Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold173
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: 2040036
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 3 of 16
Found at i:383975 original size:15 final size:15
Alignment explanation
Indices: 383955--383988 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
383945 ATATAATTTT
383955 CATGAAAATACTTTA
1 CATGAAAATACTTTA
383970 CATGAAAATACTTTA
1 CATGAAAATACTTTA
383985 CATG
1 CATG
383989 TTTATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (15 bp):
CATGAAAATACTTTA
Found at i:384892 original size:18 final size:18
Alignment explanation
Indices: 384869--384910 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
384859 ATCTAATTTT
* *
384869 TTAAAAATTTATCAAAAG
1 TTAAAAATTAATCAAAAA
*
384887 TT-AAAATTAATTAAAAA
1 TTAAAAATTAATCAAAAA
384904 TTAAAAA
1 TTAAAAA
384911 AAATTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAAATTAATCAAAAA
Found at i:388212 original size:13 final size:13
Alignment explanation
Indices: 388196--388220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388186 ATTAATTATA
388196 TAATATAAAATAT
1 TAATATAAAATAT
388209 TAATATAAAATA
1 TAATATAAAATA
388221 AAATTTTTAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATATAAAATAT
Found at i:388530 original size:27 final size:28
Alignment explanation
Indices: 388500--388581 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 28
388490 AATCTTTATG
388500 AAAATATATTTATCTTTTAATA-TTTA-A
1 AAAATATATTTATCTTTTAA-AGTTTACA
*
388527 AAAATATTTATTTATTTTATTAAAGTTTAGCA
1 AAAATA--TATTTATCTT-TTAAAGTTTA-CA
388559 AAATATATATTTATCTTTCTAAA
1 AAA-ATATATTTATCTTT-TAAA
388582 TTATTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
27 6 0.13
29 10 0.22
30 9 0.20
31 13 0.29
32 4 0.09
33 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
AAAATATATTTATCTTTTAAAGTTTACA
Found at i:388864 original size:27 final size:27
Alignment explanation
Indices: 388792--388864 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
388782 AAATTTATTT
*
388792 TAATTAATTATA-TATTAATTTTAAAA
1 TAATTAATTATATTATTTATTTTAAAA
* *
388818 TAAATTTATTAAAATT-TTTA-TTTAAAA
1 T-AATTAATT-ATATTATTTATTTTAAAA
388845 TAATTAATTACTATTATTTA
1 TAATTAATTA-TATTATTTA
388865 AAAATTTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
25 1 0.03
26 11 0.30
27 19 0.51
28 5 0.14
29 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (27 bp):
TAATTAATTATATTATTTATTTTAAAA
Found at i:390108 original size:9 final size:9
Alignment explanation
Indices: 390081--390131 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
390071 ATTATGATAA
390081 TTTATAT-T
1 TTTATATAT
*
390089 TTTTTAT-T
1 TTTATATAT
390097 TTTATATAT
1 TTTATATAT
390106 TTTAATATAT
1 TTT-ATATAT
* *
390116 TTAAAATAT
1 TTTATATAT
390125 TTTATAT
1 TTTATAT
390132 TTAATTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 13 0.37
9 14 0.40
10 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATAT
Found at i:390154 original size:30 final size:29
Alignment explanation
Indices: 390093--390154 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
390083 TATATTTTTT
* *
390093 TATTTTTATATATTTTAATATATTTAAAA
1 TATTTTTATATAATTTAATACATTTAAAA
*
390122 TATTTTATATTTAATTTAATACA-TTAATAA
1 TATTTT-TATATAATTTAATACATTTAA-AA
390152 TAT
1 TAT
390155 ATAGACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTTTTATATAATTTAATACATTTAAAA
Found at i:390385 original size:15 final size:15
Alignment explanation
Indices: 390349--390404 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
390339 ATAATTAATT
*
390349 ATTATTTTAAATGTA
1 ATTATTTTAAATATA
** *
390364 AACATTTTAAATATT
1 ATTATTTTAAATATA
390379 ATTATTTTTAAA-ATA
1 ATTA-TTTTAAATATA
390394 ATT-TTTTAAAT
1 ATTATTTTAAAT
390405 TTTTTTATCG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
13 7 0.22
15 18 0.56
16 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTATTTTAAATATA
Found at i:390682 original size:27 final size:25
Alignment explanation
Indices: 390651--390717 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
390641 AAATTTTTAA
390651 ATATTATATATTTATATTGTATTATT
1 ATATTATATATTTATATT-TATTATT
*
390677 ATTATTAT-T-TTTTTATTTATTATT
1 A-TATTATATATTTATATTTATTATT
*
390701 ATATTTTATA-TTATATT
1 ATATTATATATTTATATT
390718 CTAATAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.14
24 15 0.43
25 7 0.20
26 2 0.06
27 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (25 bp):
ATATTATATATTTATATTTATTATT
Found at i:390697 original size:24 final size:24
Alignment explanation
Indices: 390652--390717 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 24
390642 AATTTTTAAA
390652 TATTATATATTTATATTGTATTAT
1 TATTATATATTTATATTGTATTAT
390676 TATTAT-TATTT-T-TT-TATTTAT
1 TATTATATATTTATATTGTA-TTAT
*
390697 TATTATAT-TTTATATTATATT
1 TATTATATATTTATATTGTATT
390718 CTAATAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
22 3 0.08
23 9 0.24
24 8 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TATTATATATTTATATTGTATTAT
Found at i:390698 original size:15 final size:18
Alignment explanation
Indices: 390651--390714 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
390641 AAATTTTTAA
*
390651 ATATTATATATTTATATTGT
1 ATATTAT-TA-TTATATTTT
390671 ATTATTATTATTAT-TTTT
1 A-TATTATTATTATATTTT
*
390689 TTATTTATTATTATATTTT
1 ATA-TTATTATTATATTTT
390708 ATATTAT
1 ATATTAT
390715 ATTCTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.05
18 17 0.45
19 10 0.26
20 3 0.08
21 6 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
ATATTATTATTATATTTT
Found at i:390705 original size:12 final size:12
Alignment explanation
Indices: 390662--390717 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
390652 TATTATATAT
390662 TTATATTGTATTA
1 TTATATT-TATTA
*
390675 TTAT-TATTATTT
1 TTATAT-TTATTA
*
390687 TTTTATTTATTA
1 TTATATTTATTA
390699 TTATATTT-TATA
1 TTATATTTAT-TA
390711 TTATATT
1 TTATATT
390718 CTAATAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 1 0.03
12 29 0.81
13 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:390985 original size:4 final size:4
Alignment explanation
Indices: 390978--391007 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
390968 TATATATATA
390978 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
391008 AATGGATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:391507 original size:24 final size:21
Alignment explanation
Indices: 391464--391507 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
391454 TTTTCCCAGA
*
391464 ATCAGTTATATATTAGAATTT
1 ATCAGTTATATATTAAAATTT
391485 ATCAGTTTATCATAATTAAAATT
1 ATCAG-TTAT-AT-ATTAAAATT
391508 GCATGTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 2 0.11
24 8 0.42
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
ATCAGTTATATATTAAAATTT
Found at i:395248 original size:20 final size:21
Alignment explanation
Indices: 395212--395252 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
395202 TGTTTGACAT
395212 ATTTTTAAATGTAAATATAAAA
1 ATTTTTAAA-GTAAATATAAAA
395234 ATTTTTAAA-TAAATATAAA
1 ATTTTTAAAGTAAATATAAA
395253 GATTGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAGTAAATATAAAA
Found at i:395316 original size:2 final size:2
Alignment explanation
Indices: 395311--395348 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
395301 TATTTTTTAT
*
395311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
395349 GAATATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:395630 original size:2 final size:2
Alignment explanation
Indices: 395623--395649 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
395613 TCGTTCTTAT
395623 TA 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 TA T
395650 GAGCAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:396562 original size:27 final size:28
Alignment explanation
Indices: 396525--396582 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
396515 AGTAAAAGAT
*
396525 TTTGATTTTTT-TTAAAATTTTTAAT-TA
1 TTTGATTTTTTAAT-AAATTTTTAATGTA
396552 TTTGATTTTTTAATAAATTTTTAATGTA
1 TTTGATTTTTTAATAAATTTTTAATGTA
396580 TTT
1 TTT
396583 ATAAATCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTGATTTTTTAATAAATTTTTAATGTA
Found at i:396652 original size:27 final size:30
Alignment explanation
Indices: 396606--396665 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 30
396596 AATATAAGAT
*
396606 TTTGATTTTTTTTAAAAAATTTC-AA-TTG
1 TTTGATTTTTTTGAAAAAATTTCTAACTTG
*
396634 TTTGA-TTTTTTGAATAAATTTCTAACTTG
1 TTTGATTTTTTTGAAAAAATTTCTAACTTG
396663 TTT
1 TTT
396666 TGTCTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 15 0.54
28 7 0.25
29 6 0.21
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTGATTTTTTTGAAAAAATTTCTAACTTG
Found at i:398898 original size:47 final size:47
Alignment explanation
Indices: 398814--398924 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 47
398804 ATATTTTAAA
* *
398814 TTATTAAATTTAATATTAATTTTTATATAAATTATAAA-TATTTAATT
1 TTATTAAATTTATTATTAATTTTTATATAAATAATAAATTATTT-ATT
398861 TTATTAAATTATATTATTAAATTTTTAT-T-AATAATAAATTTATTTATT
1 TTATTAAATT-TATTATT-AATTTTTATATAAATAATAAA-TTATTTATT
*
398909 TATATTAATTTTATTA
1 T-TATTAAATTTATTA
398925 AATAATTTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
47 18 0.32
48 16 0.29
49 22 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (47 bp):
TTATTAAATTTATTATTAATTTTTATATAAATAATAAATTATTTATT
Found at i:398906 original size:19 final size:19
Alignment explanation
Indices: 398884--398923 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
398874 TTATTAAATT
398884 TTTATTAATAATAAATTTA
1 TTTATTAATAATAAATTTA
* * *
398903 TTTATTTATATTAATTTTA
1 TTTATTAATAATAAATTTA
398922 TT
1 TT
398924 AAATAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTAATAATAAATTTA
Found at i:399934 original size:22 final size:22
Alignment explanation
Indices: 399862--399958 Score: 81
Period size: 22 Copynumber: 4.3 Consensus size: 22
399852 GATTGACATG
*
399862 TTAAATTTAATTAATTTAAAT-
1 TTAAATTTAAATAATTTAAATA
*
399883 TTAAA-ATAACATAAATTTAAAATAA
1 TTAAATTTAA-AT-AATTT-AAAT-A
399908 TTTAAATTTAAATAATTTAAATA
1 -TTAAATTTAAATAATTTAAATA
** *
399931 TTAAATTTATTTAATTTTAATA
1 TTAAATTTAAATAATTTAAATA
*
399953 TAAAAT
1 TTAAAT
399959 AATTTAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
20 3 0.05
21 6 0.10
22 29 0.47
23 5 0.08
24 4 0.06
25 5 0.08
26 7 0.11
27 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAATTTAAATAATTTAAATA
Found at i:399972 original size:16 final size:16
Alignment explanation
Indices: 399862--399983 Score: 113
Period size: 16 Copynumber: 7.3 Consensus size: 16
399852 GATTGACATG
*
399862 TTAAATTT-AATTAAT
1 TTAAATTTAAAATAAT
*
399877 TTAAATTTAAAATAAC
1 TTAAATTTAAAATAAT
*
399893 ATAAATTTAAAATAAT
1 TTAAATTTAAAATAAT
399909 TTAAATTT-AAATAAT
1 TTAAATTTAAAATAAT
399924 TTAAATATTAAATTTATTTAAT
1 TTAAAT-TTAAA---A--TAAT
* *
399946 TTTAATATAAAATAAT
1 TTAAATTTAAAATAAT
*
399962 TTAAATTTAAATTTAAT
1 TTAAATTTAAA-ATAAT
399979 TTAAA
1 TTAAA
399984 ATTTTAAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
15 21 0.24
16 41 0.47
17 11 0.12
18 1 0.01
20 1 0.01
21 4 0.05
