Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold193
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: 3104049
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 172765 characters in sequence are not A, C, G, or T
File 2 of 18
Found at i:205227 original size:37 final size:35
Alignment explanation
Indices: 205186--205257 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
205176 ATATTATTTA
205186 TATTTT-AAAATATTTTTATATTTTATTATATTCATAT
1 TATTTTGAAAATA-TTTTATATTTTATT-T-TTCATAT
*
205223 TATTTTGATAATATTTTATATTTTATTTTTCATAT
1 TATTTTGAAAATATTTTATATTTTATTTTTCATAT
205258 CATGTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 7 0.21
36 1 0.03
37 20 0.61
38 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (35 bp):
TATTTTGAAAATATTTTATATTTTATTTTTCATAT
Found at i:207879 original size:24 final size:23
Alignment explanation
Indices: 207836--207881 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
207826 CAACAAATAC
*
207836 AATTTTTTTAATTAGGTTTATAA
1 AATTTTTTTAATTAGATTTATAA
*
207859 AATTATTTTTAATTATATTTATA
1 AATT-TTTTTAATTAGATTTATA
207882 TATTAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
AATTTTTTTAATTAGATTTATAA
Found at i:207940 original size:18 final size:18
Alignment explanation
Indices: 207914--207955 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
207904 CAGCAAAAGA
*
207914 ATATAAAATTAATTTATT
1 ATATAAAATCAATTTATT
*
207932 ATATTAAATCAATTTATT
1 ATATAAAATCAATTTATT
*
207950 AAATAA
1 ATATAA
207956 TTTATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAAAATCAATTTATT
Found at i:207959 original size:12 final size:13
Alignment explanation
Indices: 207933--207962 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
207923 TAATTTATTA
207933 TATTAAATCAATT
1 TATTAAATCAATT
207946 TATTAAAT-AATT
1 TATTAAATCAATT
207958 TATTA
1 TATTA
207963 TAAAAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAAATCAATT
Found at i:208545 original size:26 final size:25
Alignment explanation
Indices: 208506--208566 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
208496 CCCAAAATAC
208506 AAAATTACAATTTATATATCTAAAA
1 AAAATTACAATTTATATATCTAAAA
* * * *
208531 TAAACTTACAGTTTATATCTTTAAAA
1 -AAAATTACAATTTATATATCTAAAA
208557 AAAATTACAA
1 AAAATTACAA
208567 AATTAGAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (25 bp):
AAAATTACAATTTATATATCTAAAA
Found at i:210926 original size:2 final size:2
Alignment explanation
Indices: 210906--210957 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
210896 TCTGGACTAG
* * * *
210906 AT AT AT GT AT GT AT GT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210948 AT AT AT AT AT
1 AT AT AT AT AT
210958 GTATTTTGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:212351 original size:25 final size:23
Alignment explanation
Indices: 212323--212372 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
212313 CGGAAAAGTA
*
212323 ATTAAAACATAATATAAAATATAAT
1 ATTAAAAAATAA-AT-AAATATAAT
*
212348 ATTAAAAAATAAATAAATATGAT
1 ATTAAAAAATAAATAAATATAAT
212371 AT
1 AT
212373 GATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 2 0.09
25 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
ATTAAAAAATAAATAAATATAAT
Found at i:212475 original size:32 final size:34
Alignment explanation
Indices: 212432--212508 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 34
212422 TAAATGATAG
* * *
212432 AATATAATAATATTTTAAGATTTATA-TAATATA
1 AATATATTAATATATTAAAATTTATATTAATATA
*
212465 AA-CTATTAATATATTAAAATTTATATTAATATA
1 AATATATTAATATATTAAAATTTATATTAATATA
212498 AATATATTAAT
1 AATATATTAAT
212509 TATGATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 19 0.51
33 11 0.30
34 7 0.19
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (34 bp):
AATATATTAATATATTAAAATTTATATTAATATA
Found at i:213205 original size:62 final size:59
Alignment explanation
Indices: 213053--213237 Score: 187
Period size: 62 Copynumber: 3.0 Consensus size: 59
213043 ATTTTTATAG
* * *
213053 ATGTAATTTATGATGATTTTTATCG-TAAATTGGTGTTTGATGAGCATCAAAATTTT-TTT
1 ATGTAATTTATGTTGATTTTTAT-GATAAATT-GTGTTAGATGAGCATTAAAATTTTATTT
* * *
213112 ATATAATTTTAT-TATTATTTTTATGATAAATTGTTGTTGGATGAGCATTAAAATTTATATTT
1 ATGTAA-TTTATGT-TGATTTTTATGATAAATTG-TGTTAGATGAGCATTAAAATTT-TATTT
* * *
213174 ATGTAAGTTTATGTTGAATTTTATGAAAAATTAGTGTTAGATGAGCATTAAAGTTTGTATTT
1 ATGTAA-TTTATGTTGATTTTTATGATAAATT-GTGTTAGATGAGCATTAAAATTT-TATTT
213236 AT
1 AT
213238 TTTATAAATT
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
59 7 0.07
60 40 0.38
61 1 0.01
62 55 0.52
63 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (59 bp):
ATGTAATTTATGTTGATTTTTATGATAAATTGTGTTAGATGAGCATTAAAATTTTATTT
Found at i:213413 original size:13 final size:13
Alignment explanation
Indices: 213395--213421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
213385 TTCTTTAAAA
213395 TAAATTTAAGTAT
1 TAAATTTAAGTAT
213408 TAAATTTAAGTAT
1 TAAATTTAAGTAT
213421 T
1 T
213422 GAATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TAAATTTAAGTAT
Found at i:214014 original size:21 final size:22
Alignment explanation
Indices: 213959--214020 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
213949 GTTGTCTTGC
*
213959 AAATATAATATAAAAATAATTA
1 AAATATAATATAAAAATATTTA
*
213981 AAATTTAATATAAAAATATTTA
1 AAATATAATATAAAAATATTTA
* *
214003 AAA-ATAAAATAAATATAT
1 AAATATAATATAAAAATAT
214021 AAATATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 12 0.34
22 23 0.66
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATAATATAAAAATATTTA
Found at i:214129 original size:26 final size:24
Alignment explanation
Indices: 214100--214153 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
214090 TATAATATTT
214100 TAAATATAATTATTATATATAAATA-A
1 TAAATA-AA-TATT-TATATAAATATA
*
214126 TAAA-AAATATTTTTATAAATATA
1 TAAATAAATATTTATATAAATATA
214149 TAAAT
1 TAAAT
214154 TATTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 9 0.36
23 9 0.36
24 2 0.08
25 1 0.04
26 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAATAAATATTTATATAAATATA
Found at i:214474 original size:45 final size:43
Alignment explanation
Indices: 214417--214504 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 43
214407 ATTTAATAAT
214417 TAAAAATATTTTA-TTTAAATTTAATTATAAA-AATAAATATTAA
