038380 TTAATTTCAA
1038390 ATTT-AATTATATAAAAT
1 ATTTAAATTATA-AAAAT
1038407 -TTTAAATTATAAAAAT
1 ATTTAAATTATAAAAAT
1038423 ATTTAAAT
1 ATTTAAAT
1038431 AAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTAAATTATAAAAAT
Found at i:1043812 original size:23 final size:24
Alignment explanation
Indices: 1043759--1043817 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
1043749 CTTTTCTATT
1043759 TAAATA-TTAA-TTTACATTAAAA
1 TAAATATTTAATTTTACATTAAAA
* *
1043781 TAAAT-TTTAATTTTATATTTAAA
1 TAAATATTTAATTTTACATTAAAA
*
1043804 -AAATATTTATTTTT
1 TAAATATTTAATTTT
1043818 TAATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAATATTTAATTTTACATTAAAA
Found at i:1043884 original size:17 final size:17
Alignment explanation
Indices: 1043840--1043885 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
1043830 AAATTTAAAC
*
1043840 TTAAAT-TAATTTTTAT
1 TTAAATATAAATTTTAT
1043856 TTAAA-ATGAAATTTTAT
1 TTAAATAT-AAATTTTAT
1043873 TTAAATATAAATT
1 TTAAATATAAATT
1043886 AAAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATATAAATTTTAT
Found at i:1043907 original size:58 final size:58
Alignment explanation
Indices: 1043784--1043907 Score: 128
Period size: 58 Copynumber: 2.1 Consensus size: 58
1043774 ATTAAAATAA
* * * * *
1043784 ATTTTAATTTTATATTTAAAAAATATTTATTTTTTAATTTATATAAAAATTTAAACTT
1 ATTTTAATTTTATATTTAAAAAATATTTATATTTAAATATAAATAAAAATATAAACTT
** *
1043842 AAATTAATTTT-TATTTAAAATGAA-ATTT-TATTTAAATATAAATTAAAAATATAAATTT
1 ATTTTAATTTTATATTTAAAA--AATATTTATATTTAAATATAAA-TAAAAATATAAACTT
1043900 ATTTTAAT
1 ATTTTAAT
1043908 ATAATAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
57 19 0.36
58 32 0.60
59 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (58 bp):
ATTTTAATTTTATATTTAAAAAATATTTATATTTAAATATAAATAAAAATATAAACTT
Done.