22 9 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:399981 original size:38 final size:38
Alignment explanation
Indices: 399894--399982 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
399884 TAAAATAACA
** *
399894 TAAATTTAAAATAATTTAAATTTAAATAATTTAAATAT
1 TAAATTTAATTTAATTTAAATTAAAATAATTTAAATAT
*
399932 TAAATTT-ATTTAATTTTAATATAAAATAATTTAAAT-T
1 TAAATTTAATTTAATTTAAAT-TAAAATAATTTAAATAT
399969 TAAATTTAATTTAA
1 TAAATTTAATTTAA
399983 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 18 0.40
38 27 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (38 bp):
TAAATTTAATTTAATTTAAATTAAAATAATTTAAATAT
Found at i:399987 original size:12 final size:12
Alignment explanation
Indices: 399831--399983 Score: 63
Period size: 11 Copynumber: 13.9 Consensus size: 12
399821 TTAAATTTTA
*
399831 TTAAACTTAAAT
1 TTAAATTTAAAT
*
399843 ATTAAATTT-GAT
1 -TTAAATTTAAAT
* *
399855 TGACATGTTAAAT
1 TTAAAT-TTAAAT
399868 TT-AA-TT-AAT
1 TTAAATTTAAAT
399877 TTAAATTTAAA-
1 TTAAATTTAAAT
*
399888 ATAACA--TAAAT
1 TTAA-ATTTAAAT
*
399899 TTAAA-AT-AAT
1 TTAAATTTAAAT
399909 TTAAATTTAAA-
1 TTAAATTTAAAT
399920 -T-AATTTAAAT
1 TTAAATTTAAAT
399930 ATTAAATTT--AT
1 -TTAAATTTAAAT
*
399941 TT-AATTTTAAT
1 TTAAATTTAAAT
* *
399952 ATAAA-AT-AAT
1 TTAAATTTAAAT
399962 TTAAATTTAAAT
1 TTAAATTTAAAT
399974 TT-AATTTAAA
1 TTAAATTTAAA
399984 ATTTTAAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 40
0.66 0.09 0.25
Matches are distributed among these distances:
9 18 0.17
10 27 0.25
11 29 0.27
12 18 0.17
13 15 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:399995 original size:27 final size:26
Alignment explanation
Indices: 399900--399991 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 26
399890 AACATAAATT
399900 TAAAATAATTTAAATTTAAA--TAAT-
1 TAAAAT-ATTTAAATTTAAATTTAATA
*
399924 TTAAATA-TTAAATTTATTTAATTTTAATA
1 TAAAATATTTAAATTTA---AA-TTTAATA
*
399953 TAAAATAATTTAAATTTAAATTTAATT
1 TAAAAT-ATTTAAATTTAAATTTAATA
399980 TAAAAT-TTTAAA
1 TAAAATATTTAAA
399992 AATTCAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
22 9 0.16
23 1 0.02
24 5 0.09
25 8 0.14
27 12 0.21
28 6 0.11
29 5 0.09
30 1 0.02
31 9 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAAATATTTAAATTTAAATTTAATA
Found at i:400577 original size:12 final size:14
Alignment explanation
Indices: 400560--400591 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
400550 AAAATAATTA
400560 TTTTATTT-TA-AT
1 TTTTATTTATATAT
400572 TTTTATTTATATAT
1 TTTTATTTATATAT
400586 TTTTAT
1 TTTTAT
400592 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTATATAT
Found at i:407076 original size:25 final size:26
Alignment explanation
Indices: 407045--407110 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
407035 TAAATAAGAG
407045 AAAATATTATATT-TGATAAATA-ATT
1 AAAATATTATATTAT-ATAAATATATT
*
407070 AAAATATTATATATATATAAATATTTT
1 AAAATATTATAT-TATATAAATATATT
407097 AAAAT-TTATATTAT
1 AAAATATTATATTAT
407111 TTTAATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 15 0.41
26 14 0.38
27 8 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AAAATATTATATTATATAAATATATT
Found at i:407144 original size:22 final size:24
Alignment explanation
Indices: 407106--407161 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 24
407096 TAAAATTTAT
407106 ATTATTT-TAATATTAAAAT-AAAA
1 ATTATTTATAATATT-AAATGAAAA
*
407129 ATTATTTATAA-A-TAAATGTAAA
1 ATTATTTATAATATTAAATGAAAA
407151 ATTATTATATA
1 ATTATT-TATA
407162 TTTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 10 0.34
23 12 0.41
24 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTATTTATAATATTAAATGAAAA
Found at i:407184 original size:18 final size:18
Alignment explanation
Indices: 407161--407215 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
407151 ATTATTATAT
407161 ATTTTATTATTTTA-ATTA
1 ATTTTATT-TTTTATATTA
*
407179 ATTTTATTTTTTATTTTA
1 ATTTTATTTTTTATATTA
407197 ATTTATATTTTTTTATATT
1 ATTT-TA-TTTTTTATATT
407216 TAGTTTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 5 0.16
18 15 0.47
19 2 0.06
20 10 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATTTTTTATATTA
Found at i:407195 original size:22 final size:23
Alignment explanation
Indices: 407150--407216 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
407140 ATAAATGTAA
* *
407150 AATTATTATATATTTTATTATTTT
1 AATTAATATTTATTTT-TTATTTT
407174 AATTAAT-TTTATTTTTTATTTT
1 AATTAATATTTATTTTTTATTTT
* *
407196 AATTTATATTT-TTTTATATTT
1 AATTAATATTTATTTTTTATTT
407217 AGTTTTGACG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 22 0.58
23 10 0.26
24 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
AATTAATATTTATTTTTTATTTT
Found at i:407196 original size:12 final size:12
Alignment explanation
Indices: 407163--407216 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
407153 TATTATATAT
407163 TTTATTATTTTAA
1 TTTA-TATTTTAA
*
407176 -TTA-ATTTTAT
1 TTTATATTTTAA
*
407186 TTTTTATTTTAA
1 TTTATATTTTAA
407198 TTTATATTTT--
1 TTTATATTTTAA
407208 TTTATATTT
1 TTTATATTT
407217 AGTTTTGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 15 0.43
11 2 0.06
12 18 0.51
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATATTTTAA
Found at i:407310 original size:32 final size:29
Alignment explanation
Indices: 407274--407356 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 29
407264 GTTTTTGAAA
**
407274 AAATTTAAATAAAATTATTAGATTTAAAAAAT
1 AAATTTAAATAAAATTA-TA-AAAT-AAAAAT
*
407306 AAATTTAAATAAAA-TATAAAATATAAAT
1 AAATTTAAATAAAATTATAAAATAAAAAT
407334 AAATTTAAATAAAATT-TAAAATA
1 AAATTTAAATAAAATTATAAAATA
407357 TATATTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 26 0.55
29 3 0.06
30 2 0.04
31 2 0.04
32 14 0.30
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (29 bp):
AAATTTAAATAAAATTATAAAATAAAAAT
Found at i:407317 original size:10 final size:10
Alignment explanation
Indices: 407302--407402 Score: 61
Period size: 10 Copynumber: 10.2 Consensus size: 10
407292 TAGATTTAAA
407302 AAATAAATTT
1 AAATAAATTT
*
407312 AAATAAA-AT
1 AAATAAATTT
* *
407321 ATA-AAATAT
1 AAATAAATTT
407330 AAATAAATTT
1 AAATAAATTT
407340 AAATAAAATTT
1 AAAT-AAATTT
407351 AAAATATATATTT
1 -AAATA-A-ATTT
*
407364 --TTAAA-TT
1 AAATAAATTT
*
407371 AAATTAAAATT
1 AAA-TAAATTT
*
407382 AAATAAATAT
1 AAATAAATTT
407392 AAAT-AATTT
1 AAATAAATTT
407401 AA
1 AA
407403 TAATATATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
7 2 0.03
8 4 0.06
9 14 0.19
10 31 0.43
11 12 0.17
12 5 0.07
13 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATAAATTT
Found at i:407333 original size:28 final size:27
Alignment explanation
Indices: 407302--407397 Score: 117
Period size: 28 Copynumber: 3.6 Consensus size: 27
407292 TAGATTTAAA
407302 AAATAAATTTAAATAAAATATAAAATAT
1 AAATAAATTTAAATAAAAT-TAAAATAT
407330 AAATAAATTTAAATAAAATTTAAAATAT
1 AAATAAATTTAAATAAAA-TTAAAATAT
** *
407358 --ATATTTTTAAATTAAATTAAAAT-T
1 AAATAAATTTAAATAAAATTAAAATAT
*
407382 AAATAAATATAAATAA
1 AAATAAATTTAAATAA
407398 TTTAATAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.02
25 7 0.12
26 23 0.40
28 26 0.45
29 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATAAATTTAAATAAAATTAAAATAT
Found at i:407374 original size:26 final size:27
Alignment explanation
Indices: 407303--407409 Score: 107
Period size: 26 Copynumber: 4.0 Consensus size: 27
407293 AGATTTAAAA
*
407303 AATAAATTTAAATAAAATATAAAATAT
1 AATAAATTTAAATAAAATTTAAAATAT
407330 AAATAAATTTAAATAAAATTTAAAATAT
1 -AATAAATTTAAATAAAATTTAAAATAT
** *
407358 -ATATTTTTAAATTAAA-TTAAAAT-T
1 AATAAATTTAAATAAAATTTAAAATAT
*
407382 AAATAAATATAAAT--AATTTAATAATAT
1 -AATAAATTTAAATAAAATTTAA-AATAT
407409 A
1 A
407410 TTTAAACTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.04
25 11 0.16
26 26 0.39
27 1 0.01
28 26 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAATTTAAATAAAATTTAAAATAT
Found at i:407427 original size:48 final size:50
Alignment explanation
Indices: 407273--407429 Score: 119
Period size: 52 Copynumber: 3.1 Consensus size: 50
407263 AGTTTTTGAA
* * * * * * *
407273 AAAATTTAAATAAA-ATTATTAGATTTAAA-AAATAAATTTAAATAAAATAT
1 AAAATATAAATAAATATAAATAAATTTAAATATATATATTTAAAT-CAA-AT
* * *
407323 AAAATATAAATAAATTTAAATAAAATTTAAAATATATATTTTTAAATTAAATT
1 AAAATATAAATAAATATAAAT-AAATTT-AAATATATATATTTAAATCAAA-T
407376 AAAAT-TAAATAAATATAAAT-AATTT-AATA-ATATATTTAAACTCAACAT
1 AAAATATAAATAAATATAAATAAATTTAAATATATATATTTAAA-TCAA-AT
407424 AAAATA
1 AAAATA
407430 AACTTCACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
47 10 0.11
48 13 0.15
49 1 0.01
50 18 0.21
51 3 0.03
52 20 0.23
53 11 0.13
54 11 0.13
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.37
Consensus pattern (50 bp):
AAAATATAAATAAATATAAATAAATTTAAATATATATATTTAAATCAAAT
Found at i:408302 original size:23 final size:21
Alignment explanation
Indices: 408258--408304 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
408248 AGTGATAACG
*
408258 ATAAAATTAATTACTAAAAAA
1 ATAAAATTAATTAATAAAAAA
*
408279 ATAAAATTAAAATTAATAATAAA
1 ATAAAATT--AATTAATAAAAAA
408302 ATA
1 ATA
408305 TATTATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAATTAATTAATAAAAAA
Found at i:408461 original size:19 final size:21
Alignment explanation
Indices: 408419--408462 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
408409 TTATTTTTAT
* *
408419 TTTAAAATAATAATTATTATA
1 TTTAAAATAATAATTAATACA
408440 TTTAAAA-AAT-ATTAATACA
1 TTTAAAATAATAATTAATACA
408459 TTTA
1 TTTA
408463 CATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAATAATAATTAATACA
Found at i:408527 original size:14 final size:13
Alignment explanation
Indices: 408508--408561 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
408498 AAAATCACAT
408508 AAATAATTTAATAA
1 AAATAATTT-ATAA
408522 AAATAATCTT-TAA
1 AAATAAT-TTATAA
*
408535 TAAATAATTTAT-T
1 -AAATAATTTATAA
408548 AAATAA-TTATAA
1 AAATAATTTATAA
408560 AA
1 AA
408562 TTACTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
11 4 0.12
12 8 0.24
13 5 0.15
14 15 0.44
15 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATAATTTATAA
Found at i:408553 original size:16 final size:15
Alignment explanation
Indices: 408506--408549 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
408496 AAAAAATCAC
*
408506 ATAAATAATTTAATA
1 ATAAATAATTTATTA
*
408521 A-AAATAATCT-TTA
1 ATAAATAATTTATTA
408534 ATAAATAATTTATTA
1 ATAAATAATTTATTA
408549 A
1 A
408550 ATAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATAATTTATTA
Found at i:408774 original size:15 final size:15
Alignment explanation
Indices: 408756--408808 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
408746 TATATTTATT
408756 ATAATTATAAATATA
1 ATAATTATAAATATA
*
408771 ATAAATAT-AATA-A
1 ATAATTATAAATATA
408784 AT-ATTATTAAAT-TA
1 ATAATTA-TAAATATA
*
408798 ATTATTATAAA
1 ATAATTATAAA
408809 ATATCAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 14 0.44
15 11 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTATAAATATA
Found at i:408799 original size:18 final size:18
Alignment explanation
Indices: 408751--408799 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
408741 TGTATTATAT
408751 TTATTATAATT-ATAAATA
1 TTATTA-AATTAATAAATA
