Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold726
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: 990522
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.25
Warning! 295012 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:842404 original size:20 final size:21
Alignment explanation
Indices: 842309--842404 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
842299 ATAATTAATG
842309 AATTTATTTTATAT-TTATAT
1 AATTTATTTTATATATTATAT
* *
842329 ATTTTTATATTATA-ATTATATTT
1 A-ATTTATTTTATATATTATA--T
**
842352 AAAATATTTTATAT-TTATAT
1 AATTTATTTTATATATTATAT
*
842372 AA-AT-TTTTATATATTA-AT
1 AATTTATTTTATATATTATAT
842390 AATTTATTTTATATA
1 AATTTATTTTATATA
842405 AATTTTAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
18 12 0.20
19 6 0.10
20 13 0.21
21 15 0.25
22 13 0.21
23 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTATTTTATATATTATAT
Found at i:843508 original size:13 final size:13
Alignment explanation
Indices: 843480--843513 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
843470 AAAATATAAA
843480 AATT-ATTTTTAT
1 AATTAATTTTTAT
843492 -ATTAATTTTTAT
1 AATTAATTTTTAT
843504 AATTAATTTT
1 AATTAATTTT
843514 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTAATTTTTAT
Found at i:847753 original size:24 final size:24
Alignment explanation
Indices: 847720--847771 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
847710 AAACACAATC
847720 TGCTTAATGAATTTTACATTGATT
1 TGCTTAATGAATTTTACATTGATT
*
847744 TGCTTTATGAATTTTACATTGATT
1 TGCTTAATGAATTTTACATTGATT
847768 TGCT
1 TGCT
847772 CCGGATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (24 bp):
TGCTTAATGAATTTTACATTGATT
Found at i:847901 original size:21 final size:22
Alignment explanation
Indices: 847858--847906 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
847848 CATCCCATCA
847858 TCTTTTAAAATTATTATTTTAT
1 TCTTTTAAAATTATTATTTTAT
847880 T-TTTTAAAA-TATT-TTATATAT
1 TCTTTTAAAATTATTATT-T-TAT
847901 TCTTTT
1 TCTTTT
847907 TATATATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 12 0.50
22 5 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TCTTTTAAAATTATTATTTTAT
Found at i:852289 original size:2 final size:2
Alignment explanation
Indices: 852282--852317 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
852272 GTTGGTTACA
* *
852282 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
852318 GGATATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:854776 original size:41 final size:40
Alignment explanation
Indices: 854704--854781 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
854694 AGACTCCTCC
*
854704 GAAAAGGAAGCTTATGGTCAATACCATATTCTGATTCTCT
1 GAAAAGGAAGCTTACGGTCAATACCATATTCTGATTCTCT
* *
854744 GAAAAGGAAGCTTAGCGGTCAGTGCCATATTCTGATTC
1 GAAAAGGAAGCTTA-CGGTCAATACCATATTCTGATTC
854782 GTCTTTCACC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 14 0.41
41 20 0.59
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (40 bp):
GAAAAGGAAGCTTACGGTCAATACCATATTCTGATTCTCT
Found at i:857509 original size:14 final size:14
Alignment explanation
Indices: 857481--857526 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
857471 TTTATATTCA
*
857481 ATAAATATT-TAAT
1 ATAAATTTTATAAT
857494 ATAAATTTTATAAT
1 ATAAATTTTATAAT
857508 AT-AATTTTATAAAT
1 ATAAATTTTAT-AAT
857522 ATAAA
1 ATAAA
857527 AAATTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 16 0.55
14 11 0.38
15 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAAATTTTATAAT
Found at i:865824 original size:2 final size:2
Alignment explanation
Indices: 865817--865847 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
865807 AATCTTGTTC
865817 TA TA 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 TA TA T
865848 TAGAGCCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:866198 original size:23 final size:26
Alignment explanation
Indices: 866154--866201 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
866144 TATATATATA
866154 TATATATATATTTCATTCATAATTTTT
1 TATATATATATTT-ATTCATAATTTTT
866181 TATATATA-ATTT-TT-ATAATTT
1 TATATATATATTTATTCATAATTT
866202 ATGAGTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 2 0.10
26 4 0.19
27 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATATATATTTATTCATAATTTTT
Found at i:869032 original size:13 final size:13
Alignment explanation
Indices: 869010--869042 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
869000 TTTAATATTT
869010 TAAAAA-ATTAAA
1 TAAAAATATTAAA
*
869022 TAAAAATATTAAT
1 TAAAAATATTAAA
869035 TAAAAATA
1 TAAAAATA
869043 AATTTAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAAATATTAAA
Found at i:869035 original size:17 final size:15
Alignment explanation
Indices: 869015--869058 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
869005 TATTTTAAAA
869015 AATTAAATAAAAATATT
1 AATTAAA-AAAAAT-TT
869032 AATTAAAAATAAATTT
1 AATTAAAAA-AAATTT
*
869048 AAGTAAAAAAA
1 AATTAAAAAAA
869059 TAAAATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
AATTAAAAAAAATTT
Found at i:870373 original size:16 final size:16
Alignment explanation
Indices: 870352--870384 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
870342 TTTAATTTAA
870352 ATTTAAAATATTAATT
1 ATTTAAAATATTAATT
870368 ATTTAAAATATTAATT
1 ATTTAAAATATTAATT
870384 A
1 A
870385 ATAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAAAATATTAATT
Found at i:871324 original size:21 final size:21
Alignment explanation
Indices: 871263--871324 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
871253 AATTTAAATT
*
871263 AATATTAATAATTAAAAATTATTTA
1 AATATTAAT-A-T-AAAA-TATATA
871288 AAT-TTAATTATAAAATATATA
1 AATATTAA-TATAAAATATATA
871309 AATATTAATATAAAAT
1 AATATTAATATAAAAT
871325 TAATTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 16 0.47
22 8 0.24
23 1 0.03
24 5 0.15
25 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTAATATAAAATATATA
Found at i:871867 original size:78 final size:78
Alignment explanation
Indices: 871722--871872 Score: 180
Period size: 78 Copynumber: 1.9 Consensus size: 78
871712 ACCACTTTTT
* *
871722 ATTGAATTCAAGTTTATATAAAAAAAGATATCCTCATGAGCGTCAGACTATTTAAACTATCATTT
1 ATTGAATTCAAGTTTATATAAAAAAACATATCCTCATGAGCGTCAAACTATTTAAACTATCATTT
*
871787 TTTTAGCACTTTG
66 TTTAAGCACTTTG
* * * * * * *
871800 ATTGAATTCAAGTTTATATATATATATCATAT-TTCATGAGTGTCAAACTACTTTAAACTGTTA-
1 ATTGAATTCAAGTTTATATA-AAAAAACATATCCTCATGAGCGTCAAACTA-TTTAAACTATCAT
871863 TTTTTAAGCA
64 TTTTTAAGCA
871873 ATATTATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
78 44 0.72
79 17 0.28
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (78 bp):
ATTGAATTCAAGTTTATATAAAAAAACATATCCTCATGAGCGTCAAACTATTTAAACTATCATTT
TTTAAGCACTTTG
Found at i:875319 original size:15 final size:15
Alignment explanation
Indices: 875299--875328 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
875289 TGAATTGTAT
875299 TTTAATTTTAATTAA
1 TTTAATTTTAATTAA
*