1 TAAAAATATTTTATTTTAAA-TTAATTATAAATAATAAAT-TTAA
* *
214460 TAAAAATATTTTTTATTTTTAATTATTTATAAATAATAAATTTAA
1 TAAAAATA--TTTTATTTTAAATTAATTATAAATAATAAATTTAA
214505 CTTTTTGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 8 0.21
45 19 0.49
46 12 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (43 bp):
TAAAAATATTTTATTTTAAATTAATTATAAATAATAAATTTAA
Found at i:214689 original size:21 final size:21
Alignment explanation
Indices: 214644--214705 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
214634 TAATTATGAG
*
214644 ATTAATTATTATAATAATAAA
1 ATTAAATATTATAATAATAAA
* * *
214665 ATTAAATATTATAATGATTAT
1 ATTAAATATTATAATAATAAA
214686 ATTAAA-A-T-TAATAATAAA
1 ATTAAATATTATAATAATAAA
214704 AT
1 AT
214706 ATTTGTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 9 0.26
19 1 0.03
20 1 0.03
21 23 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAAATATTATAATAATAAA
Found at i:214788 original size:15 final size:15
Alignment explanation
Indices: 214748--214789 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
214738 AATTATAGTA
214748 AAAATATTAC-TATT
1 AAAATATTACATATT
214762 AACAATA-T-CATATT
1 AA-AATATTACATATT
214776 AAAATATTACATAT
1 AAAATATTACATAT
214790 AATCATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
15 9 0.38
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTACATATT
Found at i:214870 original size:37 final size:36
Alignment explanation
Indices: 214827--214901 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 36
214817 ACTTAACAAA
*
214827 ATAATA-TTTAAGTATTTATTT-TATTTTATATATTTTT
1 ATAATATTTTAA-T-TTTATTTATATTTTA-AAATTTTT
214864 ATAATATTTTAATTTTATTTAATATTTTAAAATTTTT
1 ATAATATTTTAATTTTATTT-ATATTTTAAAATTTTT
214901 A
1 A
214902 AAAAATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
36 7 0.21
37 15 0.44
38 12 0.35
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (36 bp):
ATAATATTTTAATTTTATTTATATTTTAAAATTTTT
Found at i:214888 original size:18 final size:19
Alignment explanation
Indices: 214828--214898 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 19
214818 CTTAACAAAA
214828 TAATA-TTTAAGTATTTATT
1 TAATATTTTAA-TATTTATT
214847 T--TATTTTATATATTT-TT
1 TAATATTTTA-ATATTTATT
214864 ATAATATTTTAAT-TTTATT
1 -TAATATTTTAATATTTATT
*
214883 TAATATTTTAAAATTT
1 TAATATTTTAATATTT
214899 TTAAAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
17 4 0.09
18 24 0.55
19 9 0.20
20 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (19 bp):
TAATATTTTAATATTTATT
Found at i:215008 original size:12 final size:11
Alignment explanation
Indices: 214984--215038 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
214974 TATAATTATA
*
214984 TATTTTATTTT
1 TATTTTATATT
214995 TATGTTTATATT
1 TAT-TTTATATT
*
215007 TA-TTTATAAT
1 TATTTTATATT
*
215017 TATATTTAAATT
1 TAT-TTTATATT
215029 TATTTTATAT
1 TATTTTATAT
215039 AATTAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
10 9 0.25
11 9 0.25
12 18 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTTATATT
Found at i:216922 original size:2 final size:2
Alignment explanation
Indices: 216915--216950 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
216905 CCGTGCACGC
216915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
216951 CCTATGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:222624 original size:157 final size:158
Alignment explanation
Indices: 222401--222707 Score: 375
Period size: 157 Copynumber: 1.9 Consensus size: 158
222391 TAGAGATAAC
* * * *
222401 AACGGGGCTGGAGTATCCCCGATTACGAAAAATTGGTGTTCCAGAAATAAAATCGAGGTTGGAGT
1 AACGGGGCTGGAGTATCCCCGATTACGAAAAATCGATGTTCCAGAAATAAAACCGAGGTTGAAGT
* * ** * *
222466 ATCCCCTCGGAAATAATAGGGTTGGAGTATCCCTGATTAT-AAAAATCGATATTTTGAAAATGAA
66 ATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAAAAATAAA
* *
222530 ATCGGGGTTGGAGTATCCCCTCGAAAAT
131 ATCAGAGTTGGAGTATCCCCTCGAAAAT
* * * ** *
222558 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATT-TAGAAATAAGGCCGGGGTTGAAG
1 AACGGGGCTGGAGTATCCCCGATTACGAAAAATCGATG-TTCCAGAAATAAAACCGAGGTTGAAG
* * * * * *
222622 TATCCCTTTGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAAAAATAA
65 TATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAAAAATAA
222687 AATCAGAGTTGGAGTATCCCC
130 AATCAGAGTTGGAGTATCCCC
222708 GATTGTGAAA
Statistics
Matches: 124, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
157 84 0.68
158 40 0.32
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (158 bp):
AACGGGGCTGGAGTATCCCCGATTACGAAAAATCGATGTTCCAGAAATAAAACCGAGGTTGAAGT
ATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAAAAATAAA
ATCAGAGTTGGAGTATCCCCTCGAAAAT
Found at i:222635 original size:79 final size:78
Alignment explanation
Indices: 222401--222707 Score: 332
Period size: 79 Copynumber: 3.9 Consensus size: 78
222391 TAGAGATAAC
* * * * * *
222401 AACGGGGCTGGAGTATCCCCGATTACGAAAAATTGGTG-TTCCAGAAATAAAATCGAGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATT-TAGAAAT-AAATCGGGGTTGGAG
*
222465 TATCCCCTCGGAAAT
64 TATCCCCTCGAAAAT
** * *
222480 AATAGGGTTGGAGTATCCCTGATTAT-AAAAATCGAT-ATTTTGAAAATGAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTTAG-AAAT-AAATCGGGGTTGGAG
222543 TATCCCCTCGAAAAT
64 TATCCCCTCGAAAAT
** *
222558 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTTAGAAATAAGGCCGGGGTTGAAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTTAGAAATAA-ATCGGGGTTGGAGT
* *
222623 ATCCCTTTGAAAAT
65 ATCCCCTCGAAAAT
* * * * * * *
222637 AACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAAAAATAAAATCAGAGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTTAGAAAT-AAATCGGGGTTGGAGT
222702 ATCCCC
65 ATCCCC
222708 GATTGTGAAA
Statistics
Matches: 190, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
77 1 0.01
78 67 0.35
79 115 0.61
80 7 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTTAGAAATAAATCGGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:222705 original size:51 final size:51
Alignment explanation
Indices: 222643--222755 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
222633 AAATAACGGG
*
222643 GTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTAAAAATAAAATCAGA
1 GTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAATCAGA
* * * *
222694 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAGG
1 GTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAATCAGA
222745 GTTGGAGTATC
1 GTTGGAGTATC
222756 TCCTCGGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAATCAGA
Found at i:223017 original size:51 final size:51
Alignment explanation
Indices: 222954--223074 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
222944 AAATAACTGG
* * *
222954 GTTAGAGTATCCCTGATTGT-GAAAAGTCGGTGTTTT-GAAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTATGGAAAA-TAGGTGTTTTAG-AAATAAAATCGGA
*
223005 GTTGGAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCGGA
223056 GTTAGAGTATCCCCGATTA
1 GTTAGAGTATCCCCGATTA
223075 AGAGAAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
51 57 0.90
52 6 0.10
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTAGAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCGGA
Found at i:223090 original size:51 final size:50
Alignment explanation
Indices: 222954--223097 Score: 150
Period size: 51 Copynumber: 2.8 Consensus size: 50
222944 AAATAACTGG
* * *
222954 GTTAGAGTATCCCTGATT--GTGAAAAGTCGGTGTTTTGAAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTAAG-GAAAA-TAGATGTTTTG-AAATAAAATCGGA
* * *
223005 GTTGGAGTATCCCCGATTATGGAAAATAGGTGTTTTAGAAATAAAATCGGA
1 GTTAGAGTATCCCCGATTAAGGAAAATAGATGTTTT-GAAATAAAATCGGA
*
223056 GTTAGAGTATCCCCGATTAA-GAGAAATTGATGTTTTGGAAAT
1 GTTAGAGTATCCCCGATTAAGGA-AAATAGATGTTTT-GAAAT
223098 GAAACCGGGA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.02
51 72 0.89
52 6 0.07
53 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (50 bp):
GTTAGAGTATCCCCGATTAAGGAAAATAGATGTTTTGAAATAAAATCGGA
Found at i:223115 original size:51 final size:51
Alignment explanation
Indices: 222984--223118 Score: 166
Period size: 51 Copynumber: 2.6 Consensus size: 51
222974 GAAAAGTCGG
* * *
222984 TGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATAGG
1 TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATAGA
* * *
223035 TGTTTTAGAAATAAAATCGGAGTTAGAGTATCCCCGATTAA-GAGAAATTGA
1 TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGA-AAATAGA
* *
223086 TGTTTTGGAAATGAAACCGG-GATTGGAGTATCC
1 TGTTTTGGAAATAAAATCGGAG-TTGGAGTATCC
223119 TCGAGATGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
50 3 0.04
51 69 0.96
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (51 bp):
TGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAATAGA
Found at i:234627 original size:16 final size:17
Alignment explanation
Indices: 234598--234632 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
234588 TATAAATTTT
*
234598 ATTTAATTATTTAATAA
1 ATTTAATTAATTAATAA
234615 ATTT-ATTAATTAATAA
1 ATTTAATTAATTAATAA
234631 AT
1 AT
234633 ACTTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTAATTAATAA
Found at i:234893 original size:20 final size:21
Alignment explanation
Indices: 234863--234911 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
234853 ATATTAAAAA
* *
234863 ATTAAAATTTTAATATATTAT
1 ATTATAATTTTAACATATTAT
*
234884 ATT-TAATTTTAACATATTTT
1 ATTATAATTTTAACATATTAT
234904 ATTATAAT
1 ATTATAAT
234912 AGAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATAATTTTAACATATTAT
Found at i:239593 original size:61 final size:61
Alignment explanation
Indices: 239518--239641 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
239508 TGATAGATGG
239518 GTGAACAGAAACAAAAAATAGAATCAAGACTTCGAGGCACGATGAACGCTTTCTTTAGAGA
1 GTGAACAGAAACAAAAAATAGAATCAAGACTTCGAGGCACGATGAACGCTTTCTTTAGAGA
*
239579 GTGAACAGAAACAAAAAATAGAATCAAGACTTCGAGGCACGATGAATGCTTTCTTTAGAGA
1 GTGAACAGAAACAAAAAATAGAATCAAGACTTCGAGGCACGATGAACGCTTTCTTTAGAGA
239640 GT
1 GT
239642 TATTTGTCCC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (61 bp):
GTGAACAGAAACAAAAAATAGAATCAAGACTTCGAGGCACGATGAACGCTTTCTTTAGAGA
Found at i:240328 original size:20 final size:21
Alignment explanation
Indices: 240299--240338 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
240289 AAAATATTAC
240299 TAAAATTTAAA-ATATAAAAAA
1 TAAAATTTAAATA-ATAAAAAA
240320 TAAAA-TTAAATAATAAAAA
1 TAAAATTTAAATAATAAAAA
240339 TTTAGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATTTAAATAATAAAAAA
Found at i:241472 original size:15 final size:15
Alignment explanation
Indices: 241449--241487 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
241439 TATGATTTTT
*
241449 CAAAAAAAATTATAA
1 CAAATAAAATTATAA
241464 CAAATAAAATTATAA
1 CAAATAAAATTATAA
*
241479 TAAATAAAA
1 CAAATAAAA
241488 ATATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (15 bp):
CAAATAAAATTATAA
Found at i:241493 original size:18 final size:17
Alignment explanation
Indices: 241452--241493 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
241442 GATTTTTCAA
241452 AAAAAATTATAACAAAT
1 AAAAAATTATAACAAAT
*
241469 --AAAATTATAATAAAT
1 AAAAAATTATAACAAAT
241484 AAAAATATTA
1 AAAAA-ATTA
241494 ATTTCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 14 0.67
17 3 0.14
18 4 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATTATAACAAAT
Found at i:242314 original size:2 final size:2
Alignment explanation
Indices: 242307--242333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
242297 AGCAAAATAG
242307 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
242334 GTATTGTTTT
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:242976 original size:13 final size:13
Alignment explanation
Indices: 242958--242983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
242948 TACACAAAAT
242958 ATGTATCGATACA
1 ATGTATCGATACA
242971 ATGTATCGATACA
1 ATGTATCGATACA
242984 CAAAAAAATT
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):
ATGTATCGATACA
Found at i:242981 original size:32 final size:34
Alignment explanation
Indices: 242940--243004 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
242930 TCTTGGCAGT
*
242940 TGTATCGATACAC-AAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
242972 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
243005 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
33 5 0.17
34 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:244743 original size:16 final size:17
Alignment explanation
Indices: 244712--244744 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
244702 AGTTTTGCTC
*
244712 AAAGGAGAATCGAGCAA