*
408769 -TAATAAATATAATAAATA
1 TTATTAAAT-TAATAAATA
408787 TTATTAAATTAAT
1 TTATTAAATTAAT
408800 TATTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 11 0.42
19 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAAATTAATAAATA
Found at i:408801 original size:9 final size:9
Alignment explanation
Indices: 408762--408787 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
408752 TATTATAATT
408762 ATAAATATA
1 ATAAATATA
408771 ATAAATATA
1 ATAAATATA
408780 ATAAATAT
1 ATAAATAT
408788 TATTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAATATA
Found at i:409111 original size:26 final size:25
Alignment explanation
Indices: 409063--409112 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
409053 TATCAATTCA
409063 TATATTTATCATTTTTAATATATTT
1 TATATTTATCATTTTTAATATATTT
409088 TATATTTAT-ATTAATTTAATATATT
1 TATATTTATCATT--TTTAATATATT
409113 AATAATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.13
25 9 0.39
26 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATCATTTTTAATATATTT
Found at i:409116 original size:34 final size:33
Alignment explanation
Indices: 409077--409228 Score: 98
Period size: 32 Copynumber: 4.4 Consensus size: 33
409067 TTTATCATTT
*
409077 TTAATATATTTTATATTTATATTAATTTAATATA
1 TTAATATATTTCATATTT-TATTAATTTAATATA
*
409111 TTAATA-A-TTCATATTTTATAAATTTTAATATA
1 TTAATATATTTCATATTTTATTAA-TTTAATATA
*
409143 TATAATTATATCATATCATATTTTAATTATTTTATATATA
1 T-TAA-TATAT--T-TCATATTTT-ATTAATTTA-ATATA
* *
409183 TTTATTATATTT-ATA--TAATTATATTTAATATTA
1 -TTAATATATTTCATATTTTATTA-ATTTAATA-TA
*
409216 TCAAATATATTTC
1 T-TAATATATTTC
409229 TTTATTTAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 30
0.71 0.07 0.23
Matches are distributed among these distances:
31 5 0.05
32 26 0.28
33 19 0.20
34 8 0.09
35 4 0.04
36 1 0.01
37 1 0.01
38 1 0.01
39 18 0.19
40 10 0.11
41 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (33 bp):
TTAATATATTTCATATTTTATTAATTTAATATA
Found at i:409124 original size:26 final size:26
Alignment explanation
Indices: 409076--409125 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
409066 ATTTATCATT
* *
409076 TTTAATATATTTTATATTTATATTAA
1 TTTAATATATTATATATTCATATTAA
409102 TTTAATATATTA-ATAATTCATATT
1 TTTAATATATTATAT-ATTCATATT
409126 TTATAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTAATATATTATATATTCATATTAA
Found at i:409171 original size:21 final size:19
Alignment explanation
Indices: 409138--409192 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
409128 ATAAATTTTA
*
409138 ATATATATAATTATATCAT
1 ATATATTTAATTATATCAT
* *
409157 ATCATATTTTAATTATTTTAT
1 AT-ATA-TTTAATTATATCAT
409178 ATATATTT-ATTATAT
1 ATATATTTAATTATAT
409193 TTATATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 5 0.17
20 6 0.20
21 13 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATTTAATTATATCAT
Found at i:409774 original size:13 final size:15
Alignment explanation
Indices: 409736--409801 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
409726 CTTAATAATA
*
409736 ATAAATATTAT-TAT
1 ATAAATATAATATAT
409750 ATAAATATAATATAT
1 ATAAATATAATATAT
409765 ATAAA-A-AATA-AT
1 ATAAATATAATATAT
*
409777 -TAAAATATAAAATCAT
1 AT-AAATATAATAT-AT
409793 ATAAATATA
1 ATAAATATA
409802 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
11 1 0.02
12 5 0.12
13 5 0.12
14 14 0.33
15 8 0.19
16 9 0.21
17 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAATATAATATAT
Found at i:409798 original size:16 final size:15
Alignment explanation
Indices: 409747--409801 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
409737 TAAATATTAT
*
409747 TATATAAATATAATA
1 TATATAAATATAAAA
409762 TATATAAA-A-AATAA
1 TATATAAATATAA-AA
409776 T-TA-AAATATAAAA
1 TATATAAATATAAAA
409789 TCATATAAATATA
1 T-ATATAAATATA
409802 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
12 3 0.09
13 8 0.24
14 5 0.15
15 10 0.30
16 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TATATAAATATAAAA
Found at i:409802 original size:18 final size:17
Alignment explanation
Indices: 409752--409802 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
409742 ATTATTATAT
409752 AAATATAATATATATAAA
1 AAATATAA-ATATATAAA
409770 AAATAATTAAA-ATATAAA
1 AAAT-A-TAAATATATAAA
*
409788 ATCATATAAATATAT
1 A-AATATAAATATAT
409803 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 4 0.14
18 17 0.61
19 4 0.14
20 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATATATAAA
Found at i:409824 original size:16 final size:16
Alignment explanation
Indices: 409805--409852 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
409795 AAATATATTT
409805 TTTAAAATTAATATAA
1 TTTAAAATTAATATAA
*
409821 TTTAAATTATTAATA-CA
1 TTTAAA--ATTAATATAA
409838 -TTAAAATTAATATAA
1 TTTAAAATTAATATAA
409853 ATATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 7 0.26
15 1 0.04
16 11 0.41
17 1 0.04
18 7 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAAATTAATATAA
Found at i:409859 original size:17 final size:16
Alignment explanation
Indices: 409806--409861 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
409796 AATATATTTT
409806 TTAAAATTAATAT-AA
1 TTAAAATTAATATAAA
* * *
409821 TTTAAATTATTAATACA
1 TTAAAATTAAT-ATAAA
409838 TTAAAATTAATATAAA
1 TTAAAATTAATATAAA
409854 TATAAAAT
1 T-TAAAAT
409862 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 9 0.28
16 7 0.22
17 16 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATTAATATAAA
Found at i:411897 original size:28 final size:28
Alignment explanation
Indices: 411861--411914 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
411851 AATTTTAATG
411861 TTAAAT-AAATAT-TAATTATAATTAACAA
1 TTAAATAAAATATGT-ATT-TAATTAACAA
*
411889 TTAATTAAAATATGTATTTAATTAAC
1 TTAAATAAAATATGTATTTAATTAAC
411915 TTAATAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 13 0.57
29 9 0.39
30 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAAATAAAATATGTATTTAATTAACAA
Found at i:412059 original size:31 final size:31
Alignment explanation
Indices: 412008--412066 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
411998 TAAAACTGAT
412008 TTTTAACCAGTTCAATTTAATTTTTTATCGA
1 TTTTAACCAGTTCAATTTAATTTTTTATCGA
*
412039 TTTTATACCGGTTCAA-TTAATTTTTTAT
1 TTTTA-ACCAGTTCAATTTAATTTTTTAT
412067 TTTAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTTAACCAGTTCAATTTAATTTTTTATCGA
Found at i:412787 original size:22 final size:20
Alignment explanation
Indices: 412761--412800 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
412751 ATTTAAAAAC
412761 TATTTTTATATTAATATTTATA
1 TATTTTTA-ATTAA-ATTTATA
412783 TATTTTTAATTAAATTTA
1 TATTTTTAATTAAATTTA
412801 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAATTAAATTTATA
Found at i:413299 original size:22 final size:22
Alignment explanation
Indices: 413274--413322 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
413264 TAATCTAACA
*
413274 AAAAATATTTAAAT-TTAATTAT
1 AAAAATATCTAAATATTAA-TAT
413296 AAAAATATCTAAATATTAATAT
1 AAAAATATCTAAATATTAATAT
413318 AAAAA
1 AAAAA
413323 ATAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAATATCTAAATATTAATAT
Found at i:413550 original size:17 final size:17
Alignment explanation
Indices: 413520--413555 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
413510 TCGAATACTA
413520 TTTAAAATATATTAATTT
1 TTTAAAATATATT-ATTT
413538 TTTAAAA-ATATTATTT
1 TTTAAAATATATTATTT
413554 TT
1 TT
413556 ATTTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAAATATATTATTT
Found at i:413569 original size:22 final size:22
Alignment explanation
Indices: 413555--413594 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
413545 ATATTATTTT
413555 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAATATTTATA
413576 TATTTTATAATTAA-ATTTA
1 TATTTTATAATTAATATTTA
413595 AATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTATAATTAATATTTATA
Found at i:414692 original size:19 final size:21
Alignment explanation
Indices: 414644--414700 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
414634 AATTTTTACA
414644 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
414665 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
*
414685 -TTTGTATCAATACAAA
1 ATTTGTATCGATACAAA
414701 ATCACTCTGC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 14 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:422068 original size:26 final size:27
Alignment explanation
Indices: 422028--422078 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
422018 TCAAAATGAC
*
422028 AAAAAAAAGGTCAAAAGCAAAAGCACA
1 AAAAAAAAGGTCAAAAGAAAAAGCACA
* *
422055 AAAAAAAATG-CAAAGGAAAAAGCA
1 AAAAAAAAGGTCAAAAGAAAAAGCA
422079 AAAGAGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.69, C:0.12, G:0.16, T:0.04
Consensus pattern (27 bp):
AAAAAAAAGGTCAAAAGAAAAAGCACA
Found at i:422346 original size:18 final size:20
Alignment explanation
Indices: 422304--422347 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
422294 CTTTTTAGCG
422304 AAAAA-AAAAGCACACACAA
1 AAAAAGAAAAGCACACACAA
422323 AAAAAGAAAAGCACA-A-AA
1 AAAAAGAAAAGCACACACAA
422341 AAAAAGA
1 AAAAAGA
422348 GAAAAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 9 0.38
ACGTcount: A:0.77, C:0.14, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAGCACACACAA
Found at i:422350 original size:20 final size:20
Alignment explanation
Indices: 422304--422352 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
422294 CTTTTTAGCG
*
422304 AAAAA-AAAAGCACACACAA
1 AAAAAGAAAAGCACACAAAA
422323 AAAAAGAAAAGCACA-AAAA
1 AAAAAGAAAAGCACACAAAA
422342 AAAAGAGAAAA
1 AAAA-AGAAAA
422353 ATCTATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.78, C:0.12, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAGCACACAAAA
Found at i:423656 original size:32 final size:32
Alignment explanation
Indices: 423532--423831 Score: 236
Period size: 31 Copynumber: 9.6 Consensus size: 32
423522 AAACCCATAC
* * *
423532 AAGTCAGTGGCAACCCTCCTCAAAGCCCATAT
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* * * * * *
423564 AAGCTGGTGGTAA-CCTTTTTAAAG-CCACAC
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* *
423594 AAGTCAGTGGCAACCCTTCT-TAAGCCCACAT
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* * *
423625 AAGTTTGTAGCAACTCTTCTCAAAGCCCACAT
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
**
423657 AAGTCGGTGGCAACCCTTCT-AAAGCCCACAT
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* * * * * *
423688 AATTTGGCGGTAACTCTTCTCAAAGCCCACAC
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* * * *
423720 AAATCAGTGGCAACCCTTCT-AAAGCTCACAC
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* *
423751 AAGTTAGTAGCACCCCTTCTCAAAGCCCACAT
1 AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
* * * *
423783 AAG-TCGATGGCAACCTTTCT-AAAGTCCACAC
1 AAGTTAG-TGGCAACCCTTCTCAAAGCCCACAT
* *
423814 AAGTTGGTGCCAACCCTT
1 AAGTTAGTGGCAACCCTT
423832 TCTATGCCCA
Statistics
Matches: 208, Mismatches: 53, Indels: 15
0.75 0.19 0.05
Matches are distributed among these distances:
30 16 0.08
31 109 0.52
32 83 0.40
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (32 bp):
AAGTTAGTGGCAACCCTTCTCAAAGCCCACAT