875314 TTTAATTTTATTTAA
1 TTTAATTTTAATTAA
875329 ATTATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATTTTAATTAA
Found at i:875339 original size:16 final size:16
Alignment explanation
Indices: 875320--875363 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
875310 TTAATTTAAT
875320 TTTATTTAAATTATTA
1 TTTATTTAAATTATTA
* *
875336 TTTA-ATAAATAAATTA
1 TTTATTTAAAT-TATTA
875352 TTTATTTAAATT
1 TTTATTTAAATT
875364 TAATTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATTTAAATTATTA
Found at i:875961 original size:2 final size:2
Alignment explanation
Indices: 875954--875993 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
875944 TCCTCAAATG
* * *
875954 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AG GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
875994 TCTCTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:877063 original size:5 final size:5
Alignment explanation
Indices: 877042--877077 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
877032 AGGCACTTGT
877042 TTTTAA TTTTAA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
877078 TGTCAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:877700 original size:2 final size:2
Alignment explanation
Indices: 877693--877739 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
877683 AAGAAAGCAA
* * *
877693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
877735 AT AT A
1 AT AT A
877740 ACCCAAAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:880322 original size:24 final size:23
Alignment explanation
Indices: 880277--880323 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
880267 TATATTTTTT
*
880277 AATAAAAAATATTACAATTTAAA
1 AATAAAAAATATTACAACTTAAA
880300 AATAAAAAA-ATTACATTACTTAAA
1 AATAAAAAATATTACA--ACTTAAA
880324 TTTAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAAAAATATTACAACTTAAA
Found at i:882778 original size:27 final size:30
Alignment explanation
Indices: 882721--882782 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 30
882711 TTTCATTATT
*
882721 TTTTTAATTTTATTTTTTGACATAAATATAA
1 TTTTTAA-TTTATTATTTGACATAAATATAA
882752 TTTTTAA-TTATTATTT-ACAT-AATATAA
1 TTTTTAATTTATTATTTGACATAAATATAA
882779 TTTT
1 TTTT
882783 AATATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 11 0.37
28 4 0.13
29 8 0.27
31 7 0.23
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTAATTTATTATTTGACATAAATATAA
Found at i:885389 original size:19 final size:19
Alignment explanation
Indices: 885348--885392 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
885338 GTACAATTAG
** *
885348 ATTTATTTATAGATTAAATA
1 ATTTA-TTATAGACAAAAAA
885368 ATTTATTATAGACAAAAAA
1 ATTTATTATAGACAAAAAA
885387 ATTTAT
1 ATTTAT
885393 AATTTAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTTATTATAGACAAAAAA
Found at i:890404 original size:2 final size:2
Alignment explanation
Indices: 890399--890431 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
890389 AAAAAAAGAC
890399 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
890432 AGAAAAACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:899041 original size:3 final size:3
Alignment explanation
Indices: 899033--899060 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
899023 ATCTTACTCC
899033 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
899061 GATTAACCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:899372 original size:12 final size:14
Alignment explanation
Indices: 899351--899407 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 14
899341 TAAAATATAA
899351 AATT-TATTTTT-T
1 AATTATATTTTTAT
899363 -ATTATATTTTTAT
1 AATTATATTTTTAT
*
899376 AATTAAATTTTTA-
1 AATTATATTTTTAT
*
899389 AA-AATATTTTTATT
1 AATTATATTTTTA-T
899403 AATTA
1 AATTA
899408 AATATTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
11 3 0.09
12 15 0.43
13 3 0.09
14 13 0.37
15 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTATATTTTTAT
Found at i:899722 original size:21 final size:21
Alignment explanation
Indices: 899670--899724 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
899660 ATAATAGTAA
* *
899670 TAATGAAATTAATTATTATAT
1 TAATGAAATTAAATGTTATAT
*
899691 TGATGAAATTAAATGTTATAT
1 TAATGAAATTAAATGTTATAT
899712 TAAT-AATATTAAA
1 TAATGAA-ATTAAA
899725 AATTTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
TAATGAAATTAAATGTTATAT
Found at i:900250 original size:53 final size:53
Alignment explanation
Indices: 900148--900250 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
900138 TCATTTTAAG
* * * * *
900148 TTCAAATTATTTTAATTTTGAATTAATCAAGTTTAAAATTAAGACTAATCGTA
1 TTCAAATTATTATAATTTAGAATCAATCAAATTTAAAATTAAAACTAATCGTA
* *
900201 TTCAAATTATTATAAGTTTAG-ATCAATCAAATTTAACATTAAAATTAATC
1 TTCAAATTATTATAA-TTTAGAATCAATCAAATTTAAAATTAAAACTAATC
900251 AAATTTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 38 0.90
54 4 0.10
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (53 bp):
TTCAAATTATTATAATTTAGAATCAATCAAATTTAAAATTAAAACTAATCGTA
Found at i:902228 original size:3 final size:3
Alignment explanation
Indices: 902220--902248 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
902210 TTAGAGGAGT
902220 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
902249 GAAAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:906369 original size:2 final size:2
Alignment explanation
Indices: 906362--906406 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
906352 CAAAGAATAA
906362 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
906404 AG A
1 AG A
906407 AATTATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:907733 original size:156 final size:153
Alignment explanation
Indices: 907452--907752 Score: 451
Period size: 156 Copynumber: 1.9 Consensus size: 153
907442 GCAACATAAG
* * *
907452 GAAAGAATAACTGAATTGAAGTAAAACCCATAACATAAAAGTGAGTAAATCACAAAAAAAACTTC
1 GAAAGAATAACTGAATCGAAGTAAAACCCATAACACAAAAGTAAGTAAATCACAAAAAAAACTTC
* *
907517 TTTAAGTAAAAAATGAAAGAGATTTTCTTAAAACCCATAAATTTATACAGATTAAAAATGACATG
66 TTTAAGTAAAAAATGAAAGAGATTTTCTTAAAACCCATAAAGTTACACAGATTAAAAATGACATG
* *
907582 GAAACAGGATAGTGGGAACTTAA
131 CAAACAAGATAGTGGGAACTTAA
** *
907605 GAAAGAATAACTGAATCGAAGTAAAACCCATTGCACAAAAGTAAGTAAATCGCAATAAAAACAAC
1 GAAAGAATAACTGAATCGAAGTAAAACCCATAACACAAAAGTAAGTAAATCAC-A-AAAAA-AAC
* *
907670 TTCTTTAAGTAAAAAATGAAAGAGATTTTCTTCAAAA-TCATGAAGTTACACAGATTAAAAATGA
63 TTCTTTAAGTAAAAAATGAAAGAGATTTTCTT-AAAACCCATAAAGTTACACAGATTAAAAATGA
907734 CATGCAAACAAGATAGTGG
127 CATGCAAACAAGATAGTGG
907753 AGTTTTTACT
Statistics
Matches: 132, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
153 47 0.36
154 1 0.01
155 5 0.04
156 75 0.57
157 4 0.03
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (153 bp):
GAAAGAATAACTGAATCGAAGTAAAACCCATAACACAAAAGTAAGTAAATCACAAAAAAAACTTC
TTTAAGTAAAAAATGAAAGAGATTTTCTTAAAACCCATAAAGTTACACAGATTAAAAATGACATG
CAAACAAGATAGTGGGAACTTAA
Found at i:908772 original size:37 final size:37