1 AAAGGACAATCGAGCAA
244729 AAAGGACAA-CGAGCAA
1 AAAGGACAATCGAGCAA
244745 GTAATATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.15, G:0.27, T:0.03
Consensus pattern (17 bp):
AAAGGACAATCGAGCAA
Found at i:245235 original size:21 final size:21
Alignment explanation
Indices: 245202--245251 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
245192 TTGCAAGTTG
*
245202 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
245224 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
245245 AAATAAA
1 AAATAAA
245252 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:247069 original size:15 final size:15
Alignment explanation
Indices: 247049--247079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
247039 TAAAAATGTC
*
247049 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
247064 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
247079 C
1 C
247080 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:248554 original size:20 final size:20
Alignment explanation
Indices: 248529--248569 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
248519 ACCATGGATC
248529 ATATTTCCATAAAATGTGAT
1 ATATTTCCATAAAATGTGAT
248549 ATATTTCCATAAAATGTGAT
1 ATATTTCCATAAAATGTGAT
248569 A
1 A
248570 ATGCTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (20 bp):
ATATTTCCATAAAATGTGAT
Found at i:249204 original size:13 final size:13
Alignment explanation
Indices: 249183--249212 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
249173 TTTTTCTTTG
249183 TACAATGTATCGA
1 TACAATGTATCGA
*
249196 TACACTGTATCGA
1 TACAATGTATCGA
249209 TACA
1 TACA
249213 GGGGGATTAT
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:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:249367 original size:20 final size:20
Alignment explanation
Indices: 249324--249369 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
249314 AAATCTTTTG
249324 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
249345 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
249365 CAAAA
1 CAAAA
249370 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:251777 original size:13 final size:13
Alignment explanation
Indices: 251759--251784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
251749 TACACAAAAT
251759 ATGTATCGATACA
1 ATGTATCGATACA
251772 ATGTATCGATACA
1 ATGTATCGATACA
251785 CAAAAAAATT
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):
ATGTATCGATACA
Found at i:251782 original size:32 final size:34
Alignment explanation
Indices: 251741--251805 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
251731 TAGCCAAACT
*
251741 TGTATCGATACAC-AAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
251773 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
251806 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
33 5 0.17
34 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:257160 original size:16 final size:15
Alignment explanation
Indices: 257141--257187 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
257131 AGGTTTGATA
*
257141 ATTTTAAATTTTAATT
1 ATTTTAAA-TTTAAAT
*
257157 ATTTTAAATATAAAT
1 ATTTTAAATTTAAAT
257172 ATTTTAAAATTTAAAT
1 ATTTT-AAATTTAAAT
257188 CCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTAAATTTAAAT
Found at i:257176 original size:15 final size:16
Alignment explanation
Indices: 257141--257179 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
257131 AGGTTTGATA
* *
257141 ATTTTAAATTTTAATT
1 ATTTTAAATTATAAAT
257157 ATTTTAAA-TATAAAT
1 ATTTTAAATTATAAAT
257172 ATTTTAAA
1 ATTTTAAA
257180 ATTTAAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTAAATTATAAAT
Found at i:259041 original size:20 final size:22
Alignment explanation
Indices: 259018--259063 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
259008 ATATTTGAAA
*
259018 TATTAT-AATTATTA-AAATAT
1 TATTATCAATTAATAGAAATAT
*
259038 TATT-TCAATTAATAGAATTAT
1 TATTATCAATTAATAGAAATAT
259059 TATTA
1 TATTA
259064 AAATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 9 0.43
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATCAATTAATAGAAATAT
Found at i:259219 original size:30 final size:30
Alignment explanation
Indices: 259185--259304 Score: 99
Period size: 30 Copynumber: 4.0 Consensus size: 30
259175 TAAATTATAT
*
259185 TAATATTTTATTA-ATTATTATTAAAATAAA
1 TAATATTATATTATA-TATTATTAAAATAAA
*
259215 TAATATTATATTATATATTATTAAAATATA
1 TAATATTATATTATATATTATTAAAATAAA
* * *
259245 -AAT-TTATATGTTTAATAATATTCAAAATATA
1 TAATATTATAT-TAT-ATATTATT-AAAATAAA
*
259276 -AATATTAAAATTATA-A-TATTAAAATAAA
1 TAATATT-ATATTATATATTATTAAAATAAA
259304 T
1 T
259305 TTATATTAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
28 13 0.17
29 9 0.12
30 34 0.45
31 13 0.17
32 4 0.05
33 3 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TAATATTATATTATATATTATTAAAATAAA
Found at i:259221 original size:15 final size:15
Alignment explanation
Indices: 259203--259301 Score: 80
Period size: 15 Copynumber: 6.7 Consensus size: 15
259193 TATTAATTAT
*
259203 TATTAAAATAAATAA
1 TATTAAAATATATAA
* * *
259218 TATTATATTATATAT
1 TATTAAAATATATAA
259233 TATTAAAATATA-AA
1 TATTAAAATATATAA
** *
259247 T-TTATATGTTTAATAA
1 TATTA-AAATAT-ATAA
259263 TATTCAAAATATA-AA
1 TATT-AAAATATATAA
259278 TATTAAAAT-TATAA
1 TATTAAAATATATAA
259292 TATTAAAATA
1 TATTAAAATA
259302 AATTTATATT
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
13 5 0.08
14 21 0.33
15 28 0.44
16 4 0.06
17 5 0.08
18 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
TATTAAAATATATAA
Found at i:259313 original size:30 final size:29
Alignment explanation
Indices: 259157--259326 Score: 78
Period size: 30 Copynumber: 5.8 Consensus size: 29
259147 AAAATGTTAC
* * *
259157 AATTTATCATTAAAATAATAA-ATTATATTA
1 AATTTAT-ATT-AAATTATAATATTAAAATA
259187 ATATTT-TATT-AATTAT--TATTAAAATA
1 A-ATTTATATTAAATTATAATATTAAAATA
* *
259213 AA-TAATATTATATTATATATTATTAAAATATA
1 AATTTATATTAAATTATA-A-TATT-AAA-ATA
259245 AATTTATATGT---TTAATAATATTCAAAATA
1 AATTTATAT-TAAATT-ATAATATT-AAAATA
259274 TAA---ATATTAAAATTATAATATTAAAATA
1 -AATTTATATT-AAATTATAATATTAAAATA
259302 AATTTATATTAATATT-TCAATATTA
1 AATTTATATTAA-ATTAT-AATATTA
259327 TTTTAATATT
Statistics
Matches: 110, Mismatches: 7, Indels: 46
0.67 0.04 0.28