Found at i:423761 original size:126 final size:124
Alignment explanation
Indices: 423532--423812 Score: 373
Period size: 126 Copynumber: 2.2 Consensus size: 124
423522 AAACCCATAC
* * * * * * *
423532 AAGTCAGTGGCAACCCTCCTCAAAGCCCATATAAGCTGGTGGTAACCTTTTTAAAGCCACACAAG
1 AAGTCGGTGGCAACCCTTCT-AAAGCCCACATAAGCTGGCGGTAACCTTCTCAAAGCCACACAAA
* * * *
423597 TCAGTGGCAACCCTTCTTAAGCCCACATAAGTTTGTAGCAACTCTTCTCAAAGCCCACAT
65 TCAGTGGCAACCCTTCTAAAGCCCACACAAGTTAGTAGCAACCCTTCTCAAAGCCCACAT
**
423657 AAGTCGGTGGCAACCCTTCTAAAGCCCACATAATTTGGCGGTAACTCTTCTCAAAGCCCACACAA
1 AAGTCGGTGGCAACCCTTCTAAAGCCCACATAAGCTGGCGGTAAC-CTTCTCAAAG-CCACACAA
* *
423722 ATCAGTGGCAACCCTTCTAAAGCTCACACAAGTTAGTAGCACCCCTTCTCAAAGCCCACAT
64 ATCAGTGGCAACCCTTCTAAAGCCCACACAAGTTAGTAGCAACCCTTCTCAAAGCCCACAT
* * *
423783 AAGTCGATGGCAACCTTTCTAAAGTCCACA
1 AAGTCGGTGGCAACCCTTCTAAAGCCCACA
423813 CAAGTTGGTG
Statistics
Matches: 136, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
124 21 0.15
125 26 0.19
126 89 0.65
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (124 bp):
AAGTCGGTGGCAACCCTTCTAAAGCCCACATAAGCTGGCGGTAACCTTCTCAAAGCCACACAAAT
CAGTGGCAACCCTTCTAAAGCCCACACAAGTTAGTAGCAACCCTTCTCAAAGCCCACAT
Found at i:423828 original size:31 final size:31
Alignment explanation
Indices: 423489--423835 Score: 209
Period size: 31 Copynumber: 11.1 Consensus size: 31
423479 CATCTCTTCT
* * * *
423489 TAAAGCCCATACAAGTCGATGGTAACC-CTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTTC
* * * * *
423519 TTAAAACCCATACAAGTCAGTGGCAACCCTCC
1 -TAAAGCCCACACAAGTCGGTGGCAACCTTTC
* * * *
423551 TCAAAGCCCATATAAG-CTGGTGGTAACCTTTT
1 T-AAAGCCCACACAAGTC-GGTGGCAACCTTTC
* *
423583 TAAAG-CCACACAAGTCAGTGGCAACCCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTTC
* * ** *
423613 TTAAGCCCACATAAGTTTGTAGCAA-CTCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCT-TTC
* *
423644 TCAAAGCCCACATAAGTCGGTGGCAACCCTTC
1 T-AAAGCCCACACAAGTCGGTGGCAACCTTTC
* * * * *
423676 TAAAGCCCACATAATTTGGCGGTAA-CTCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCT-TTC
* * *
423707 TCAAAGCCCACACAAATCAGTGGCAACCCTTC
1 T-AAAGCCCACACAAGTCGGTGGCAACCTTTC
* ** * * *
423739 TAAAGCTCACACAAGTTAGTAGCACCCCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTTC
* *
423770 TCAAAGCCCACATAAGTCGATGGCAACCTTTC
1 T-AAAGCCCACACAAGTCGGTGGCAACCTTTC
* * *
423802 TAAAGTCCACACAAGTTGGTGCCAACCCTTTC
1 TAAAGCCCACACAAGTCGGTGGCAA-CCTTTC
423834 TA
1 TA
423836 TGCCCAATGT
Statistics
Matches: 243, Mismatches: 60, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
30 23 0.09
31 118 0.49
32 100 0.41
33 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (31 bp):
TAAAGCCCACACAAGTCGGTGGCAACCTTTC
Found at i:423831 original size:63 final size:63
Alignment explanation
Indices: 423474--423831 Score: 312
Period size: 63 Copynumber: 5.7 Consensus size: 63
423464 TCCACGACTT
* * * * * * * * * *
423474 AGTGGCATCTCTTCTTAAAGCCCATACAAGTCGATGGTAACCC-TCTTAAAACCCATACAAGTC
1 AGTGGCAACCCTTC-TAAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
* * * * * * * *
423537 AGTGGCAACCCTCCTCAAAGCCCATATAAGCTGGTGGTAA-CCTTTTTAAAG-CCACACAAGTC
1 AGTGGCAACCCTTCT-AAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
* * * * *
423599 AGTGGCAACCCTTCTTAAGCCCACATAAGTTTGTAGCAACTCTTCTCAAAGCCCACATAAGTC
1 AGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
* * * ** * * *
423662 GGTGGCAACCCTTCTAAAGCCCACATAATTTGGCGGTAACTCTTCTCAAAGCCCACACAAATC
1 AGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
* * * *
423725 AGTGGCAACCCTTCTAAAGCTCACACAAGTTAGTAGCACCCCTTCTCAAAGCCCACATAAGTC
1 AGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
* *
423788 -GATGGCAACCTTTCTAAAGTCCACACAAGTTGGT-GCCAACCCTT
1 AG-TGGCAACCCTTCTAAAGCCCACACAAGTTGGTAG-CAACCCTT
423832 TCTATGCCCA
Statistics
Matches: 242, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
61 18 0.07
62 37 0.15
63 187 0.77
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (63 bp):
AGTGGCAACCCTTCTAAAGCCCACACAAGTTGGTAGCAACCCTTCTCAAAGCCCACACAAGTC
Found at i:423963 original size:52 final size:53
Alignment explanation
Indices: 423887--424581 Score: 226
Period size: 52 Copynumber: 13.4 Consensus size: 53
423877 TCAAATCTTT
* * * *
423887 TTTCTTTAAGTCCGATATCACTAGCTTTTAATCATCACATTGGCACATTTTTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * * * * *
423940 TTTC-TTAAGTGCAATATCGCTAGCATTGAATCAGCATATTAGTACCTTTAT-
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * *
423991 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATATTTTTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * * * ** * *
424044 TTTC-TTAAATCTAATATCGCTGGCCTTGAATCAACATATTGGTGCCTTTATC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * * * * * *
424096 -ATCTTTAAGTCCAATGTCGCTCGTC-TTGAATTAGCGCATTGACACCTTTTTC
1 TTTCTTTAAGTCCAATATCACTAG-CATTGAATCAACACATTGGCACATTTTTC
* * * * * * ** *
424148 TTTC-TTAAGTCCGATATCGCTAGCCTTGAATCAACATATTGTCGCCCTTCTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * ** * * ** * *
424200 -ATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTACATTGGTACCTTTTTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
** * * * *
424252 TTTC-TTAAGTCCAATATCGTTAGCCTTGAATCAGCATA-TGGCACCTTTTGT-
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTT-TC
* * * * * * * * *
424303 TATCTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCACCTTTGTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* ** * * * * * *
424356 -ATCTTTAAG-CTCAATATCGTTGGCCTTGACTCAGCATATT-G-ACGTCTTTATC
1 TTTCTTTAAGTC-CAATATCACTAGCATTGAATCAACACATTGGCACAT-TTT-TC
* * * * * * * ** * *
424408 -ATCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGTACATTAGCACTTTTTTC
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * * * * *
424460 TTTC-TTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGG--CGTTTTTG
1 TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
* * * * * *
424510 TCATCTTTAAGTCCAATGTCGCTAG-ACTTAAATCAACATATTAGCAC-TTTTGTC
1 T-TTCTTTAAGTCCAATATCACTAGCA-TTGAATCAACACATTGGCACATTTT-TC
*
424564 -ATCTTTAAGTCCAATATC
1 TTTCTTTAAGTCCAATATC
424582 CAGCATATTG
Statistics
Matches: 497, Mismatches: 120, Indels: 51
0.74 0.18 0.08
Matches are distributed among these distances:
50 10 0.02
51 27 0.05
52 423 0.85
53 32 0.06
54 5 0.01
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (53 bp):
TTTCTTTAAGTCCAATATCACTAGCATTGAATCAACACATTGGCACATTTTTC
Found at i:424012 original size:104 final size:103
Alignment explanation
Indices: 423889--424581 Score: 646
Period size: 104 Copynumber: 6.7 Consensus size: 103
423879 AAATCTTTTT
* * * * * * *
423889 TCTTTAAGTCCGATATCACTAGCTTTTAATCATCACATTGGCACATTTTTCTTTCTTAAGTGCAA
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTTTCTTTCTTAAGTCCAA
* *
423954 TATCGCTAGCATTGAATCAGCATATTAGTACCTTTATTA
66 TATCGCTAGCCTTGAATCAGCATATT-GTACCTTTATCA
* * * ** * *
423993 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCATATTTTTCTTTCTTAAATCTAA
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTTTCTTTCTTAAGTCCAA
* * *
424058 TATCGCTGGCCTTGAATCAACATATTGGTGCCTTTATCA
66 TATCGCTAGCCTTGAATCAGCATATT-GTACCTTTATCA
* * * * * * *
424097 TCTTTAAGTCCAATGTCGCTCGTCTTGAATTAGCGCATTGACACCTTTTTCTTTCTTAAGTCCGA
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTTTCTTTCTTAAGTCCAA
* * * *
424162 TATCGCTAGCCTTGAATCAACATATTGTCGCCCTTCTCA
66 TATCGCTAGCCTTGAATCAGCATATTGT-ACCTTTATCA
* * *
424201 TCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGT-ACATTGGTACCTTTTTCTTTCTTAAGTCCA
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCA-TCACATTGGCACCTTTTTCTTTCTTAAGTCCA
* * * * *
424265 ATATCGTTAGCCTTGAATCAGCATATGGCACCTTTTGTTA
65 ATATCGCTAGCCTTGAATCAGCATATTGTACC-TTTATCA
* * * * *
424305 TCTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCACCTTTGTC-ATCTTTAAG-CTC
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTTTCTTTC-TTAAGTC-C
* * *
424368 AATATCGTTGGCCTTGACTCAGCATATTG-ACGTCTTTATCA
64 AATATCGCTAGCCTTGAATCAGCATATTGTAC--CTTTATCA
* * * * *
424409 TCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGT-ACATTAGCACTTTTTTCTTTCTTAAGTCCA
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCA-TCACATTGGCACCTTTTTCTTTCTTAAGTCCA
* * * * *
424473 ATATCGCTGGCCTTAAATCAGCATATTG-GCGTTTTTGTCA
65 ATATCGCTAGCCTTGAATCAGCATATTGTAC--CTTTATCA
* * * * * *
424513 TCTTTAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCA-CTTTTGTC-ATCTTTAAGTCC
1 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTT-TCTTTC-TTAAGTCC
424576 AATATC
64 AATATC
424582 CAGCATATTG
Statistics
Matches: 493, Mismatches: 82, Indels: 28
0.82 0.14 0.05
Matches are distributed among these distances:
103 15 0.03
104 474 0.96
105 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (103 bp):
TCTTTAAGTCCAATGTCGCTAGCCTTGAATCATCACATTGGCACCTTTTTCTTTCTTAAGTCCAA
TATCGCTAGCCTTGAATCAGCATATTGTACCTTTATCA
Found at i:424555 original size:208 final size:208
Alignment explanation
Indices: 423944--424581 Score: 768
Period size: 208 Copynumber: 3.1 Consensus size: 208
423934 TTTTTCTTTC
* * *
423944 TTAAGTGCAATATCGCTAGCATTGAATCAGCATATT-A-GTACCTTTATTATCTTTAAGTCCAAT
1 TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACGT--CTTTATCATCTTTAAGTCCAAT
* ** * *
424007 GTCACTGGCCTTGAATCAACACATTGGCA-TATTTTTCTTTCTTAAATCTAATATCGCTGGCCTT
64 GTCGCTGGCCTTGAATCAGTACATTGGCACT-TTTTTCTTTCTTAAGTCCAATATCGCTGGCCTT
* * * * * * *
424071 GAATCAACATATTGGTGCCTTTATCATCTTTAAGTCCAATGTCGCTCGTCTTGAATTAGCGCATT
128 GAATCAGCATATTGGCGCTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTGAATTAGCACATT
* *
424136 -GACACCTTTTTC-TTT
193 AG-CACCTTTGTCATCT
* * * * * *
424151 CTTAAGTCCGATATCGCTAGCCTTGAATCAACATATTGTCGCCCTTCTCATCTTTAAGTCCAATG
1 -TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACGTCTTTATCATCTTTAAGTCCAATG
* * * * *
424216 TCGTTGGCCTTGAATCAGTACATTGGTACCTTTTTCTTTCTTAAGTCCAATATCGTTAGCCTTGA
65 TCGCTGGCCTTGAATCAGTACATTGGCACTTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGA
* * *
424281 ATCAGCATA-TGGCACCTTTTGTTATCTTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTA
130 ATCAGCATATTGGC-GCTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTGAATTAGCACATTA
424345 GCACCTTTGTCATCT
194 GCACCTTTGTCATCT
* * * *
424360 TTAAG-CTCAATATCGTTGGCCTTGACTCAGCATATTGACGTCTTTATCATCTTTAAGTCTAATG
1 TTAAGTC-CAATATCGCTAGCCTTGAATCAGCATATTGACGTCTTTATCATCTTTAAGTCCAATG
* * *
424424 TCGCTGGCCTTGAATTAGTACATTAGCACTTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAA
65 TCGCTGGCCTTGAATCAGTACATTGGCACTTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGA
* * * * *
424489 ATCAGCATATTGGCGTTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTAAATCAACATATTAG
130 ATCAGCATATTGGCGCTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTGAATTAGCACATTAG
*
424554 CACTTTTGTCATCT
195 CACCTTTGTCATCT
424568 TTAAGTCCAATATC
1 TTAAGTCCAATATC
424582 CAGCATATTG
Statistics
Matches: 364, Mismatches: 57, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
207 4 0.01
208 351 0.96
209 8 0.02
210 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (208 bp):
TTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACGTCTTTATCATCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGTACATTGGCACTTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCGCTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTGAATTAGCACATTAGC
ACCTTTGTCATCT
Found at i:424661 original size:91 final size:91
Alignment explanation
Indices: 424491--424665 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 91
424481 GGCCTTAAAT
** * *
424491 CAGCATATTGGCGTTTTTGTCATCTTTAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCA
1 CAGCATATTGGCACTTTTGCCATCTTTAAGTCCAATGTCACTAGACTTAAATCAACATATTAGCA
* * *
424556 CTTTTGTCATCTTTAAGTCCAATATC
66 CCTTTATCACCTTTAAGTCCAATATC
* * * * * * *
424582 CAGCATATTGGCACTTTTGCCATCTTTAAGTCCGATTTCACTGGCCTTGAATCAGCATATTAGCG
1 CAGCATATTGGCACTTTTGCCATCTTTAAGTCCAATGTCACTAGACTTAAATCAACATATTAGCA
424647 CCTTTATCACCTTTAAGTC
66 CCTTTATCACCTTTAAGTC
424666 TAATGTCGTT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
91 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (91 bp):
CAGCATATTGGCACTTTTGCCATCTTTAAGTCCAATGTCACTAGACTTAAATCAACATATTAGCA
CCTTTATCACCTTTAAGTCCAATATC
Found at i:424663 original size:52 final size:52
Alignment explanation
Indices: 424582--424960 Score: 268
Period size: 52 Copynumber: 7.4 Consensus size: 52
424572 GTCCAATATC
* * * * *
424582 CAGCATATTGGCACTTTTGCCATCTTTAAGTCCGATTTCACTGGCCTTGAAT
1 CAGCATATTAGCACCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAAT
* * * * * **
424634 CAGCATATTAGCGCCTTTATCACCTTTAAGTCTAATGTCGTTGGCCTTGAAT
1 CAGCATATTAGCACCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAAT
* * * * *
424686 CAGC---TGA-CACCTTTTTC-TTTCTTAAGTCTAATATCGCTGGCCTTGAAT
1 CAGCATATTAGCACCTTTGTCATCT-TTAAGTCCAATATCACTGGCCTTGAAT
* * * *
424734 CAGCATATT-G-ACGCTTT-TCTTATCTTCAAGTCCAATGTCTCTGGCCTTTAAT
1 CAGCATATTAGCAC-CTTTGTC--ATCTTTAAGTCCAATATCACTGGCCTTGAAT
* * ** *
424786 CAACATATTAGCA-CTTTTTTTTC-TTAAGTCCAATATCACTGGCTTTGAAT
1 CAGCATATTAGCACCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAAT
* * *
424836 CAGCATATT-G-ATGCCATTGTCATCTTTAAGTCTAATGTCACTGGCCTTGAA-
1 CAGCATATTAGCA--CCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAAT
* * *
424887 -AGCACATTGGCACCTTTGTCATCTTTAAG-CCTAATATCTCTGGCCTT-AACT
1 CAGCATATTAGCACCTTTGTCATCTTTAAGTCC-AATATCACTGGCCTTGAA-T
* *
424938 CAGCATATTGGCACCTTTCTCAT
1 CAGCATATTAGCACCTTTGTCAT
424961 TCTTCTCATC
Statistics
Matches: 257, Mismatches: 48, Indels: 44
0.74 0.14 0.13
Matches are distributed among these distances:
47 1 0.00
48 38 0.15
49 6 0.02
50 70 0.27
51 14 0.05
52 123 0.48
53 4 0.02
54 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (52 bp):
CAGCATATTAGCACCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAAT
Found at i:424790 original size:243 final size:244
Alignment explanation
Indices: 424376--424822 Score: 650
Period size: 243 Copynumber: 1.8 Consensus size: 244
424366 TCAATATCGT
* * * *
424376 TGGCCTTGACTCAGCATATTGACGTCTTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGAATTA
1 TGGCCTTGAATCAGCATATTGACGCCTTTATCACCTTTAAGTCTAATGTCGCTGGCCTTGAATCA
* * * *
424441 GTACATTAGCACTTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGTT
66 G-ACATGAGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGACGCT
* *
424506 TTTGTCATCTTTAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCACTTTTGTCATCTTTA
130 TTTCTCATCTTCAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCACTTTT-TCATC-TTA
424571 AGTCCAATATCCAGCATATTGGCACTTTTGCCATCTTTAAGTCCGATTTCAC
193 AGTCCAATATCCAGCATATTGGCACTTTTGCCATCTTTAAGTCCGATTTCAC
*
424623 TGGCCTTGAATCAGCATATT-AGCGCCTTTATCACCTTTAAGTCTAATGTCGTTGGCCTTGAATC
1 TGGCCTTGAATCAGCATATTGA-CGCCTTTATCACCTTTAAGTCTAATGTCGCTGGCCTTGAATC
* *
424687 AG-C-TGA-CACCTTTTTCTTTCTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGACGCT
65 AGACATGAGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGACGCT
* * * * * **
424749 TTTCTTATCTTCAAGTCCAATGTCTCTGGCCTTTAATCAACATATTAGCACTTTTTTTTCTTAAG
130 TTTCTCATCTTCAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCACTTTTTCATCTTAAG
424814 TCCAATATC
195 TCCAATATC
424823 ACTGGCTTTG
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
241 14 0.08
242 3 0.02
243 99 0.55
244 2 0.01
245 1 0.01
246 1 0.01
247 59 0.33
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (244 bp):
TGGCCTTGAATCAGCATATTGACGCCTTTATCACCTTTAAGTCTAATGTCGCTGGCCTTGAATCA
GACATGAGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGACGCTT
TTCTCATCTTCAAGTCCAATGTCGCTAGACTTAAATCAACATATTAGCACTTTTTCATCTTAAGT
CCAATATCCAGCATATTGGCACTTTTGCCATCTTTAAGTCCGATTTCAC
Found at i:424842 original size:102 final size:100
Alignment explanation
Indices: 424607--424947 Score: 318
Period size: 102 Copynumber: 3.4 Consensus size: 100
424597 TTTGCCATCT
* * *
424607 TTAAGTCCGATTTCACTGGCCTTGAATCAGCATATT-AGCGCCTTTATCACCTTTAAGTCTAATG
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGA-CGCCTTTATCATCTTTAAGTCTAATG
*
424671 TCGT-TGGCCTTGAATCAGCTGACACCTTTTTCTTTC
65 TC-TCTGGCCTTGAATCAACTGACACCTTTTTCTTTC
* * * * * * *
424707 TTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGACGCTTTTCTTATCTTCAAGTCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAAGTCTAATGT
* *
424772 CTCTGGCCTTTAATCAACAT-ATTAGCACTTTTT-TTTC
66 CTCTGGCCTTGAATCAAC-TGA-CA-C-CTTTTTCTTTC
* * * *
424809 TTAAGTCCAATATCACTGGCTTTGAATCAGCATATTGATGCCATTGTCATCTTTAAGTCTAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAAGTCTAATGT
* * * * * *
424874 CACTGGCCTTGAAAGCACATTGGCACCTTTGTC-ATC
66 CTCTGGCCTTG-AATCA-ACTGACACCTTTTTCTTTC
*
424910 TTTAAG-CCTAATATCTCTGGCCTT-AACTCAGCATATTG
1 -TTAAGTCC-AATATCACTGGCCTTGAA-TCAGCATATTG
424948 GCACCTTTCT
Statistics
Matches: 195, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
99 1 0.01
100 68 0.35
101 14 0.07
102 99 0.51
103 12 0.06
104 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (100 bp):
TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAAGTCTAATGT
CTCTGGCCTTGAATCAACTGACACCTTTTTCTTTC
Found at i:424921 original size:50 final size:50
Alignment explanation
Indices: 424852--424960 Score: 139
Period size: 50 Copynumber: 2.1 Consensus size: 50
424842 ATTGATGCCA
* *
424852 TTGTCATCTTTAAGTCTAATGTCACTGGCCTTGAA-AGCACATTGGCACCT
1 TTGTCATCTTTAAGCCTAATATCACTGGCCTT-AACAGCACATTGGCACCT
* *
424902 TTGTCATCTTTAAGCCTAATATCTCTGGCCTTAACTCAGCATATTGGCACCT
1 TTGTCATCTTTAAGCCTAATATCACTGGCCTTAA--CAGCACATTGGCACCT
*
424954 TTCTCAT
1 TTGTCAT
424961 TCTTCTCATC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 2 0.04
50 29 0.57
52 20 0.39
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (50 bp):
TTGTCATCTTTAAGCCTAATATCACTGGCCTTAACAGCACATTGGCACCT
Found at i:425173 original size:63 final size:62
Alignment explanation
Indices: 425087--425235 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 62
425077 AAGCCCTTTG
* * * * *
425087 TCGTTGGCTTTGAATCAGCATATTAGTAT-TCTTCTCA-TCCTTTGTCATCTTTAAGTCCTGATA
1 TCGTTGGCCTTGAATTAGCATATTAGCATAT-TTATCATTCCTTTG-CATCCTTAAGT-CTGATA
* * * *
425150 TCGTTGGCCATGAATTAGTATATTGGCATATTTATCATTTCTTTGCATCCTTAAGTCTGATA
1 TCGTTGGCCTTGAATTAGCATATTAGCATATTTATCATTCCTTTGCATCCTTAAGTCTGATA
*
425212 TCGATGGCCTTGAATTAGCATATT
1 TCGTTGGCCTTGAATTAGCATATT
425236 TATGTCTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 27 0.38
63 38 0.53
64 7 0.10
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (62 bp):
TCGTTGGCCTTGAATTAGCATATTAGCATATTTATCATTCCTTTGCATCCTTAAGTCTGATA
Found at i:426253 original size:22 final size:21
Alignment explanation
Indices: 426225--426300 Score: 86
Period size: 20 Copynumber: 3.7 Consensus size: 21
426215 CATTTAGTAA
426225 TGTATCGATACATGCTTACAAT
1 TGTATCGATACATGCTT-CAAT
*
426247 TGTATCGATACAT--TTCTCAT
1 TGTATCGATACATGCTTC-AAT
* *
426267 TGTATCAATACATTCTTCAA-
1 TGTATCGATACATGCTTCAAT
426287 TGTATCGATACATG
1 TGTATCGATACATG
426301 TAGGCAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.61
21 1 0.02
22 16 0.35
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATGCTTCAAT
Found at i:428922 original size:14 final size:15
Alignment explanation
Indices: 428903--428940 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
428893 TCTCTTTATT
* *
428903 ATTATTTTGTGTGA-
1 ATTATTTTATGTAAG
428917 ATTATTTTATGTAAG
1 ATTATTTTATGTAAG
428932 ATTATTTTA
1 ATTATTTTA
428941 CTTGTTGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
ATTATTTTATGTAAG
Found at i:429812 original size:7 final size:7
Alignment explanation
Indices: 429800--429840 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
429790 TATTACTAAA
429800 TTATAAT
1 TTATAAT
429807 TTATAAT
1 TTATAAT
429814 TTATAAT
1 TTATAAT
*
429821 ATA-AAT
1 TTATAAT
*
429827 ATATAAT
1 TTATAAT
429834 TTATAAT
1 TTATAAT
429841 AACAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TTATAAT
Found at i:429833 original size:20 final size:20
Alignment explanation
Indices: 429808--429852 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
429798 AATTATAATT
429808 TATAATTTATAATATA-AATA
1 TATAATTTATAATA-ACAATA
429828 TATAATTTATAATAACAATA
1 TATAATTTATAATAACAATA
429848 TATAA
1 TATAA
429853 AATTACCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAATTTATAATAACAATA
Found at i:430529 original size:22 final size:25
Alignment explanation
Indices: 430504--430554 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 25
430494 ATTATATATT
430504 TATTATATTT-TA-ATT-ATTTTTA
1 TATTATATTTATACATTAATTTTTA
430526 TATTATATTTATATCATTAATTTTTA
1 TATTATATTTATA-CATTAATTTTTA
430552 TAT
1 TAT
430555 CCATTATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.40
23 2 0.08
25 3 0.12
26 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTATATTTATACATTAATTTTTA
Found at i:430537 original size:17 final size:17
Alignment explanation
Indices: 430475--430537 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
430465 ATATGCATAT
*
430475 TTAT-TTTATTTTTTATG
1 TTATATTTA-TTTTTATA
*
430492 TTATTATATATTTATTATA
1 TTA-TATTTATTT-TTATA
* *
430511 TTTTAATTATTTTTATA
1 TTATATTTATTTTTATA
430528 TTATATTTAT
1 TTATATTTAT
430538 ATCATTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 16 0.44
18 11 0.31
19 9 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATATTTATTTTTATA
Found at i:430539 original size:11 final size:10
Alignment explanation
Indices: 430492--430535 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
430482 ATTTTTTATG
430492 TTATTATATAT
1 TTATTATAT-T
430503 TTATTATATT
1 TTATTATATT
*
430513 TTAATTATTTT
1 TT-ATTATATT
430524 TATATTATATT
1 T-TATTATATT
430535 T
1 T
430536 ATATCATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 3 0.10
11 25 0.86
12 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATTATATT
Found at i:431011 original size:2 final size:2
Alignment explanation
Indices: 430950--430993 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
430940 ATTGTACATT
*
430950 TA TA TA TA TA TA T- TA TA TA -A TA TA TA -A TA TA AA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
430988 TA TA TA
1 TA TA TA
430994 GTTTGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 32 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:432533 original size:32 final size:32
Alignment explanation