Alignment explanation
Indices: 908700--908772 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
908690 ATTATAATAT
* *
908700 AATTAATAATATTTATATTTTATTATTTTATATTTAA
1 AATTAATAATATATATATTTTATTATTTTAAATTTAA
*
908737 AATTAATAA-ATATATTTGTTTATT-TATTTAAATTTA
1 AATTAATAATATATATAT-TTTATTAT-TTTAAATTTA
908773 TTTAGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
AATTAATAATATATATATTTTATTATTTTAAATTTAA
Found at i:909183 original size:17 final size:16
Alignment explanation
Indices: 909159--909190 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
909149 TAATCAAATT
909159 TAAAAAATAAAATAAA
1 TAAAAAATAAAATAAA
909175 TAAATAAATAAAATAA
1 TAAA-AAATAAAATAA
909191 GTGGCATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAATAAAATAAA
Found at i:909389 original size:4 final size:4
Alignment explanation
Indices: 909382--909450 Score: 52
Period size: 4 Copynumber: 17.2 Consensus size: 4
909372 TTATGAATAT
* * * **
909382 TAAA TAAA TATA TAAT TAAA TATA TTTA TAAA T-AA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
*
909429 TATAA TAAA -ATTA TAAA TAAA T
1 TA-AA TAAA TA-AA TAAA TAAA T
909451 GCTTTTCTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
3 4 0.08
4 42 0.82
5 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (4 bp):
TAAA
Found at i:909403 original size:12 final size:12
Alignment explanation
Indices: 909377--909450 Score: 73
Period size: 12 Copynumber: 6.2 Consensus size: 12
909367 TTTATTTATG
909377 AATAT-TAAATA
1 AATATATAAATA
*
909388 AATATATAATTA
1 AATATATAAATA
**
909400 AATATATTTATA
1 AATATATAAATA
909412 AATA-ATAAATA
1 AATATATAAATA
*
909423 AATAAATATAATA
1 AATATATA-AATA
909436 AA-ATTATAAATA
1 AATA-TATAAATA
909448 AAT
1 AAT
909451 GCTTTTCTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 14 0.27
12 28 0.55
13 9 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATATATAAATA
Found at i:909408 original size:35 final size:35
Alignment explanation
Indices: 909352--909426 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
909342 TCGAGTCAAT
* * *
909352 TAAAT-TATAAATTAATTTATTTATGAATATTAAA
1 TAAATATATAAATTAATATATTTATAAATAATAAA
909386 TAAATATAT-AATTAAATATATTTATAAATAATAAA
1 TAAATATATAAATT-AATATATTTATAAATAATAAA
909421 TAAATA
1 TAAATA
909427 AATATAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 9 0.25
35 27 0.75
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (35 bp):
TAAATATATAAATTAATATATTTATAAATAATAAA
Found at i:910315 original size:17 final size:17
Alignment explanation
Indices: 910289--910323 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
910279 CATTATTTAT
910289 AAAATAATAAAATATTA
1 AAAATAATAAAATATTA
*
910306 AAAATTATAAAATATTA
1 AAAATAATAAAATATTA
910323 A
1 A
910324 TATCTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAATAAAATATTA
Found at i:910387 original size:20 final size:20
Alignment explanation
Indices: 910348--910387 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
910338 ATAATTAAAT
*
910348 TTAAATAAAATTTTTTATTA
1 TTAAATAAAATTTTTAATTA
910368 TTAAATAATAA-TTTTAATTA
1 TTAAATAA-AATTTTTAATTA
910388 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAATAAAATTTTTAATTA
Found at i:911478 original size:16 final size:16
Alignment explanation
Indices: 911459--911496 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
911449 TTTATTCGTA
*
911459 TTATATTTTAATTATT
1 TTATATTATAATTATT
*
911475 TTATATTATATTTATT
1 TTATATTATAATTATT
911491 TTATAT
1 TTATAT
911497 AATTATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATTATAATTATT
Found at i:911502 original size:13 final size:13
Alignment explanation
Indices: 911467--911509 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
911457 TATTATATTT
911467 TAATTATTTTATA
1 TAATTATTTTATA
911480 TTATATTTATTTTATA
1 -TA-A-TTATTTTATA
*
911496 TAATTATGTTATA
1 TAATTATTTTATA
911509 T
1 T
911510 TAAATAGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.38
14 3 0.12
15 3 0.12
16 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TAATTATTTTATA
Found at i:912195 original size:32 final size:34
Alignment explanation
Indices: 912118--912195 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 34
912108 GATTCAAACT
* *
912118 TTAAAAATATTTAGTATGTTTATTTAAATAATAA
1 TTAAAAATAATTAGTATGTTTACTTAAATAATAA
* **
912152 TTTAATTTAATTA-TAT-TTTAACTT-AATAATAA
1 TTAAAAATAATTAGTATGTTT-ACTTAAATAATAA
912184 TTAAAAATAATT
1 TTAAAAATAATT
912196 TTATAATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
32 20 0.57
33 6 0.17
34 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (34 bp):
TTAAAAATAATTAGTATGTTTACTTAAATAATAA
Found at i:912213 original size:17 final size:18
Alignment explanation
Indices: 912180--912222 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
912170 TAACTTAATA
912180 ATAATTAAAAATAATTTT
1 ATAATTAAAAATAATTTT
912198 ATAATTAAAAAT-ATTTT
1 ATAATTAAAAATAATTTT
*
912215 AAAATTAA
1 ATAATTAA
912223 TAATTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTAAAAATAATTTT
Found at i:912678 original size:19 final size:19
Alignment explanation
Indices: 912640--912678 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
912630 AATTATATTT
* *
912640 AAAATATTATATTTTTATA
1 AAAATATTATATATTAATA
912659 AAAATATTATATATTAATA
1 AAAATATTATATATTAATA
912678 A
1 A
912679 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATATTATATATTAATA
Found at i:912726 original size:27 final size:27
Alignment explanation
Indices: 912662--912767 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 27
912652 TTTTATAAAA
*
912662 ATATTATATATTAATA-ATTT-T-TATT
1 ATATCATAT-TTAATATATTTATATATT
*
912687 ATAT-AAATTTTAATATATTTATATATTT
1 ATATCATA-TTTAATATATTTATATA-TT
*
912715 ATATCATA-TTAATATTATTTTTATATT
1 ATATCATATTTAATA-TATTTATATATT
*
912742 ATATCATATTTAATTATTTTTATATA
1 ATATCATATTTAA-TATATTTATATA
912768 ATAAACAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
24 8 0.12
25 9 0.13
26 1 0.01
27 18 0.27
28 27 0.40
29 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATCATATTTAATATATTTATATATT
Found at i:912733 original size:28 final size:28
Alignment explanation
Indices: 912695--912767 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
912685 TTATATAAAT
912695 TTTAATA-TATTTATATATTTATATCATA
1 TTTAATATTATTTATATA-TTATATCATA
*
912723 -TTAATATTATTTTTATATTATATCATA
1 TTTAATATTATTTATATATTATATCATA
912750 TTTAATTATT-TTTATATA
1 TTTAA-TATTATTTATATA
912768 ATAAACAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 16 0.40
28 20 0.50
29 4 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAATATTATTTATATATTATATCATA
Found at i:912740 original size:11 final size:11
Alignment explanation
Indices: 912597--912745 Score: 54
Period size: 11 Copynumber: 12.8 Consensus size: 11
912587 AAAATAATAA
912597 ATATTATATTT
1 ATATTATATTT
*
912608 -TTTTAT-TTT
1 ATATTATATTT
* *
912617 AAATTTTATTT
1 ATATTATATTT
912628 ATAATTATATTT
1 AT-ATTATATTT
912640 AAAATATTATATTTTT