Matches are distributed among these distances:
24 1 0.01
25 5 0.05
26 14 0.13
27 11 0.10
28 6 0.05
29 17 0.15
30 32 0.29
31 10 0.09
32 8 0.07
33 5 0.05
34 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTTATATTAAATTATAATATTAAAATA
Found at i:264137 original size:34 final size:36
Alignment explanation
Indices: 264099--264175 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 36
264089 TCAAATTAAT
264099 TTAATTTTGT-ATGTTAAAAG-ATTCA-TTT-AAAAAA
1 TTAATTTTGTAATG-T-AAAGTATTCATTTTAAAAAAA
* *
264133 TTAATTTTTTAATGTAAAGTATTTATTTTAAAAAAA
1 TTAATTTTGTAATGTAAAGTATTCATTTTAAAAAAA
264169 TTAATTT
1 TTAATTT
264176 CTTTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 4 0.11
34 14 0.38
35 6 0.16
36 13 0.35
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (36 bp):
TTAATTTTGTAATGTAAAGTATTCATTTTAAAAAAA
Found at i:264627 original size:11 final size:11
Alignment explanation
Indices: 264600--264633 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
264590 GTTATTTTTA
*
264600 AATTTTAAAAT
1 AATTTTAAATT
264611 ATATTTTAAATT
1 A-ATTTTAAATT
264623 AATTTTAAATT
1 AATTTTAAATT
264634 TTAAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTTAAATT
Found at i:264891 original size:19 final size:19
Alignment explanation
Indices: 264854--264922 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
264844 TTATAATTTA
*
264854 AATTAATTTTTTAAAATAT
1 AATTAATTTTATAAAATAT
264873 AATTAA-TTTATAAACATAT
1 AATTAATTTTATAAA-ATAT
*
264892 AA--AATATTTAT-TAA-A-
1 AATTAAT-TTTATAAAATAT
264907 AATTAATTTTATAAAA
1 AATTAATTTTATAAAA
264923 ATTATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 8 0.20
18 8 0.20
19 17 0.41
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAATTTTATAAAATAT
Found at i:264921 original size:15 final size:16
Alignment explanation
Indices: 264898--264932 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
264888 ATATAAAATA
264898 TTTATTAAAAATTAAT
1 TTTATTAAAAATTAAT
*
264914 TTTA-TAAAAATTATT
1 TTTATTAAAAATTAAT
264929 TTTA
1 TTTA
264933 ATATTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTATTAAAAATTAAT
Found at i:265178 original size:17 final size:17
Alignment explanation
Indices: 265148--265207 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
265138 TATGATTTAA
265148 ATTATTTT-TATAAAATT
1 ATTATTTTAT-TAAAATT
265165 ATTATTTTATTAAAA-T
1 ATTATTTTATTAAAATT
* *
265181 ATAATTTTAAATTTAAATT
1 ATTATTTT--ATTAAAATT
265200 ATT-TTTTA
1 ATTATTTTA
265208 GTTTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 9 0.25
17 13 0.36
18 11 0.31
19 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTTTATTAAAATT
Found at i:265212 original size:17 final size:16
Alignment explanation
Indices: 265142--265212 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
265132 TTATATTATG
265142 ATTTAAATTA-TTTTT
1 ATTTAAATTATTTTTT
*
265157 A-TAAAATTATTATTTT
1 ATTTAAATTATT-TTTT
* **
265173 ATTAAAATATAATTTTAA
1 ATTTAAAT-T-ATTTTTT
265191 ATTTAAATTATTTTTT
1 ATTTAAATTATTTTTT
265207 AGTTTA
1 A-TTTA
265213 TTTATGATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 7 0.16
15 2 0.05
16 11 0.25
17 11 0.25
18 10 0.23
19 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
ATTTAAATTATTTTTT
Found at i:265249 original size:19 final size:20
Alignment explanation
Indices: 265222--265269 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
265212 ATTTATGATG
*
265222 AAGATAAAGTGAAA-AAAAA-
1 AAGAAAAAGT-AAAGAAAAAT
265241 AAGAAAAAGTAAAGAAAAAT
1 AAGAAAAAGTAAAGAAAAAT
265261 AA-AAAAAGT
1 AAGAAAAAGT
265270 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 21 0.81
20 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
AAGAAAAAGTAAAGAAAAAT
Found at i:265467 original size:19 final size:19
Alignment explanation
Indices: 265443--265481 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
265433 ATTAATACAT
* *
265443 TTTAGAAGATAATATAAAA
1 TTTAGAAAACAATATAAAA
265462 TTTAGAAAACAATATAAAA
1 TTTAGAAAACAATATAAAA
265481 T
1 T
265482 ATGATATAAA
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:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (19 bp):
TTTAGAAAACAATATAAAA
Found at i:265754 original size:20 final size:19
Alignment explanation
Indices: 265725--265763 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
265715 TTACTATAGT
*
265725 ATATTTTTTTATTTTTTAA
1 ATATTTTTTTAATTTTTAA
265744 ATATGTTTTTTAATTTTTAA
1 ATAT-TTTTTTAATTTTTAA
265764 TGATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATATTTTTTTAATTTTTAA
Found at i:270019 original size:20 final size:20
Alignment explanation
Indices: 269994--270050 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
269984 TTTTACTTAG
269994 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
270014 ATGTATCGATGCATGTATGA
1 ATGTATCGATACATTTTTCA
270034 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
270051 GTCTTTTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:270121 original size:20 final size:20
Alignment explanation
Indices: 270063--270121 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
270053 CTTTTTACCC
**
270063 AAATGTATCGATACATTGAA
1 AAATGTATCGATACATTCTA
*
270083 AAATGTATCGATACATTCTT
1 AAATGTATCGATACATTCTA
*
270103 CAATGTATCGATACATTCT
1 AAATGTATCGATACATTCT
270122 GTCTTTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTCTA
Found at i:273951 original size:20 final size:20
Alignment explanation
Indices: 273923--273975 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
273913 AAATGCATTA
*
273923 TATCAATACATTATGAATTG
1 TATCGATACATTATGAATTG
273943 TATCGATACATTATGAATTG
1 TATCGATACATTATGAATTG
* *
273963 AATCGATAAATTA
1 TATCGATACATTA
273976 AAGTGTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (20 bp):
TATCGATACATTATGAATTG
Found at i:274398 original size:36 final size:32
Alignment explanation
Indices: 274351--274436 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 32
274341 AAGTGATTGT
*
274351 GAGGTTCTATCTTAGCCTT-TGAAAAAGGTAAGGAG
1 GAGGTTCTATCTTAGCCTTGTG-AAAAGAT-A-G-G
274386 AGAGGTTCTATCTTAG-CTTGTGAAAAGATAGG
1 -GAGGTTCTATCTTAGCCTTGTGAAAAGATAGG
274418 GAGGTTCTATCTTAGCCTT
1 GAGGTTCTATCTTAGCCTT
274437 CAAAAGATAG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
31 15 0.32
32 4 0.09
33 1 0.02
34 1 0.02
35 9 0.19
36 17 0.36