Indices: 432489--432605 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 32
432479 TTGATATTCA
* *
432489 TCATAAAATTAATAAATATTAGATATAATTA-
1 TCATAAATTTAATAAATATTAGACATAATTAC
* *
432520 TACATAAATTTAATGAGTATTAGACATAATTAC
1 T-CATAAATTTAATAAATATTAGACATAATTAC
* *
432553 TCATAAATTTAATAAATATTACACAAAATTAC
1 TCATAAATTTAATAAATATTAGACATAATTAC
* *
432585 TCATAAATTTGATAATTATTA
1 TCATAAATTTAATAAATATTA
432606 AAATGTTTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
31 1 0.01
32 72 0.97
33 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (32 bp):
TCATAAATTTAATAAATATTAGACATAATTAC
Found at i:432962 original size:30 final size:30
Alignment explanation
Indices: 432910--432995 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
432900 ATAAGTACTC
* * * * **
432910 AATTTTTAATTTACACTCAAATAAGTTTAT
1 AATTTTTAATTTATATTTAAATAAATAAAT
*
432940 AATTTTTAATTTGTATTTAAATAAATAAAT
1 AATTTTTAATTTATATTTAAATAAATAAAT
432970 AATTTTTAATTTATATTTAAATAAAT
1 AATTTTTAATTTATATTTAAATAAAT
432996 TTTAAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (30 bp):
AATTTTTAATTTATATTTAAATAAATAAAT
Found at i:433024 original size:17 final size:17
Alignment explanation
Indices: 433004--433038 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
432994 ATTTTAAAAA
* *
433004 TAAAATAATATTTTATT
1 TAAAATAAAAGTTTATT
433021 TAAAATAAAAGTTTATT
1 TAAAATAAAAGTTTATT
433038 T
1 T
433039 GAATATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAAAATAAAAGTTTATT
Found at i:435096 original size:10 final size:10
Alignment explanation
Indices: 435074--435107 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
435064 AGTGTCTAGC
435074 TGTTTTTGC-
1 TGTTTTTGCT
435083 TGTTTTTGCT
1 TGTTTTTGCT
*
435093 TGTTGTTGCT
1 TGTTTTTGCT
435103 TGTTT
1 TGTTT
435108 GCTGCTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.00, C:0.09, G:0.24, T:0.68
Consensus pattern (10 bp):
TGTTTTTGCT
Found at i:435237 original size:10 final size:11
Alignment explanation
Indices: 435211--435241 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
435201 CTTGTTGCTA
435211 TTTTGTTTCTG
1 TTTTGTTTCTG
435222 TTTTGTTTCT-
1 TTTTGTTTCTG
435232 TTTTGTTTCT
1 TTTTGTTTCT
435242 ACTGTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.10, G:0.13, T:0.77
Consensus pattern (11 bp):
TTTTGTTTCTG
Found at i:436891 original size:79 final size:78
Alignment explanation
Indices: 436786--436963 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 78
436776 TTTGGAGATA
* * * * * *
436786 AAAATGAGGTTGGAGTATCCCCTCAGAAATAACGAGG-TTGGAGTATTCCCGATGGTGGAAAATC
1 AAAATGGGGTTGGAGTATCCCCTCAGAAATAAAG-GGCTTGGAGTATCCCCAATGATGAAAAATC
*
436850 GGTGTTTTAGAAAT
65 GGTGTTTCAGAAAT
* *
436864 AAAACTGGGGTTGGAGTGTCCCTTCAGAAATAAAGGGCTTGGAGTATCCCCAATGATGAAAAATC
1 AAAA-TGGGGTTGGAGTATCCCCTCAGAAATAAAGGGCTTGGAGTATCCCCAATGATGAAAAATC
436929 GGTGTTTCAGAAAT
65 GGTGTTTCAGAAAT
*
436943 AAAATCGGGGTTAGAGTATCC
1 AAAAT-GGGGTTGGAGTATCC
436964 TCGATGGTGA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 7 0.08
79 79 0.92
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (78 bp):
AAAATGGGGTTGGAGTATCCCCTCAGAAATAAAGGGCTTGGAGTATCCCCAATGATGAAAAATCG
GTGTTTCAGAAAT
Found at i:436975 original size:51 final size:50
Alignment explanation
Indices: 436905--437049 Score: 137
Period size: 51 Copynumber: 2.8 Consensus size: 50
436895 AAAGGGCTTG
* * * * * *
436905 GAGTATCCCCAATGATGAAAAATCGGTGTTTCAGAAATAAAATCGGGGTTA
1 GAGTATCCTCGATGGTGAAAAATCGGT-TTTTAGAAATAAAACCGGGGTCA
* * * * *
436956 GAGTATCCTCGATGGTGAAAAATTGATTTTTTGAAAATAAAACCGTGGTCG
1 GAGTATCCTCGATGGTGAAAAATCGGTTTTTAG-AAATAAAACCGGGGTCA
* * *
437007 GAGTATCCTCGATTGTGGAAAATCAGTATTTTAGAAATAAAAC
1 GAGTATCCTCGATGGTGAAAAATCGGT-TTTTAGAAATAAAAC
437050 ATCAATAAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
50 4 0.05
51 66 0.88
52 5 0.07
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (50 bp):
GAGTATCCTCGATGGTGAAAAATCGGTTTTTAGAAATAAAACCGGGGTCA
Found at i:439409 original size:24 final size:24
Alignment explanation
Indices: 439377--439424 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
439367 CATTGAGAAA
439377 TGTATCGATACATTTGGGTAAAAC
1 TGTATCGATACATTTGGGTAAAAC
439401 TGTATCGATACATTTGGGTAAAAC
1 TGTATCGATACATTTGGGTAAAAC
439425 CTAGAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (24 bp):
TGTATCGATACATTTGGGTAAAAC
Found at i:439511 original size:50 final size:50
Alignment explanation
Indices: 439401--439512 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
439391 TGGGTAAAAC
* * *
439401 TGTATCGATACATTTGGGTAAAACCTAGAATGTACCGATACAATGAATAA
1 TGTATCGATACATCTGGGTAAAACCCAGAATGTACCGATACAATGAAGAA
* **
439451 TGTAGCGATACATCTGGGTAAAACCCAGAATGTATTGATACAATGAAGAA
1 TGTATCGATACATCTGGGTAAAACCCAGAATGTACCGATACAATGAAGAA
*
439501 TGTATTGATACA
1 TGTATCGATACA
439513 AATTGTGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (50 bp):
TGTATCGATACATCTGGGTAAAACCCAGAATGTACCGATACAATGAAGAA
Found at i:440754 original size:42 final size:42
Alignment explanation
Indices: 440705--441521 Score: 320
Period size: 42 Copynumber: 19.5 Consensus size: 42
440695 TGAAAAAGTT
* * *
440705 TCCAGGGTCACAGCCGTCAGGCAGACTTGAGATGGGGTAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * * **
440747 TCTAGGGTCAAAGCCGACAGGCAGAC-TGAGGGTAAGAAAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGA-GATGAGGTAGTC
* * * *
440789 TACAGGGTCGAAGCCGACAAGCAGACTTGAGGTGAGGTAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * *
440831 TCCAAGGTCAAAGCTGACAGGCATACTTGAGATGAGGTAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * **
440873 TCCA-GTTCAAAGCCGACAGGCAGAC-TGA-AGGTAGAAAAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATG-AG-GTAGTC
* * * *
440914 TCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAGGCAATC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
** * * * * * * * * ** *
440956 TTGATGGTCAAAGTCGACAAGCAGAATGGGGGTAAGAAAGCC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
** * * * * *
440998 TCCAAAGTCAAAGCTGACAGGCAGGCTTGAGGTTAGGCAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * * * * *** *
441040 TCCAAGGTCAAAGCTGATAGGCAGAC-TGAAGGTAAAAAAATC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTG-AGATGAGGTAGTC
* * * * * * ** *
441082 TCTAGGGTCAAAGCTGATAGGTAGGCTTGAGGTGAGACAATC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* ** * * **
441124 TCCAAGGTCAAAGCTAACAGGCAGAC-TGAGGGTAAGAAAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGA-GATGAGGTAGTC
* ** * * * * *
441166 TCCAAGGTCAAAATCAACAGGCAAACTTGAGGTTAGGCAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * * * ** *
441208 TCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGTAAGAAAGTT
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGA-GATGAGGTAGTC
* * * ** * * *
441250 TCCAGGTTCAAAGTCGATAAACAAACTTGAGGTGAGGCAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
** * * * * * ** *
441292 TTTAAGGTCAAAGCCGACAGGTAGGC-TGAAGGTAAGAAAGCC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTG-AGATGAGGTAGTC
* ** * * * *
441334 TCCAAGGTCAAAGCCGGTAGGCAGACTTGAGGTAATGCAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
** * * * **
441376 TTTAGGGTCAAAGCCGACAGACA-AATTGAGAATAAGAAAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAG-ATGAGGTAGTC
* * * * ** * * **
441418 TCTAGGGTTAGAGCCGACAGACAGACTAAAGGTAAGAAAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
* * * **
441460 TCTAGGGTCAAAGTCGACAGGCAGACTTGAGGTGAGACAGTC
1 TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
*
441502 TCTAGGGTCAAAGCCGACAG
1 TCCAGGGTCAAAGCCGACAG
441522 ATAAACTGAA
Statistics
Matches: 590, Mismatches: 168, Indels: 34
0.74 0.21 0.04
Matches are distributed among these distances:
39 2 0.00
40 5 0.01
41 44 0.07
42 517 0.88
43 20 0.03
44 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (42 bp):
TCCAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAGTC
Found at i:441522 original size:84 final size:84
Alignment explanation
Indices: 440699--441573 Score: 563
Period size: 84 Copynumber: 10.4 Consensus size: 84
440689 AAAAGTTGAA
* * * * * ** ** * *
440699 AAAGTTTCCAGGGTCACAGCCGTCAGGCAGACTTGAGATGGGGTAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
440764 CAGGCAGAC-TGAGGGTAAG
66 CAGGCAGACTTGA-GGTAAG
* * * * * ** *
440783 AAAGTCTACAGGGTCGAAGCCGACAAGCAGACTTGAGGTGAGGTAGTCTCCAAGGTCAAAGCTGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
* * *
440848 CAGGCATACTTGAGATGAG
66 CAGGCAGACTTGAGGTAAG
** *
440867 GTAGTCTCC-AGTTCAAAGCCGACAGGCAGAC-TGAAGGT-AGAAAAGTCTCCAAGGTCAAAGCC
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTG-AGGTAAG-AAAGTCTCCAAGGTCAAAGCC
* * *
440929 GACAGGCAGACTTAAGATGAGG
64 GACAGGCAGACTTGAGGT-AAG
* ** * * * * * * * * *
440951 CAA-TCTTGATGGTCAAAGTCGACAAGCAGAATGGGGGTAAGAAAGCCTCCAAAGTCAAAGCTGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
* *
441015 CAGGCAGGCTTGAGGTTAG
66 CAGGCAGACTTGAGGTAAG
** * * * * * * *
441034 GCAGTCTCCAAGGTCAAAGCTGATAGGCAGAC-TGAAGGTAAAAAAATCTCTAGGGTCAAAGCTG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTG-AGGTAAGAAAGTCTCCAAGGTCAAAGCCG
* * * *
441098 ATAGGTAGGCTTGAGGTGAG
65 ACAGGCAGACTTGAGGTAAG
** **
441118 ACAA-TCTCCAAGGTCAAAGCTAACAGGCAGAC-TGAGGGTAAGAAAGTCTCCAAGGTCAAAATC
1 A-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCCAAGGTCAAAGCC
* * *
441181 AACAGGCAAACTTGAGGTTAG
64 GACAGGCAGACTTGAGGTAAG
** * * *
441202 GCAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGTAAGAAAGTTTCC-AGGTTCAAAGTC
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GGTAAGAAAGTCTCCAAGG-TCAAAGCC
* ** * *
441265 GATAAACAAACTTGAGGTGAG
64 GACAGGCAGACTTGAGGTAAG
** ** * * *
441286 GCAGTCTTTAAGGTCAAAGCCGACAGGTAGGC-TGAAGGTAAGAAAGCCTCCAAGGTCAAAGCCG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTG-AGGTAAGAAAGTCTCCAAGGTCAAAGCCG
**
441350 GTAGGCAGACTTGAGGTAATG
65 ACAGGCAGACTTGAGGTAA-G
* ** * * * * * * * *
441371 -CAGTCTTTAGGGTCAAAGCCGACAGACA-AATTGAGAATAAGAAAGTCTCTAGGGTTAGAGCCG
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAG-GTAAGAAAGTCTCCAAGGTCAAAGCCG
* **
441434 ACAGACAGACTAAAGGTAAG
65 ACAGGCAGACTTGAGGTAAG
* * * * * * *
441454 AAAGTCTCTAGGGTCAAAGTCGACAGGCAGACTTGAGGTGAGACAGTCTCTAGGGTCAAAGCCGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
** * *
441519 CAGATAAAC-TGAAGGTAAA
66 CAGGCAGACTTG-AGGTAAG
* *
441538 AAAATCTCCAAGGTCAAAGCCGATAGGCAGACTTGA
1 AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA
441574 AATGAGGCAG
Statistics
Matches: 624, Mismatches: 146, Indels: 42
0.77 0.18 0.05
Matches are distributed among these distances:
82 4 0.01
83 70 0.11
84 532 0.85
85 18 0.03
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (84 bp):
AAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGGTAAGAAAGTCTCCAAGGTCAAAGCCGA
CAGGCAGACTTGAGGTAAG
Found at i:441840 original size:44 final size:44
Alignment explanation
Indices: 441708--441851 Score: 124
Period size: 44 Copynumber: 3.4 Consensus size: 44
441698 TAGAATGGTT
* * * *
441708 TAACTAGGGTGGTAACCATACATTAAA-CAGAAAG-GAAGAGGATT
1 TAACTAGGGTGGTAACCACACATTAAATCAGAATGAGAA-A-AATC
* * * *
441752 TGACTAGGGTGGTAA-C-CAGA-T--GTCA-AATGAAAAAAATC