1 ---ATATTATA--TTT
**
912656 ATAAAAATATTAT
1 AT-ATTATATT-T
912669 ATATTAATAATTT
1 ATATT-AT-ATTT
* **
912682 TTATTATATAA
1 ATATTATATTT
*
912693 ATTTTAATATATT
1 ATATT-ATAT-TT
912706 -TA-TATATTT
1 ATATTATATTT
* *
912715 ATATCATATTA
1 ATATTATATTT
*
912726 ATATTATTTTT
1 ATATTATATTT
912737 ATATTATAT
1 ATATTATAT
912746 CATATTTAAT
Statistics
Matches: 98, Mismatches: 24, Indels: 32
0.64 0.16 0.21
Matches are distributed among these distances:
9 5 0.05
10 14 0.14
11 31 0.32
12 18 0.18
13 12 0.12
14 13 0.13
15 2 0.02
16 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATATTT
Found at i:913003 original size:3 final size:3
Alignment explanation
Indices: 912995--913021 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
912985 AGCCAGCCTC
912995 CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG
913022 TATTTGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:914753 original size:29 final size:27
Alignment explanation
Indices: 914721--914780 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
914711 GATATATTAT
914721 AAAATAA-ATTTAAATTTAAAAATTTATTC
1 AAAATAATATTTAAATTT---AATTTATTC
914750 AAAA-AATATTTAAATTTAATTTATTC
1 AAAATAATATTTAAATTTAATTTATTC
914776 AAAAT
1 AAAAT
914781 TGATTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 13 0.45
28 2 0.07
29 14 0.48
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATAATATTTAAATTTAATTTATTC
Found at i:914973 original size:15 final size:15
Alignment explanation
Indices: 914955--915011 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
914945 ATAAAATTAA
914955 TTTAAATTTAAAAAT
1 TTTAAATTTAAAAAT
* *
914970 TTTAAATATAAAATT
1 TTTAAATTTAAAAAT
*
914985 ATTTAAA--TAAAAAA
1 -TTTAAATTTAAAAAT
914999 TTTAAATTTAAAA
1 TTTAAATTTAAAA
915012 TAATACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.17
14 5 0.14
15 18 0.51
16 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAAATTTAAAAAT
Found at i:915601 original size:12 final size:13
Alignment explanation
Indices: 915572--915604 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
915562 CGACTCAAAA
*
915572 AAATTTAAATTTT
1 AAATTTAAATTAT
915585 AAATTTAAA-TAT
1 AAATTTAAATTAT
915597 AAATTTAA
1 AAATTTAA
915605 CTCGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTTAAATTAT
Found at i:915684 original size:25 final size:25
Alignment explanation
Indices: 915656--915735 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 25
915646 CTCATTAAAA
915656 ATTTATTTT-ATATTAATAATTATAT
1 ATTTATTTTAAT-TTAATAATTATAT
* *
915681 ATTTTATAATTAAATTTAAATAAATATAT
1 A-TTTAT--TTTAATTT-AATAATTATAT
915710 A-TTATTTTAATTTAA-AATTAT-T
1 ATTTATTTTAATTTAATAATTATAT
915732 ATTT
1 ATTT
915736 CAAGTTAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
22 2 0.04
23 7 0.16
24 2 0.04
25 8 0.18
26 5 0.11
27 4 0.09
28 4 0.09
29 13 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTATTTTAATTTAATAATTATAT
Found at i:916600 original size:15 final size:15
Alignment explanation
Indices: 916580--916611 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
916570 AGCCCATTCC
*
916580 CTCTTCCCTTCCTTT
1 CTCTTCACTTCCTTT
916595 CTCTTCACTTCCTTT
1 CTCTTCACTTCCTTT
916610 CT
1 CT
916612 TTTCTCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
CTCTTCACTTCCTTT
Found at i:923456 original size:24 final size:24
Alignment explanation
Indices: 923412--923468 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
923402 TTATTACAGT
*
923412 TATTATAATTAATTATAATAATATA
1 TATTAT-ATTAATTATAATAATAAA
* *
923437 TATTATATTTATTATTATAATAAA
1 TATTATATTAATTATAATAATAAA
*
923461 TATGATAT
1 TATTATAT
923469 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTATATTAATTATAATAATAAA
Found at i:923994 original size:16 final size:17
Alignment explanation
Indices: 923932--924008 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 17
923922 CTTTTTAATA
923932 TTTTTATTAATATATTAT
1 TTTTTATTAA-ATATTAT
*
923950 TATTTTAATTATTAATATAAAT
1 T-TTTT-ATTA--AATAT-TAT
* *
923972 ATTTTA-TGAATATTAT
1 TTTTTATTAAATATTAT
*
923988 TTTTTATTAAATTTTAT
1 TTTTTATTAAATATTAT
924005 TTTT
1 TTTT
924009 AAATTAATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
16 7 0.15
17 17 0.37
18 1 0.02
19 5 0.11
20 5 0.11
21 8 0.17
22 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTTATTAAATATTAT
Found at i:924065 original size:19 final size:19
Alignment explanation
Indices: 924036--924072 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
924026 AAAGAACAAC
924036 AAAATTTAATTA-AAAATA
1 AAAATTTAATTATAAAATA
924054 AAAATATTAATTATAAAAT
1 AAAAT-TTAATTATAAAAT
924073 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTTAATTATAAAATA
Found at i:924084 original size:15 final size:15
Alignment explanation
Indices: 924036--924086 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
924026 AAAGAACAAC
924036 AAAATTTAATTAAAAAT
1 AAAATTTAATT--AAAT
924053 AAAAATATTAATT--AT
1 -AAAAT-TTAATTAAAT
924068 AAAATTTAATTAAAT
1 AAAATTTAATTAAAT
924083 AAAA
1 AAAA
924087 AATAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 8 0.27
18 5 0.17
19 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATTTAATTAAAT
Found at i:924098 original size:25 final size:28
Alignment explanation
Indices: 924066--924116 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
924056 AATATTAATT
924066 ATAAAATTT-A-ATTAAA-TAAAAAATA
1 ATAAAATTTAATATTAAATTAAAAAATA
924091 ATAAAATTTAATATTAAATTAAAAAA
1 ATAAAATTTAATATTAAATTAAAAAA
924117 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 1 0.04
27 6 0.26
28 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAAAATTTAATATTAAATTAAAAAATA
Found at i:927185 original size:2 final size:2
Alignment explanation
Indices: 927178--927234 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
927168 GATACAAGTT
927178 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
927220 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
927235 GTCTTTTAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:929407 original size:13 final size:13
Alignment explanation
Indices: 929389--929414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
929379 TTTTTTTTTT
929389 CCTTCTTCTTCGA
1 CCTTCTTCTTCGA
929402 CCTTCTTCTTCGA
1 CCTTCTTCTTCGA
929415 TCTTTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTCTTCTTCGA
Found at i:929473 original size:3 final size:3
Alignment explanation
Indices: 929455--929494 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
929445 GGTTTTTATG
* *
929455 AAT AAA AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
929495 GGTCTCCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:936387 original size:10 final size:11
Alignment explanation
Indices: 936367--936391 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
936357 ATTATAATAC
936367 TTTTTATTTTT
1 TTTTTATTTTT
936378 TTTTTATTTTT
1 TTTTTATTTTT
936389 TTT
1 TTT
936392 CCTTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:936792 original size:16 final size:16