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (32 bp):
GAGGTTCTATCTTAGCCTTGTGAAAAGATAGG
Found at i:274422 original size:31 final size:32
Alignment explanation
Indices: 274351--274446 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 32
274341 AAGTGATTGT
*
274351 GAGGTTCTATCTTAGCCTTTGAAAAAGGTAAGGAGA
1 GAGGTTCTATCTTAG-CTTTG-AAAAGAT-A-GAGA
274387 GAGGTTCTATCTTAGCTTGTGAAAAGATAG-G-
1 GAGGTTCTATCTTAGCTT-TGAAAAGATAGAGA
* *
274418 GAGGTTCTATCTTAGCCTTCAAAAGATAG
1 GAGGTTCTATCTTAGCTTTGAAAAGATAG
274447 TGTTGTAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
30 10 0.18
31 17 0.30
32 1 0.02
33 1 0.02
34 1 0.02
35 9 0.16
36 17 0.30
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (32 bp):
GAGGTTCTATCTTAGCTTTGAAAAGATAGAGA
Found at i:276064 original size:21 final size:22
Alignment explanation
Indices: 276040--276091 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
276030 GAACTAGAGG
276040 AGAAAATGAATGAGTTG-AAAA
1 AGAAAATGAATGAGTTGCAAAA
*
276061 AGAAAA-GAAATGAGTTGCAAGA
1 AGAAAATG-AATGAGTTGCAAAA
276083 AGAAAATGA
1 AGAAAATGA
276092 TGGATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 10 0.37
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (22 bp):
AGAAAATGAATGAGTTGCAAAA
Found at i:277208 original size:20 final size:20
Alignment explanation
Indices: 277183--277237 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
277173 AATTTCCTAG
277183 AATGCATCGATACATTATGC
1 AATGCATCGATACATTATGC
277203 AATGCATCGATACATTATGC
1 AATGCATCGATACATTATGC
*
277223 AATGTATCGATACAT
1 AATGCATCGATACAT
277238 CTGGAAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGCATCGATACATTATGC
Found at i:278692 original size:12 final size:12
Alignment explanation
Indices: 278675--278700 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
278665 GCAACCATAA
278675 CATGAAGATGAG
1 CATGAAGATGAG
278687 CATGAAGATGAG
1 CATGAAGATGAG
278699 CA
1 CA
278701 AGATATGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (12 bp):
CATGAAGATGAG
Found at i:282734 original size:14 final size:14
Alignment explanation
Indices: 282691--282768 Score: 57
Period size: 15 Copynumber: 5.2 Consensus size: 14
282681 ACATTTATGC
**
282691 TTATGTATCAAATA
1 TTATGTATTTAATA
*
282705 TTAATGTGTTTAATA
1 TT-ATGTATTTAATA
*
282720 TTATGTATTTGATA
1 TTATGTATTTAATA
* *
282734 TTATTTTAATATTAATG
1 TTA-TGT-AT-TTAATA
282751 TTAATGTATTTAATA
1 TT-ATGTATTTAATA
282766 TTA
1 TTA
282769 ATTTAATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
14 16 0.33
15 20 0.41
16 4 0.08
17 8 0.16
18 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (14 bp):
TTATGTATTTAATA
Found at i:282759 original size:32 final size:31
Alignment explanation
Indices: 282714--282775 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
282704 ATTAATGTGT
* *
282714 TTAATATTATGTATTTGATATTATTTTAATA
1 TTAATATTATGTATTTAATATTAATTTAATA
*
282745 TTAATGTTAATGTATTTAATATTAATTTAAT
1 TTAATATT-ATGTATTTAATATTAATTTAAT
282776 TAAAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
TTAATATTATGTATTTAATATTAATTTAATA
Found at i:282778 original size:15 final size:15
Alignment explanation
Indices: 282701--282816 Score: 56
Period size: 15 Copynumber: 7.6 Consensus size: 15
282691 TTATGTATCA
**
282701 AATATTAATGTGTTT
1 AATATTAATGTAATT
*
282716 AATATT-ATGTATTT
1 AATATTAATGTAATT
* * *
282730 GATATTATTTTAATATT
1 AATATTAATGT-A-ATT
* *
282747 AATGTTAATGTATTT
1 AATATTAATGTAATT
*
282762 AATATTAATTTAATT
1 AATATTAATGTAATT
* *
282777 AAAAGTTTAAT-TTATT
1 AATA--TTAATGTAATT
**
282793 AACGTTAATGTAATT
1 AATATTAATGTAATT
*
282808 TATATTAAT
1 AATATTAAT
282817 AAAAATTTAT
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
14 17 0.23
15 35 0.47
16 8 0.11
17 14 0.19
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.53
Consensus pattern (15 bp):
AATATTAATGTAATT
Found at i:282787 original size:32 final size:32
Alignment explanation
Indices: 282722--282792 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
282712 GTTTAATATT
* * * *
282722 ATGTATTTGATATTATTTTAATATTAATGTTA
1 ATGTATTTAATATTAATTTAATATAAAAGTTA
282754 ATGTATTTAATATTAATTTAAT-TAAAAGTTTA
1 ATGTATTTAATATTAATTTAATATAAAAG-TTA
*
282786 ATTTATT
1 ATGTATT
282793 AACGTTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (32 bp):
ATGTATTTAATATTAATTTAATATAAAAGTTA
Found at i:292399 original size:154 final size:153
Alignment explanation
Indices: 291799--293412 Score: 1278
Period size: 154 Copynumber: 10.5 Consensus size: 153
291789 AATTCAAGAC
* * * * * * * *
291799 AAATTACGAAAATACTCC-TAAGAGATACCTTTGACGTATAAGTACCCGATACCCCTAAAAGACT
1 AAATTATGAAAATAC-CCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACT
* * * * * * * *
291863 TAAAAATGACTATAAA-AGGAAAGAACCTATCCTAAATACCCACATTCGACATAAAAGCGGA-CC
65 TAAAAA-G-GTATAAATAGG-ATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCC
* * * * *
291926 TA-GTTATAACCTAGGACTCGGTTCT-GA
127 GACG--ACAACCTAGGAGTTGGTTCTAAA
* * * * * ** *
291953 AAATTACGAAAATGCTCC-TAGGGGATACCTTCGACATGAAAGTATCTTGGTACCTTTAAAAGAC
1 AAATTATGAAAATAC-CCTTAGGGGATACCTTCGACGTAAAAGTA-CTCGGTACCCCTAAAGGAC
* * * * * * *
292017 TTAAAAAGGACTATAAA-AGGAATGAACCTATCCTAAATACCTACCATCGGCACAAAAGTAGACC
64 TTAAAAAGG--TATAAATAGG-ATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACC
* * * * * *
292081 CGATGATAACTTAGGACTCGATTCT-AA
126 CGACGACAACCTAGGAGTTGGTTCTAAA
* * *
292108 AAATTATGAAAATGCCCGTAGGGGATACCTTC-AAGATAAAAGTATCTCGGTACCCCTAAAGGAC
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACG-TAAAAGTA-CTCGGTACCCCTAAAGGAC
* * * *
292172 TTAAAAAGGACTATAAAAAGAATGAACCTATCCTAAATACCCA-CTTTCGGCATAAAAGCAGACC
64 TTAAAAAGG--TATAAATAGGATGAACCTATCCTAACTGCCCACCTTT-GGCATAAAAGCAGACC
* **
292236 TGGTGACAACCTAGGAGTTGGTTCTAAA
126 CGACGACAACCTAGGAGTTGGTTCTAAA
* * * * *
292264 AAATTATGAAAATACCCCTAGGGGATACCTTTGATGTAAAAGTACTCGATACTCCTAAAGGA-TA
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACT-
* * * * * *
292328 TAAAAAGGTTTGAAATAGGATGAACCTATCATAACTGCCCACTTTTGGCGTAAAAACAGACCCGG
65 TAAAAAGGTAT-AAATAGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCCGA
* *
292393 CGACAACCTAAGAGTTGGTTTTAAA
129 CGACAACCTAGGAGTTGGTTCTAAA
* * * * * *
292418 AAATTATGAAAATGCCTTTAGGGGATACCTTC-ATGTACAAGTACCCGGTACCCCTAAAAGACTT
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACTT
** * * * ** *
292482 AAAAAACACTATAAAAAGGATGAACCTATCATAACTACCCACCTTTGGCATAAAAGTGGAGCCGA
66 -AAAAA-GGTATAAATAGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCCGA
* * * *
292547 CGATAACTTACGAGTTAGTTCTAAA
129 CGACAACCTAGGAGTTGGTTCTAAA
* * * * *
292572 AAATTATAAAAATATCCTTAGGGGATACCTTCGATGTACAAGTACCCGGTACCCCTAAAGGACTT
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACTT
* * * * * *
292637 AAAAAGGTTTAAGAT-GAGATGAATCTATCCTAATTGCCCACCTTTGACATAAAAGCGGACCCAA
66 AAAAAGGTATAA-ATAG-GATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCCGA
*
292701 CGACAACCTAGGAGTTGGTTTTAAA
129 CGACAACCTAGGAGTTGGTTCTAAA
* * * * *
292726 AAA-T-TGCAAAATGCTCTTAGGAGATACCTTCGACATGAAAGTATCTCGGTACCCCTAAAGGAC
1 AAATTATG-AAAATACCCTTAGGGGATACCTTCGACGTAAAAGTA-CTCGGTACCCCTAAAGGAC
* * * * * * * *
292789 TTAAAATGACTATAGA-AGGACTGAACCTATCCTAAATACCCACATTCGGCATAAAAGC-GAACT
64 TTAAAAAG-GTATAAATAGGA-TGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAG-ACC
** * * *
292852 CGGTGATAACCTAGGAATTGGTTTTAAA
126 CGACGACAACCTAGGAGTTGGTTCTAAA
* * * * * *
292880 AAATTATGAAAATACCCTTAGGGGATACCTTTGAC-AAAAAATACTCGATACCCGTAAAAGACTT
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACTT
* * *
292944 AAAAAGGTTTGAAATGGGATGAACCTATCCTAACTGCCCACTTTTGGCATAAAAGCAGACCCGAC
66 AAAAAGGTAT-AAATAGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCCGAC
* * *
293009 AACAACCTAAGAGTTGGTTTTAAA
130 GACAACCTAGGAGTTGGTTCTAAA
** * * * * *
293033 AAATTACAAAAATA-CCTCTAAGAGATACCTTCGACGCACAAGTAC-CTGGTACCCCCAAAGGAC
1 AAATTATGAAAATACCCT-TAGGGGATACCTTCGACGTAAAAGTACTC-GGTACCCCTAAAGGAC
* * * *
293096 TTAAAAAAGACTATAAA-ATGGATGAACCTATCATAATTGCCCACCTTTGGCATAAAAGCAGACT
64 TT-AAAAAG-GTATAAATA-GGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACC
* * * *
293160 GGGCGACAACCTAGGAATTGGTTCCAAA
126 CGACGACAACCTAGGAGTTGGTTCTAAA
* * * *
293188 AAATTATGAAAATGCCCCTA-GGTATACCTTCGACGTACAAGTAC-CGGATACCCCTAAAGGACT
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGG-TACCCCTAAAGGACT
* * ** * *
293251 TAAAAAGGTTTGAAATGGGACAAACCTATCCTAACTGCCCACCTTTCGCATAAAAAC-GAACCCG
65 TAAAAAGGTAT-AAATAGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAG-ACCCG
* *
293315 ACAACAACCTAGGAGTTAGTTCTAAA
128 ACGACAACCTAGGAGTTGGTTCTAAA
** * * * * * * *
293341 AAATTACAAAAATACCCTTAGAGGATACCTTCAACATGAAAGTATTCCGGTAACCTTAAAGGACT
1 AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACT-CGGTACCCCTAAAGGACT
293406 TAAAAAG
65 TAAAAAG
293413 ATTAGAGATG
Statistics
Matches: 1187, Mismatches: 228, Indels: 89
0.79 0.15 0.06
Matches are distributed among these distances:
152 9 0.01
153 258 0.22
154 469 0.40
155 395 0.33
156 53 0.04
157 3 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (153 bp):
AAATTATGAAAATACCCTTAGGGGATACCTTCGACGTAAAAGTACTCGGTACCCCTAAAGGACTT
AAAAAGGTATAAATAGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCAGACCCGACG
ACAACCTAGGAGTTGGTTCTAAA
Found at i:293413 original size:308 final size:309
Alignment explanation
Indices: 291838--293413 Score: 1503
Period size: 308 Copynumber: 5.1 Consensus size: 309
291828 TTTGACGTAT
* * * * *
291838 AAGTACCCGATACCCCTAAAAGACTTAAAAATGACTAT-AAAAGGAAAGAACCTATCCTAAATAC
1 AAGTATCCGGTACCCCTAAAGGACTTAAAAA-GACTATAAAAAGG-ATGAACCTATCATAAATAC
* * * * * ** * * * * *
291902 CCACATTCGACATAAAAGCGGACCT-AGTTATAACCTAGGACTCGGTTCT-GAAAATTACGAAAA
64 CCACCTTTGGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAAA
* * * * * * ** * *
291965 TGCTCCTAGGGGATACCTTCGACATGAAAGTATCTTGGTACCTTTAAAAGACTTAAAAAGGACTA
129 TACCCCTAGGGGATACCTTCGACGTAAAAGTA-CTCGATACCCCTAAAGGACTTAAAAAGG--TT
* * * * * * * * ** ** * *
292030 T-AAAAGGAATGAACCTATCCTAAATACCTACCATCGGCACAAAAGTAGACCCGATGATAACTTA
191 TGAAATGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAGACCCGACAACAACCTA
* * * * * ** * * * *
292094 GGACTCGATTCT-AAAAATTATGAAAATGCCCGTAGGGGATACCTTCAAGATAA
256 AGAGTTGGTTTTAAAAAATTACAAAAATGCCCTTAGAGGATACCTTCAACATGA
* *
292147 AAGTATCTCGGTACCCCTAAAGGACTTAAAAAGGACTATAAAAAGAATGAACCTATCCTAAATAC
1 AAGTATC-CGGTACCCCTAAAGGACTTAAAAA-GACTATAAAAAGGATGAACCTATCATAAATAC
* *
292212 CCA-CTTTCGGCATAAAAGCAGACCT-GGTGACAACCTAGGAGTTGGTTCTAAAAAATTATGAAA
64 CCACCTTT-GGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAA
* * *
292275 ATACCCCTAGGGGATACCTTTGATGTAAAAGTACTCGATACTCCTAAAGGA-TATAAAAAGGTTT
128 ATACCCCTAGGGGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGACT-TAAAAAGGTTT
* * * * * *
292339 GAAATAGGATGAACCTATCATAACTGCCCACTTTTGGCGTAAAAACAGACCCGGCGACAACCTAA
192 GAAATGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAGACCCGACAACAACCTAA
** * *
292404 GAGTTGGTTTTAAAAAATTATGAAAATGCCTTTAGGGGATACCTT---CATGTA
257 GAGTTGGTTTTAAAAAATTACAAAAATGCCCTTAGAGGATACCTTCAACATG-A
* * * *
292455 CAAGTACCCGGTACCCCTAAAAGACTTAAAAAACACTATAAAAAGGATGAACCTATCATAACTAC
1 -AAGTATCCGGTACCCCTAAAGGACTT-AAAAAGACTATAAAAAGGATGAACCTATCATAAATAC
** * * * * * * * *
292520 CCACCTTTGGCATAAAAGTGGAGC-CGACGATAACTTACGAGTTAGTTCTAAAAAATTATAAAAA
64 CCACCTTTGGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAAA
* * * * * *
292584 TATCCTTAGGGGATACCTTCGATGTACAAGTACCCGGTACCCCTAAAGGACTTAAAAAGGTTT-A
129 TACCCCTAGGGGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTGA
* * * * * * * * *
292648 AGATGAGATGAATCTATCCTAATTGCCCACCTTTGACATAAAAGCGGACCCAACGACAACCTAGG
194 A-ATGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAGACCCGACAACAACCTAAG
* * *
292713 AGTTGGTTTTAAAAAATTGC-AAAATGCTCTTAG-GAGATACCTTCGACATGA
258 AGTTGGTTTTAAAAAATTACAAAAATGCCCTTAGAG-GATACCTTCAACATGA
* * *
292764 AAGTATCTCGGTACCCCTAAAGGACTTAAAATGACTAT-AGAAGGACTGAACCTATCCTAAATAC
1 AAGTATC-CGGTACCCCTAAAGGACTTAAAAAGACTATAAAAAGGA-TGAACCTATCATAAATAC
* * * * * *
292828 CCACATTCGGCATAAAAGC-GAACTCGGTGATAACCTAGGAATTGGTTTTAAAAAATTATGAAAA
64 CCACCTTTGGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAAA
* * * * * *
292892 TACCCTTAGGGGATACCTTTGAC-AAAAAATACTCGATACCCGTAAAAGACTTAAAAAGGTTTGA
129 TACCCCTAGGGGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTGA
* *
292956 AATGGGATGAACCTATCCTAACTGCCCACTTTTGGCATAAAAGCAGACCCGACAACAACCTAAGA
194 AATGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAGACCCGACAACAACCTAAGA
* * *
293021 GTTGGTTTTAAAAAATTACAAAAATACCTCTAAGA-GATACCTTCGAC--GCA
259 GTTGGTTTTAAAAAATTACAAAAATGCC-CTTAGAGGATACCTTCAACATG-A