1 TAACTAGGGTGGTAACCACACATTAAATCAGAATGAGAAAAATC
*
441790 TGACTAGGGTGGTAACCACACATTAAATCAGAATGAGAAAAATC
1 TAACTAGGGTGGTAACCACACATTAAATCAGAATGAGAAAAATC
*
441834 TAACTAGGGTAGTAACCA
1 TAACTAGGGTGGTAACCA
441852 TATGTCAAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
38 17 0.22
39 5 0.06
40 7 0.09
41 2 0.03
42 2 0.03
43 4 0.05
44 42 0.53
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (44 bp):
TAACTAGGGTGGTAACCACACATTAAATCAGAATGAGAAAAATC
Found at i:448786 original size:19 final size:19
Alignment explanation
Indices: 448762--448824 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
448752 AAATAGTAAA
448762 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
448781 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
448794 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
448813 TGTATCGATACA
1 TGTATCGATACA
448825 ATGTATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:448799 original size:13 final size:13
Alignment explanation
Indices: 448781--448805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
448771 ACATAAGTGT
448781 TGTATCGATACAA
1 TGTATCGATACAA
448794 TGTATCGATACA
1 TGTATCGATACA
448806 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:448801 original size:32 final size:32
Alignment explanation
Indices: 448760--448831 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
448750 ACAAATAGTA
448760 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
448792 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
448824 AATGTATC
1 AATGTATC
448832 ACTACAAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:453974 original size:17 final size:17
Alignment explanation
Indices: 453952--454007 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
453942 ATTTCATATT
453952 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
453969 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
* * *
453986 TTTATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
454003 TTTTT
1 TTTTT
454008 TACCTAACTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:453997 original size:20 final size:20
Alignment explanation
Indices: 453972--454009 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
453962 TTTTTTCTTT
453972 TTCTTTCTTTCTTCTTTATC
1 TTCTTTCTTTCTTCTTTATC
*
453992 TTCTTTCTTTCTTTTTTA
1 TTCTTTCTTTCTTCTTTA
454010 CCTAACTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTCTTTCTTCTTTATC
Found at i:455294 original size:32 final size:32
Alignment explanation
Indices: 455245--455811 Score: 876
Period size: 32 Copynumber: 17.8 Consensus size: 32
455235 AAAATGGTGA
* * *
455245 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
455277 TTTTAAATGGGTTGCCACTGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455309 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455341 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
455373 TTTGGAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
455405 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455437 TTTGAAATGGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
455469 TTTGAAATGGGTTGCCACCG---TGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
455498 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
455530 TCTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455562 TTTGAAATGGGTTGTCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
455594 TTTGGAATGGGTTGCCACCGACTTGTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455626 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
455658 TTTGAAAAT-GGTTGCCATCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
455690 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
455722 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
455754 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
455786 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
455812 GGTTTTAAAA
Statistics
Matches: 493, Mismatches: 35, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
29 28 0.06
31 21 0.04
32 437 0.89
33 7 0.01
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:455910 original size:55 final size:54
Alignment explanation
Indices: 455794--457287 Score: 2069
Period size: 55 Copynumber: 27.5 Consensus size: 54
455784 GCTTTGAAAT
* ** * * *
455794 GGGTGCCACAGAGTTGTGGGTTTTAAAAGAGTGCCACGGAATTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAA
* * * *
455850 AGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
* *
455905 GGGTGCCACGGAGTTGTTGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
455960 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
* ** *
456015 GGGTACCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456069 GGGATGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGAACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
456124 GGGTGCCACATAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * **
456178 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCATGGAGTTGCAGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
*
456233 GGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456287 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456341 GGGTGCCACGGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** *
456396 GATATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456451 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
456506 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * *
456560 GAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT---A
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456612 ---TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
456663 GGGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGAGGACTTAATA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
456717 GGGTGCCACAGAGTTGTGGGCTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * * *
456772 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
456827 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
456882 GGATGCCACGAAGTTGTGGACTT---A---TGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
456930 GGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
456984 GGGATGCCACAGAGTTGTGGATTTAAAAGGGATGCCATGGAGTTGTGGATTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
457040 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
457095 GGGTGCCCCGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
457149 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCCCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * *
457204 GAATGCCACGGAGTTATGGACTTTAAAAGGATGCCAC-GACGTTGTGGACTCTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA-GTTGTGGACT-TAAAA
* *
457260 GGGTGCCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG
457288 AGGTCACTAT
Statistics
Matches: 1286, Mismatches: 122, Indels: 61
0.88 0.08 0.04
Matches are distributed among these distances:
48 54 0.04
49 35 0.03
51 2 0.00
52 2 0.00
54 452 0.35
55 613 0.48
56 128 0.10
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (54 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:455919 original size:27 final size:27
Alignment explanation
Indices: 455794--457287 Score: 2069
Period size: 27 Copynumber: 55.0 Consensus size: 27
455784 GCTTTGAAAT
* **
455794 GGGTGCCACAGAGTTGTGGGTTTTAAAA
1 GGGTGCCACGGAGTTGT-GGACTTAAAA
* * *
455822 GAGTGCCACGGAATTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
455850 AGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
455877 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
455905 GGGTGCCACGGAGTTGTTGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
455932 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
455960 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
455987 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* **
456015 GGGTACCACAAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456042 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456069 GGGATGCCACGGAGTTGTGGTCTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
456097 GGGTGCCACGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
456124 GGGTGCCACATAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456151 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
456178 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* **
456205 GGGATGCCATGGAGTTGCAGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
456233 GGGTGCCACGGAGTTGTGGACTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456260 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456287 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
456314 GGGTGCCATGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456341 GGGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
456369 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
456396 GATATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
456424 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456451 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456478 GGGATGCCATGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
456506 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456533 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
456560 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
456588 GGATGCCACGAAGTTGTGGACTT---A
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456612 ---TGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456636 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456663 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
456690 GGGTGCCACGGAGTTGAGGACTTAATA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
456717 GGGTGCCACAGAGTTGTGGGCTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456744 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
456772 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
456799 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
456827 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456854 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
456882 GGATGCCACGAAGTTGTGGACTT---A
1 GGGTGCCACGGAGTTGTGGACTTAAAA
456906 ---TGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456930 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
456957 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
456984 GGGATGCCACAGAGTTGTGGATTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
457012 GGGATGCCATGGAGTTGTGGATTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
457040 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
457067 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
457095 GGGTGCCCCGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
457122 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
457149 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
457177 GGGTGCCCCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
457204 GAATGCCACGGAGTTATGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
457232 GGATGCCAC-GACGTTGTGGACTCTAAAA
1 GGGTGCCACGGA-GTTGTGGACT-TAAAA
* *
457260 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
457287 G
1 G
457288 AGGTCACTAT
Statistics