Alignment explanation
Indices: 936773--936805 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
936763 TAATTTTTAA
936773 TTTTATATTACGTTAT
1 TTTTATATTACGTTAT
*
936789 TTTTATATTATGTTAT
1 TTTTATATTACGTTAT
936805 T
1 T
936806 ATTTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTATATTACGTTAT
Found at i:940166 original size:34 final size:34
Alignment explanation
Indices: 940127--940332 Score: 292
Period size: 34 Copynumber: 6.4 Consensus size: 34
940117 ATATACATGT
*
940127 TAACACACCTAACATTCTCACAAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
940161 TAACACACCTAACATTCTCACC-TA-ACA-CACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
940192 T---A-A-C--A--TTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
940217 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
940251 TAACACACCTAACATTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
940285 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
940319 TAACACACCTAACA
1 TAACACACCTAACA
940333 AAGAAATTAA
Statistics
Matches: 154, Mismatches: 6, Indels: 24
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.05
23 1 0.01
24 4 0.03
25 5 0.03
26 1 0.01
27 1 0.01
28 2 0.01
29 1 0.01
30 1 0.01
31 5 0.03
32 4 0.03
33 1 0.01
34 120 0.78
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:940184 original size:22 final size:22
Alignment explanation
Indices: 940156--940279 Score: 107
Period size: 22 Copynumber: 5.5 Consensus size: 22
940146 ACAAAATACA
940156 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
940178 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
940200 TCACCAAACACATCACCTAACA---
1 TCACC-TA-ACA-CACCTAACATTC
*
940222 -CACCTAACATTCTCACC-AA-ATAC
1 TCACCTAACA----CACCTAACATTC
940245 ATCACCTAACACACCTAACATTC
1 -TCACCTAACACACCTAACATTC
*
940268 TCACCAAACACA
1 TCACCTAACACA
940280 TCACCTAACA
Statistics
Matches: 85, Mismatches: 4, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
19 3 0.04
20 2 0.02
21 10 0.12
22 45 0.53
23 4 0.05
24 3 0.04
25 18 0.21
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:940251 original size:25 final size:23
Alignment explanation
Indices: 940132--940324 Score: 83
Period size: 22 Copynumber: 8.4 Consensus size: 23
940122 CATGTTAACA
*
940132 CACCTAACATTCTCACAAAATACAT
1 CACCTAACA--CTCACCAAATACAT
*
940157 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
*
940179 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
* *
940201 CACCAAACACATCACC-TA-ACA-
1 CACCTAACAC-TCACCAAATACAT
940222 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
*
940247 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
* *
940269 CACCAAACACATCACC-TA-ACA-
1 CACCTAACAC-TCACCAAATACAT
940290 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
940315 CACCTAACAC
1 CACCTAACAC
940325 ACCTAACAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 46
0.69 0.07 0.24
Matches are distributed among these distances:
21 25 0.19
22 56 0.42
23 11 0.08
24 6 0.05
25 35 0.26
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (23 bp):
CACCTAACACTCACCAAATACAT
Found at i:945056 original size:22 final size:22
Alignment explanation
Indices: 945029--945084 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
945019 ACCAAATACA
*
945029 TCACCTAGCACACCTAACATTC
1 TCACCTAACACACCTAACATTC
945051 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
945073 TCACCAAACACA
1 TCACCTAACACA
945085 TCACCTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.20
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:945086 original size:56 final size:57
Alignment explanation
Indices: 945000--945129 Score: 208
Period size: 56 Copynumber: 2.3 Consensus size: 57
944990 ATATACATGT
* *
945000 TAACACACCTAACATTCTCACCAAATACATCACCTAGCACACCTAACATTCTCACC-
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCA
945056 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCA
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCA
*
945113 AATACATCACCTAACAT
1 TA-ACA-CACCTAACAT
945130 ACCTAACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
56 54 0.79
57 1 0.01
58 3 0.04
59 10 0.15
ACGTcount: A:0.40, C:0.38, G:0.01, T:0.21
Consensus pattern (57 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCA
Found at i:945090 original size:34 final size:34
Alignment explanation
Indices: 945051--945137 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
945041 CCTAACATTC
945051 TCACCTAACACACCTAACATTCTCACCAAACACA
1 TCACCTAACACACCTAACATTCTCACCAAACACA
*
945085 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAACACA
*
945119 TCACCTAACATACCTAACA
1 TCACCTAACACACCTAACA
945138 AAGAAATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (34 bp):
TCACCTAACACACCTAACATTCTCACCAAACACA
Found at i:945135 original size:9 final size:10
Alignment explanation
Indices: 945026--945137 Score: 52
Period size: 9 Copynumber: 10.3 Consensus size: 10
945016 CTCACCAAAT
945026 ACATCACCTA
1 ACATCACCTA
*
945036 GCA-CACCTA
1 ACATCACCTA
945045 ACATTCTCACCTA
1 ACA---TCACCTA
945058 ACA-CACCTA
1 ACATCACCTA
*
945067 ACATTCTCACCAAA
1 ACA---TCACC-TA
945081 CACATCACCTA
1 -ACATCACCTA
945092 ACA-CACCTA
1 ACATCACCTA
*
945101 ACATTCTCACCAAA
1 ACA---TCACC-TA
945115 TACATCACCTA
1 -ACATCACCTA
945126 ACAT-ACCTA
1 ACATCACCTA
945135 ACA
1 ACA
945138 AAGAAATTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 33
0.67 0.05 0.28
Matches are distributed among these distances:
9 34 0.43
10 9 0.11
11 2 0.03
12 10 0.12
13 17 0.21
14 2 0.03
15 6 0.08
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.20
Consensus pattern (10 bp):
ACATCACCTA
Found at i:947099 original size:21 final size:21
Alignment explanation
Indices: 947074--947113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
947064 TTTACCTATA
* *
947074 ATTATATTATAAAATATAAAT
1 ATTATAATATAAAACATAAAT
947095 ATTATAATATAAAACATAA
1 ATTATAATATAAAACATAA
947114 TTCTGGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATAATATAAAACATAAAT
Found at i:948056 original size:2 final size:2
Alignment explanation
Indices: 948049--948086 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
948039 TTATTCACAC
948049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
948087 ACTTTTTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:950559 original size:15 final size:15
Alignment explanation
Indices: 950539--950581 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
950529 ATTATTAATT
950539 TAATTAATGCAATAA
1 TAATTAATGCAATAA
950554 TAATTATTAATGCAATAA
1 T-A--ATTAATGCAATAA
*
950572 TAATCAATGC
1 TAATTAATGC
950582 CAAAGTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 1 0.04
18 14 0.58
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (15 bp):
TAATTAATGCAATAA
Found at i:950564 original size:18 final size:18
Alignment explanation
Indices: 950541--950575 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
950531 TATTAATTTA
950541 ATTAATGCAATAATAATT
1 ATTAATGCAATAATAATT
950559 ATTAATGCAATAATAAT
1 ATTAATGCAATAATAAT
950576 CAATGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
ATTAATGCAATAATAATT
Found at i:955667 original size:34 final size:34
Alignment explanation
Indices: 955629--955764 Score: 263
Period size: 34 Copynumber: 4.0 Consensus size: 34
955619 TTTTGTTAAG
955629 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
955663 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
955697 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
955731 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
955765 GAATGTTAGG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 101 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:955739 original size:68 final size:68
Alignment explanation
Indices: 955629--955883 Score: 358
Period size: 68 Copynumber: 3.9 Consensus size: 68
955619 TTTTGTTAAG
955629 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
955694 TGA
66 TGA
*
955697 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTAGG
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
955762 TGA
66 TGA
*
955765 -GAATGTTAGGT--G--TGTTA-G-GTG--A-----TGTATTTGGTGAGAATGTTAGGTGTGTTA
1 TGTAT-TT-GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
955816 GGTGA
64 GGTGA
* *
955821 TGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
955884 ACATGTATAT
Statistics
Matches: 165, Mismatches: 6, Indels: 32
0.81 0.03 0.16
Matches are distributed among these distances:
55 3 0.02
56 34 0.21
57 3 0.02
59 5 0.03
60 1 0.01
61 4 0.02
63 4 0.02
64 1 0.01
65 5 0.03
67 4 0.02
68 98 0.59
69 3 0.02
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (68 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
TGA
Found at i:955763 original size:22 final size:22
Alignment explanation
Indices: 955731--955854 Score: 116
Period size: 22 Copynumber: 5.5 Consensus size: 22
955721 TGTTAGGTGA
*
955731 TGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
955753 TGTGTTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
*
955775 TGTGTTAGGTGATGTAT-TT-GG
1 TGTGTTAGGTGA-GAATGTTAGG
955796 TGAGAATGTTAGGT--G--TGTTAGGTG
1 T--G--TGTTAGGTGAGAATGTTA-G-G
955820 ATGTGTTAGGTGAGAATGTTAGG
1 -TGTGTTAGGTGAGAATGTTAGG
955843 TGTGTTAGGTGA
1 TGTGTTAGGTGA
955855 TGTATTTGGT
Statistics
Matches: 86, Mismatches: 2, Indels: 28
0.74 0.02 0.24
Matches are distributed among these distances:
20 1 0.01
21 13 0.15
22 48 0.56
23 8 0.09
24 2 0.02
25 14 0.16
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:955775 original size:90 final size:90
Alignment explanation
Indices: 955670--955854 Score: 361
Period size: 90 Copynumber: 2.1 Consensus size: 90
955660 TGATGTATTT
955670 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
*
955735 TTTGGTGAGAATGTTAGGTGTGTTA
66 TTAGGTGAGAATGTTAGGTGTGTTA
955760 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
955825 TTAGGTGAGAATGTTAGGTGTGTTA
66 TTAGGTGAGAATGTTAGGTGTGTTA
955850 GGTGA
1 GGTGA
955855 TGTATTTGGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.39
Consensus pattern (90 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
TTAGGTGAGAATGTTAGGTGTGTTA
Found at i:955802 original size:34 final size:34
Alignment explanation
Indices: 955760--955883 Score: 230
Period size: 34 Copynumber: 3.6 Consensus size: 34
955750 AGGTGTGTTA
955760 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
* *
955794 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
955828 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
955862 GGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTA
955884 ACATGTATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 86 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:955842 original size:124 final size:124
Alignment explanation
Indices: 955622--955883 Score: 470
Period size: 124 Copynumber: 2.1 Consensus size: 124
955612 TTAATTTTTT
* * *
955622 TGTTAAGTGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
* *
955687 TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAA
66 TGTTAGGTGATGTATTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
955746 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
*
955811 TGTTAGGTGATGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
66 TGTTAGGTGATGTATTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
955870 TGTTAGGTGTGTTA
1 TGTTAGGTGTGTTA
955884 ACATGTATAT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 132 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.41
Consensus pattern (124 bp):
TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
TGTTAGGTGATGTATTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
Found at i:955854 original size:56 final size:52
Alignment explanation
Indices: 955704--955854 Score: 169
Period size: 56 Copynumber: 2.7 Consensus size: 52
955694 TGATGTATTT
955704 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAG-ATGTTAGGTGTGTTA-G-G-TGTGTTTGGTGAGAATGTTAGGTGTGTTA
955760 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAG-ATGTTAGGTGTGTTAGGTG-TG--TTTGGTGAGAATGTTAGGTGTGTTA
*
955816 GGTGATG-TGTTAGGTGAGAATGTTAGGTGTGTTAGGTGA
1 GGTGA-GATGTTAGGT--G--TGTTAGGTGTGTTTGGTGA
955855 TGTATTTGGT
Statistics
Matches: 86, Mismatches: 1, Indels: 16
0.83 0.01 0.16
Matches are distributed among these distances:
53 2 0.02
54 3 0.03
55 9 0.10
56 59 0.69
57 2 0.02
58 2 0.02
59 9 0.10
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (52 bp):
GGTGAGATGTTAGGTGTGTTAGGTGTGTTTGGTGAGAATGTTAGGTGTGTTA
Found at i:960595 original size:34 final size:34
Alignment explanation
Indices: 960557--960692 Score: 254
Period size: 34 Copynumber: 4.0 Consensus size: 34
960547 CTTTGTTAAG
960557 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
960591 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
960625 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
960659 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
960693 GAATGTTAGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 99 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:960667 original size:68 final size:68
Alignment explanation
Indices: 960557--960811 Score: 349
Period size: 68 Copynumber: 3.9 Consensus size: 68
960547 CTTTGTTAAG
*
960557 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
960622 TGA
66 TGA
*
960625 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTAGG
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
960690 TGA
66 TGA
*
960693 -GAATGTTAGGT--G--TGTTA-G-GTG---A----TGTATTTGGTGAGAATGTTAGGTGTGTTA
1 TGTAT-TT-GGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
960744 GGTGA
64 GGTGA
* *
960749 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
960812 ACATGTATAT
Statistics
Matches: 164, Mismatches: 7, Indels: 32
0.81 0.03 0.16
Matches are distributed among these distances:
55 3 0.02
56 35 0.21