Matches: 1311, Mismatches: 123, Indels: 65
0.87 0.08 0.04
Matches are distributed among these distances:
21 37 0.03
24 4 0.00
27 793 0.60
28 475 0.36
29 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:455950 original size:82 final size:81
Alignment explanation
Indices: 455794--457287 Score: 2069
Period size: 82 Copynumber: 18.3 Consensus size: 81
455784 GCTTTGAAAT
* ** * * * *
455794 GGGTGCCACAGAGTTGTGGGTTTTAAAAGAGTGCCACGGAATTGTGGATTTTAAAAAGGTGCCAC
1 GGGTGCCACGGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
*
455859 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * * *
455877 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTTGACTAAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
455942 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * * *
455960 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTACCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
456025 AAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
456042 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
456107 GAGTTGTGAACTTAAAA
65 GAGTTGTGGACTTAAAA
** * *
456124 GGGTGCCACATAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
456189 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* ** *
456205 GGGATGCCATGGAGTTGCAGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
456270 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
456287 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
456352 AGTTGTGGATTTTAAAA
66 AGTTGTGGA-CTTAAAA
* ** *
456369 GGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
456434 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
456451 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
456516 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** *
456533 GGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
456598 AAGTTGTGGACTT---A
65 GAGTTGTGGACTTAAAA
* *
456612 ---TGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
456674 AGTTGTGGATTTAAAA
66 AGTTGTGGACTTAAAA
* * * * *
456690 GGGTGCCACGGAGTTGAGGACTTAATAGGGTGCCACAGAGTTGTGGGCTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
456755 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * * *
456772 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
456837 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
456854 GGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT---A---TGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
456913 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
456930 GGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGATGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
*
456995 GAGTTGTGGATTTAAAA
65 GAGTTGTGGACTTAAAA
* *
457012 GGGATGCCATGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
457077 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* *
457095 GGGTGCCCCGGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
457160 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* ** * *
457177 GGGTGCCCCGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTATGGACTTTAAAAGGATGCCAC-
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
457241 GACGTTGTGGACTCTAAAA
65 GA-GTTGTGGACT-TAAAA
* *
457260 GGGTGCCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG
457288 AGGTCACTAT
Statistics
Matches: 1262, Mismatches: 119, Indels: 60
0.88 0.08 0.04
Matches are distributed among these distances:
75 54 0.04
76 85 0.07
78 2 0.00
79 2 0.00
81 198 0.16
82 634 0.50
83 274 0.22
84 13 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:456616 original size:21 final size:21
Alignment explanation
Indices: 456590--456632 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
456580 CTTTAAAAGG
*
456590 ATGCCACGAAGTTGTGGACTT
1 ATGCCACGAAGTTATGGACTT
*
456611 ATGCCACGGAGTTATGGACTT
1 ATGCCACGAAGTTATGGACTT
456632 A
1 A
456633 AAAGGGTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (21 bp):
ATGCCACGAAGTTATGGACTT
Found at i:458321 original size:12 final size:11
Alignment explanation
Indices: 458304--458337 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
458294 GGGTGAAAAA
458304 GTTTTTTTTTT
1 GTTTTTTTTTT
*
458315 GGTTTTTTTTT
1 GTTTTTTTTTT
458326 GTTTTTGTTTTT
1 GTTTTT-TTTTT
458338 TTTAGGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:458330 original size:17 final size:15
Alignment explanation
Indices: 458305--458340 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
458295 GGTGAAAAAG
*
458305 TTTTTTTTTTGGTTT
1 TTTTTTTTTTTGTTT
458320 TTTTTTGTTTTTGTTT
1 TTTTTT-TTTTTGTTT
458336 TTTTT
1 TTTTT
458341 AGGATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTTGTTT
Found at i:458650 original size:31 final size:30
Alignment explanation
Indices: 458603--458666 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
458593 GTTGTTTCCT
* *
458603 TTTTTATTTTGCTTTTGCACTTTTTCTTTTCA
1 TTTTTATTGTGCTTTTG-ACTTTTT-TTGTCA
458635 TTTTT-TTGTGCTTTTGACTTTTTTTGTCA
1 TTTTTATTGTGCTTTTGACTTTTTTTGTCA
458664 TTT
1 TTT
458667 AAAGGGAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 10 0.33
32 5 0.17
ACGTcount: A:0.08, C:0.12, G:0.09, T:0.70
Consensus pattern (30 bp):
TTTTTATTGTGCTTTTGACTTTTTTTGTCA
Found at i:458656 original size:29 final size:32
Alignment explanation
Indices: 458603--458666 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 32
458593 GTTGTTTCCT
*
458603 TTTTTATTTTGCTTTTGCACTTTTTCTTT-TCA
1 TTTTTATTGTGCTTTTGCACTTTTT-TTTGTCA
458635 TTTTT-TTGTGCTTTTG-AC-TTTTTTTGTCA
1 TTTTTATTGTGCTTTTGCACTTTTTTTTGTCA
458664 TTT
1 TTT
458667 AAAGGGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 10 0.33
30 2 0.07
31 10 0.33
32 5 0.17
ACGTcount: A:0.08, C:0.12, G:0.09, T:0.70
Consensus pattern (32 bp):
TTTTTATTGTGCTTTTGCACTTTTTTTTGTCA
Found at i:465041 original size:17 final size:17
Alignment explanation
Indices: 465019--465067 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
465009 ATTTCATATT
* *
465019 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
465036 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
**
465053 TTCATC-TTCTTTCTT
1 TTTTTCTTTCTTTCTT
465068 TGTTTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:478762 original size:48 final size:48
Alignment explanation
Indices: 478701--478832 Score: 183
Period size: 48 Copynumber: 2.8 Consensus size: 48
478691 AGAGGAGTGC
* * *
478701 CAATGTGCCAATTCAAGGCTAGCGACATCGAGCTAAAGGAAAAGTAGA
1 CAATGTGCTAATTCAAGGCTAGTGACATTGAGCTAAAGGAAAAGTAGA
* * * *
478749 CAATGTGCTAATTCAAGGCCAATGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTAATTCAAGGCTAGTGACATTGAGCTAAAGGAAAAGTAGA
* *
478797 TAATGTGCTGATTCAAGGCTAGTGACATTGAGCTAA
1 CAATGTGCTAATTCAAGGCTAGTGACATTGAGCTAA
478833 TAAAGGTGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (48 bp):
CAATGTGCTAATTCAAGGCTAGTGACATTGAGCTAAAGGAAAAGTAGA
Found at i:479016 original size:28 final size:29
Alignment explanation
Indices: 478980--479103 Score: 164
Period size: 28 Copynumber: 4.3 Consensus size: 29
478970 CATCGACTTG
478980 TGTGGGCTTT-AAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
479008 TTTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
479036 TGTGGGCTTTGAAAA-GATGCCACTGATT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** *
479064 TGTGTAGATTTTGAGAAGGATGCCACTGACT
1 TGTG--GGCTTTGAAAAGGATGCCACTGACT
479095 TGTGGGCTT
1 TGTGGGCTT
479104 GGGCTTAGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
28 52 0.63
29 6 0.07
30 8 0.10
31 16 0.20
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:479099 original size:59 final size:56
Alignment explanation
Indices: 478980--479103 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 56
478970 CATCGACTTG
*
478980 TGTGGGCTTTAAAAGGATGCCACTGACTTTTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTTTGGACTTTGAAAGGATGCCACTGACT
*
479036 TGTGGGCTTTGAAAA-GATGCCACTGA-TTTGTGTAGATTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTT-TG--GACTTTGA-AAGGATGCCACTGACT
479095 TGTGGGCTT
1 TGTGGGCTT
479104 GGGCTTAGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
55 3 0.05
56 23 0.38
57 4 0.07
58 6 0.10
59 25 0.41
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGGATGCCACTGACTTTTGGACTTTGAAAGGATGCCACTGACT
Found at i:479149 original size:27 final size:27
Alignment explanation
Indices: 479119--479246 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
479109 TAGTGCCATA
479119 GAGTTGTGGACTTAAAAGGTTGCCACG
1 GAGTTGTGGACTTAAAAGGTTGCCACG
479146 GAGTTGTGGACTTTAAAAGGTTGCCACG
1 GAGTTGTGGAC-TTAAAAGGTTGCCACG
* * * *
479174 AAGCTATGGACTTAAAA-GTGTGTCACG
1 GAGTTGTGGACTTAAAAGGT-TGCCACG
* *
479201 AAGTTGTGGACTTAAAACGG-TGCCACA
1 GAGTTGTGGACTTAAAA-GGTTGCCACG
479228 GAGTTGTGGACTTAAAAGG
1 GAGTTGTGGACTTAAAAGG
479247 AATACCACAG
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
26 4 0.05
27 59 0.67
28 24 0.27
29 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGTTGCCACG
Found at i:479171 original size:55 final size:54
Alignment explanation
Indices: 479111--479246 Score: 161
Period size: 55 Copynumber: 2.5 Consensus size: 54
479101 CTTGGGCTTA
*
479111 GTGCCATAGAGTTGTGGACTTAAAAGGT-TGCCACGGAGTTGTGGACTTTAAAA-G
1 GTGCCA-AGAGTTGTGGACTTAAAAGGTGTGCCACGAAGTTGTGGAC-TTAAAACG
* * * *
479165 GTTGCCACGAAGCTATGGACTTAAAA-GTGTGTCACGAAGTTGTGGACTTAAAACG
1 G-TGCCAAG-AGTTGTGGACTTAAAAGGTGTGCCACGAAGTTGTGGACTTAAAACG
479220 GTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCA-AGAGTTGTGGACTTAAAAGG
479247 AATACCACAG
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
54 29 0.43
55 39 0.57
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (54 bp):
GTGCCAAGAGTTGTGGACTTAAAAGGTGTGCCACGAAGTTGTGGACTTAAAACG
Found at i:484666 original size:8 final size:9
Alignment explanation
Indices: 484645--484678 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
484635 GACGAATACG
484645 TTTTTTAGA
1 TTTTTTAGA
484654 TTTTTTAGA
1 TTTTTTAGA
484663 TTTTTTAGA
1 TTTTTTAGA
484672 TTTTTTA
1 TTTTTTA
484679 AAAAACGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (9 bp):
TTTTTTAGA
Found at i:484916 original size:13 final size:13
Alignment explanation
Indices: 484898--484922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
484888 CATAAAGTGT
484898 TGTATCGATACAA
1 TGTATCGATACAA
484911 TGTATCGATACA
1 TGTATCGATACA
484923 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:484933 original size:32 final size:33
Alignment explanation
Indices: 484878--484943 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
484868 TTCAACGATT
484878 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
484911 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
484943 T
1 T
484944 TTAAGCTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:485060 original size:52 final size:52
Alignment explanation
Indices: 485017--485145 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
485007 CACTGATCTT
* *
485017 TGTATTGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
485069 TGTATCGATACGTGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
485121 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
485146 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.