57 3 0.02
59 5 0.03
60 2 0.01
61 3 0.02
63 3 0.02
64 1 0.01
65 5 0.03
67 4 0.02
68 97 0.59
69 3 0.02
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.41
Consensus pattern (68 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGG
TGA
Found at i:960685 original size:22 final size:22
Alignment explanation
Indices: 960659--960782 Score: 107
Period size: 22 Copynumber: 5.5 Consensus size: 22
960649 TGTTAAGTGA
*
960659 TGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
960681 TGTGTTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
*
960703 TGTGTTAGGTGATGTAT-TT-GG
1 TGTGTTAGGTGA-GAATGTTAGG
960724 TGAGAATGTTAGGT--G--TGTTAGGTG
1 T--G--TGTTAGGTGAGAATGTTA-G-G
*
960748 ATGTGTTTGGTGAGAATGTTAGG
1 -TGTGTTAGGTGAGAATGTTAGG
960771 TGTGTTAGGTGA
1 TGTGTTAGGTGA
960783 TGTATTTGGT
Statistics
Matches: 84, Mismatches: 4, Indels: 28
0.72 0.03 0.24
Matches are distributed among these distances:
20 1 0.01
21 12 0.14
22 47 0.56
23 8 0.10
24 2 0.02
25 14 0.17
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:960705 original size:56 final size:56
Alignment explanation
Indices: 960632--960748 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
960622 TGATGTATTT
*
960632 GGTGAGAATGTTAGGTGTGTTAAGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
*
960688 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
960744 GGTGA
1 GGTGA
960749 TGTGTTTGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (56 bp):
GGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
Found at i:960707 original size:90 final size:90
Alignment explanation
Indices: 960598--960782 Score: 361
Period size: 90 Copynumber: 2.1 Consensus size: 90
960588 TGATGTATTT
960598 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTG
960663 TTTGGTGAGAATGTTAGGTGTGTTA
66 TTTGGTGAGAATGTTAGGTGTGTTA
*
960688 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTG
960753 TTTGGTGAGAATGTTAGGTGTGTTA
66 TTTGGTGAGAATGTTAGGTGTGTTA
960778 GGTGA
1 GGTGA
960783 TGTATTTGGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 94 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (90 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTG
TTTGGTGAGAATGTTAGGTGTGTTA
Found at i:960730 original size:34 final size:34
Alignment explanation
Indices: 960688--960811 Score: 239
Period size: 34 Copynumber: 3.6 Consensus size: 34
960678 AGGTGTGTTA
960688 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
*
960722 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
960756 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
960790 GGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTA
960812 ACATGTATAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 88 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:960770 original size:124 final size:124
Alignment explanation
Indices: 960550--960811 Score: 470
Period size: 124 Copynumber: 2.1 Consensus size: 124
960540 TTAATTTCTT
* * *
960550 TGTTAAGTGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
*
960615 TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTGTTTGGTGAGAA
66 TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAA
960674 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
* *
960739 TGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
66 TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAA
960798 TGTTAGGTGTGTTA
1 TGTTAGGTGTGTTA
960812 ACATGTATAT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 132 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (124 bp):
TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTG
TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAAGTGATGTATTTGGTGAGAA
Found at i:960802 original size:25 final size:23
Alignment explanation
Indices: 960614--960806 Score: 83
Period size: 22 Copynumber: 8.4 Consensus size: 23
960604 AATGTTAGGT
960614 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
**
960637 GAATGTTAGGTG-TG--TTAAGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* *
960659 TGTGTTTGGTGA-GAATGTTAGGT--
1 -GTGTTAGGTGATGTAT-TT-GGTGA
*
960682 GTGTTAGGTGA-GAATGTTAGGT--
1 GTGTTAGGTGATGTAT-TT-GGTGA
960704 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
*
960727 GAATGTTAGGTG-TG--TTAGGTGA
1 G--TGTTAGGTGATGTATTTGGTGA
* *
960749 TGTGTTTGGTGA-GAATGTTAGGT--
1 -GTGTTAGGTGATGTAT-TT-GGTGA
960772 GTGTTAGGTGATGTATTTGGTGA
1 GTGTTAGGTGATGTATTTGGTGA
960795 GAATGTTAGGTG
1 G--TGTTAGGTG
960807 TGTTAACATG
Statistics
Matches: 134, Mismatches: 12, Indels: 46
0.70 0.06 0.24
Matches are distributed among these distances:
21 24 0.18
22 59 0.44
23 13 0.10
24 6 0.04
25 32 0.24
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.40
Consensus pattern (23 bp):
GTGTTAGGTGATGTATTTGGTGA
Found at i:963298 original size:20 final size:20
Alignment explanation
Indices: 963264--963309 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
963254 AAGAATTGAA
*
963264 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
963284 GAGGGATACTTGAGATGGAG
1 GAGGGATACAAGAGAAGGAG
963304 GAGGGA
1 GAGGGA
963310 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:965179 original size:13 final size:13
Alignment explanation
Indices: 965161--965186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
965151 CAATTTTTTG
965161 TGTATCGATACAT
1 TGTATCGATACAT
965174 TGTATCGATACAT
1 TGTATCGATACAT
965187 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:967752 original size:13 final size:13
Alignment explanation
Indices: 967734--967759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
967724 ATAATCACCC
967734 TGTATCGATACAA
1 TGTATCGATACAA
967747 TGTATCGATACAA
1 TGTATCGATACAA
967760 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:975288 original size:50 final size:51
Alignment explanation
Indices: 975229--975327 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 51
975219 TTTTTTTTTT
*
975229 TTTTCTACTTTCAAGCTATGTTATCTGATTTCGTATGAGTATTAGATATTC
1 TTTTCTACTTTCAAGCTATGTTATCTGATTTCATATGAGTATTAGATATTC
*
975280 TTTT-TACTTTCAAGCTATGTTATCTGATTTTATATGAGTATTAGATAT
1 TTTTCTACTTTCAAGCTATGTTATCTGATTTCATATGAGTATTAGATAT
975328 GATATGTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (51 bp):
TTTTCTACTTTCAAGCTATGTTATCTGATTTCATATGAGTATTAGATATTC
Found at i:980341 original size:15 final size:15
Alignment explanation
Indices: 980321--980356 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
980311 GTTATCGATA
980321 TCATATTAGTATCAT
1 TCATATTAGTATCAT
980336 TCATATTAGTATCAT
1 TCATATTAGTATCAT
980351 TCATAT
1 TCATAT
980357 CGATTGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (15 bp):
TCATATTAGTATCAT
Found at i:980766 original size:2 final size:2
Alignment explanation
Indices: 980759--980789 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
980749 GTTACCTTAA
980759 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
980790 CTTATACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:982110 original size:31 final size:31
Alignment explanation
Indices: 982066--982130 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
982056 TTGTTTTTAA
982066 TTTATGTTTTTGATGGGCTTAAAA-ATTGGG
1 TTTATGTTTTTGATGGGCTTAAAATATTGGG
*
982096 TTTATGTGTTTTGATGGGTTTAAAATATTGGG
1 TTTATGT-TTTTGATGGGCTTAAAATATTGGG
982128 TTT
1 TTT
982131 TGGGGTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 7 0.22
31 16 0.50
32 9 0.28
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.51
Consensus pattern (31 bp):
TTTATGTTTTTGATGGGCTTAAAATATTGGG
Found at i:982324 original size:21 final size:21
Alignment explanation
Indices: 982299--982338 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
982289 TTTACTTATA
*
982299 ATTATAATGTAAAATATAAAT
1 ATTATAATATAAAATATAAAT
982320 ATTATAATATAAAATATAA
1 ATTATAATATAAAATATAA
982339 TTTTGGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTATAATATAAAATATAAAT
Found at i:984466 original size:25 final size:26
Alignment explanation
Indices: 984437--984506 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
984427 AATTTATAAA
**
984437 AATAAATATAAATAATTTTGTTT-TT
1 AATAAATATAAATAATTTAATTTATT
984462 AATAAAT-TAATATAATTTAATTTATT
1 AATAAATATAA-ATAATTTAATTTATT
*
984488 GATAATAATATAAATAATT
1 AAT-A-AATATAAATAATT
984507 AAAAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.08
25 17 0.46
26 4 0.11
27 1 0.03
28 9 0.24
29 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
AATAAATATAAATAATTTAATTTATT
Found at i:984619 original size:50 final size:50
Alignment explanation
Indices: 984561--984655 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
984551 TCTCTGTTTC
984561 TTGCTTTGGCAATTCGATTGATACAAGTCAAGGTCTTCCACTAACCGATT
1 TTGCTTTGGCAATTCGATTGATACAAGTCAAGGTCTTCCACTAACCGATT
984611 TTGCTTTGGCAATTCGATTGATACAAGTCAAGGTCTTCCACTAAC
1 TTGCTTTGGCAATTCGATTGATACAAGTCAAGGTCTTCCACTAAC
984656 TGGTTTCGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (50 bp):
TTGCTTTGGCAATTCGATTGATACAAGTCAAGGTCTTCCACTAACCGATT
Found at i:984841 original size:22 final size:23
Alignment explanation
Indices: 984807--984850 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
984797 ATTAATAATC
*
984807 TGAAATTGATCG-ACTCGAAATT
1 TGAAATTGATCGAACCCGAAATT
984829 TGAAA-TGATTCGAACCCGAAAT
1 TGAAATTGA-TCGAACCCGAAAT
984851 GATTGGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 8 0.42
23 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (23 bp):
TGAAATTGATCGAACCCGAAATT
Found at i:984849 original size:16 final size:16
Alignment explanation
Indices: 984830--984898 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
984820 CTCGAAATTT
984830 GAAATGATTCGAACCC
1 GAAATGATTCGAACCC
* *
984846 GAAATGATTGGAACTC
1 GAAATGATTCGAACCC
* * *
984862 AAAATAATTCGAACTC
1 GAAATGATTCGAACCC
*
984878 GAAATGATTCAAACCC
1 GAAATGATTCGAACCC
984894 GAAAT
1 GAAAT
984899 AACCCGAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (16 bp):
GAAATGATTCGAACCC
Found at i:985711 original size:52 final size:53
Alignment explanation
Indices: 985624--985743 Score: 136
Period size: 53 Copynumber: 2.3 Consensus size: 53
985614 ACCTAAACCT
* **
985624 AAAATGACTTGAA-CTCGATTTAACCCGAATATTAAATTTAATTGA-CCGAATTC
1 AAAATGACCTGAACCT-GA-TTAACCCGAATATTAAATCCAATTGATCCGAATTC
* * * *
985677 AAAATGATCTGAACCTGATTAACCCGAGTGTTAAATCCGATTGATCCGAATTC
1 AAAATGACCTGAACCTGATTAACCCGAATATTAAATCCAATTGATCCGAATTC
*
985730 GAAATGACCTGAAC
1 AAAATGACCTGAAC
985744 TCGAAATGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 21 0.38
53 33 0.59
54 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (53 bp):
AAAATGACCTGAACCTGATTAACCCGAATATTAAATCCAATTGATCCGAATTC
Found at i:985749 original size:16 final size:16
Alignment explanation
Indices: 985718--985782 Score: 87
Period size: 16 Copynumber: 4.1 Consensus size: 16
985708 TAAATCCGAT
*
985718 TGATCCGAATTCGAAA
1 TGATCCGAACTCGAAA
985734 TGA-CCTGAACTCGAAA
1 TGATCC-GAACTCGAAA
*
985750 TGATCCAAACTCGAAA
1 TGATCCGAACTCGAAA
*
985766 TGATCCGAACCCGAAA
1 TGATCCGAACTCGAAA
985782 T
1 T
985783 AACCCAAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.05
16 39 0.91
17 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (16 bp):
TGATCCGAACTCGAAA
Found at i:985764 original size:32 final size:32
Alignment explanation
Indices: 985718--985791 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
985708 TAAATCCGAT
* * *
985718 TGATCCGAATTCGAAATGA-CCTGAACTCGAAA
1 TGATCCAAACTCGAAATGATCC-GAACCCGAAA
985750 TGATCCAAACTCGAAATGATCCGAACCCGAAA
1 TGATCCAAACTCGAAATGATCCGAACCCGAAA
* *
985782 TAACCCAAAC
1 TGATCCAAAC
985792 CTAATAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.18
Consensus pattern (32 bp):
TGATCCAAACTCGAAATGATCCGAACCCGAAA
Found at i:986719 original size:66 final size:66
Alignment explanation
Indices: 986637--986766 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
986627 TTTTTAATAA
* * * *
986637 AGTGACATTATCTGATTAATTGACAGTATATAAA-TCTATATATTATTAATACTTAAAATATAAA
1 AGTGACATTATCTGATTAACTAACAATATATAAAGT-TATATATTATTAATACATAAAATATAAA
986701 AG
65 AG
* * * * * *
986703 AGTGATATTATTTGATTCACTAATAATGTATAAAGTTATATATTATTAATACATCAAATATAAA
1 AGTGACATTATCTGATTAACTAACAATATATAAAGTTATATATTATTAATACATAAAATATAAA
986767 TGTTTGAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (66 bp):
AGTGACATTATCTGATTAACTAACAATATATAAAGTTATATATTATTAATACATAAAATATAAAA
G
Found at i:986997 original size:23 final size:22
Alignment explanation
Indices: 986954--986997 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
986944 ATATAATTTT
*
986954 ATATTTTTACATATAATTATAC
1 ATATTTTTACATATAACTATAC
986976 ATATTTTATA-ATAATAACTATA
1 ATATTTT-TACAT-ATAACTATA
986998 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTTTACATATAACTATAC
Found at i:987530 original size:2 final size:2
Alignment explanation
Indices: 987523--987559 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
987513 AGTCTCATTC
987523 CT CT CT CT CT -T CT CT CT CT CT CT CT GCT CT C- CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT
987560 TCTTTGGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 28 0.88
3 2 0.06
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
CT
Found at i:987543 original size:15 final size:15
Alignment explanation
Indices: 987523--987559 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
987513 AGTCTCATTC
*
987523 CTCTCTCTCTTCTCT
1 CTCTCTCTCTGCTCT
987538 CTCTCTCTCTGCTCT
1 CTCTCTCTCTGCTCT
987553 C-CTCTCT
1 CTCTCTCT
987560 TCTTTGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (15 bp):
CTCTCTCTCTGCTCT
Found at i:989708 original size:13 final size:13
Alignment explanation
Indices: 989690--989719 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
989680 ATGAACGCCC
989690 ATAAATAAGAATA
1 ATAAATAAGAATA
*
989703 ATAAATAATAATA
1 ATAAATAAGAATA
989716 ATAA
1 ATAA
989720 TAACGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
ATAAATAAGAATA
Done.