* * * *
293071 CAAGTA-CCTGGTACCCCCAAAGGACTTAAAAAAGACTATAAAATGGATGAACCTATCATAATTG
1 -AAGTATCC-GGTACCCCTAAAGGACTT-AAAAAGACTATAAAAAGGATGAACCTATCATAAATA
* *
293135 CCCACCTTTGGCATAAAAGCAGA-CTGGGCGACAACCTAGGAATTGGTTCCAAAAAATTATGAAA
63 CCCACCTTTGGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAA
* * *
293199 ATGCCCCTA-GGTATACCTTCGACGTACAAGTAC-CGGATACCCCTAAAGGACTTAAAAAGGTTT
128 ATACCCCTAGGGGATACCTTCGACGTAAAAGTACTC-GATACCCCTAAAGGACTTAAAAAGGTTT
** *
293262 GAAATGGGACAAACCTATCCTAACTGCCCACCTTTCGCATAAAAAC-GAACCCGACAACAACCTA
192 GAAATGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAG-ACCCGACAACAACCTA
* * * *
293326 GGAGTTAGTTCTAAAAAATTACAAAAATACCCTTAGAGGATACCTTCAACATGA
256 AGAGTTGGTTTTAAAAAATTACAAAAATGCCCTTAGAGGATACCTTCAACATGA
* *
293380 AAGTATTCCGGTAACCTTAAAGGACTTAAAAAGA
1 AAGTA-TCCGGTACCCCTAAAGGACTTAAAAAGA
293414 TTAGAGATGG
Statistics
Matches: 1053, Mismatches: 175, Indels: 79
0.81 0.13 0.06
Matches are distributed among these distances:
306 3 0.00
307 175 0.17
308 568 0.54
309 123 0.12
310 141 0.13
311 43 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (309 bp):
AAGTATCCGGTACCCCTAAAGGACTTAAAAAGACTATAAAAAGGATGAACCTATCATAAATACCC
ACCTTTGGCATAAAAGCAGACCTCGGCGACAACCTAGGAATTGGTTCTAAAAAATTATGAAAATA
CCCCTAGGGGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTGAAA
TGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAACAGACCCGACAACAACCTAAGAGT
TGGTTTTAAAAAATTACAAAAATGCCCTTAGAGGATACCTTCAACATGA
Found at i:294608 original size:22 final size:22
Alignment explanation
Indices: 294583--294626 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
294573 TTTTTTTGCT
294583 TTTGCTTACTATTTCTTCTTTC
1 TTTGCTTACTATTTCTTCTTTC
* *
294605 TTTGCTTGCTGTTTCTTCTTTC
1 TTTGCTTACTATTTCTTCTTTC
294627 CTCACTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.23, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTGCTTACTATTTCTTCTTTC
Found at i:294773 original size:25 final size:25
Alignment explanation
Indices: 294744--294793 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
294734 TTATTCTTCA
*
294744 TGTTGCTGCTTCCTACTCCATCAGC
1 TGTTGCTGCTTCCTACACCATCAGC
* * *
294769 TGTTGTTTCTTCCTCCACCATCAGC
1 TGTTGCTGCTTCCTACACCATCAGC
294794 AGCTGTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.36, G:0.14, T:0.38
Consensus pattern (25 bp):
TGTTGCTGCTTCCTACACCATCAGC
Found at i:295523 original size:11 final size:11
Alignment explanation
Indices: 295489--295515 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
295479 CTTGATGCTA
295489 TTTTTCATCTT
1 TTTTTCATCTT
295500 TTTTTCATCTT
1 TTTTTCATCTT
295511 TTTTT
1 TTTTT
295516 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCATCTT
Found at i:297435 original size:41 final size:43
Alignment explanation
Indices: 297383--297496 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
297373 CACCTAGGAC
297383 TAAGTCGACAAGTAAACAAAGGATAAAAG-GTCGA-CCGGGAA
1 TAAGTCGACAAGTAAACAAAGGATAAAAGAGTCGACCCGGGAA
* ** *
297424 TCAA-TCGACAAGTCAACCAAA-GATAAAAGAGTTTACCCGGGAC
1 T-AAGTCGACAAGT-AAACAAAGGATAAAAGAGTCGACCCGGGAA
* * *
297467 TAAGCCGACAAGTAAACAAAGAATGAAAGA
1 TAAGTCGACAAGTAAACAAAGGATAAAAGA
297497 TTAAATGGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
41 18 0.31
42 19 0.32
43 22 0.37
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (43 bp):
TAAGTCGACAAGTAAACAAAGGATAAAAGAGTCGACCCGGGAA
Found at i:297476 original size:84 final size:83
Alignment explanation
Indices: 297379--297578 Score: 224
Period size: 84 Copynumber: 2.4 Consensus size: 83
297369 GATTCACCTA
* * * *
297379 GGACTAAGTCGACAAGTAAACAAAGGATAAAAGGTCGACCGGGAATCAATCGAC-AAGTCAACCA
1 GGACTAAGTCGACAAGTAAACAAAGGATAAAAGATCAAACGGGAATCAACCGACGAA-TCAA-CA
297443 AA-GATAAAAGAGTTTACCCG
64 AAGGATAAAAGA-TTTACCCG
* * * * * * *
297463 GGACTAAGCCGACAAGTAAACAAAGAATGAAAGATTAAATGGGATTGAACCGACGAATCAACAAA
1 GGACTAAGTCGACAAGTAAACAAAGGATAAAAGATCAAACGGGAATCAACCGACGAATCAACAAA
* **
297528 GGATAAGAGATTTACTTG
66 GGATAAAAGATTTACCCG
*
297546 GGACTAAGTCGACAAGTGAACAAAGGATAAAAG
1 GGACTAAGTCGACAAGTAAACAAAGGATAAAAG
297579 TTGACTGGGA
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
83 39 0.41
84 55 0.57
85 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (83 bp):
GGACTAAGTCGACAAGTAAACAAAGGATAAAAGATCAAACGGGAATCAACCGACGAATCAACAAA
GGATAAAAGATTTACCCG
Found at i:297496 original size:43 final size:41
Alignment explanation
Indices: 297379--297488 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 41
297369 GATTCACCTA
297379 GGACTAAGTCGACAAGTAAACAAAGGATAAAAG-GTCGACCG
1 GGACTAAGTCGACAAGTAAACAAA-GATAAAAGAGTCGACCG
* * **
297420 GGAATCAA-TCGACAAGTCAACCAAAGATAAAAGAGTTTACCCG
1 GGACT-AAGTCGACAAGT-AAACAAAGATAAAAGAGTCGA-CCG
*
297463 GGACTAAGCCGACAAGTAAACAAAGA
1 GGACTAAGTCGACAAGTAAACAAAGA
297489 ATGAAAGATT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 21 0.37
42 21 0.37
43 15 0.26
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (41 bp):
GGACTAAGTCGACAAGTAAACAAAGATAAAAGAGTCGACCG
Found at i:297569 original size:42 final size:41
Alignment explanation
Indices: 297348--297592 Score: 169
Period size: 42 Copynumber: 5.9 Consensus size: 41
297338 GAATAAACCA
* * * *
297348 ACAAGTTAA-AAAGGATAGAAGGATTCACCTAGGACTAAGTCG
1 ACAAGTAAACAAAGGATA-AAAGATTTA-CTGGGACTAAGTCG
* ** * *
297390 ACAAGTAAACAAAGGATAAAAGGTCGACCGGGAATCAA-TCG
1 ACAAGTAAACAAAGGATAAAAGATTTACTGGGACT-AAGTCG
* * *
297431 ACAAGTCAACCAAA-GATAAAAGAGTTTACCCGGGACTAAGCCG
1 ACAAGT-AAACAAAGGATAAAAGA-TTTA-CTGGGACTAAGTCG
* * * * * *
297474 ACAAGTAAACAAAGAATGAAAGATTAAATGGGATTGAA-CCG
1 ACAAGTAAACAAAGGATAAAAGATTTACTGGGACT-AAGTCG
* *
297515 ACGAA-TCAACAAAGGATAAGAGATTTACTTGGGACTAAGTCG
1 AC-AAGTAAACAAAGGATAAAAGATTTAC-TGGGACTAAGTCG
* *
297557 ACAAGTGAACAAAGGATAAAAG-TTGACTGGGACTAA
1 ACAAGTAAACAAAGGATAAAAGATTTACTGGGACTAA
297593 AAGGAAAGAA
Statistics
Matches: 159, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
40 9 0.06
41 57 0.36
42 63 0.40
43 30 0.19
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (41 bp):
ACAAGTAAACAAAGGATAAAAGATTTACTGGGACTAAGTCG
Found at i:300020 original size:155 final size:153
Alignment explanation
Indices: 299280--300835 Score: 1399
Period size: 155 Copynumber: 10.1 Consensus size: 153
299270 TAAGTTCAAG
* * * * * * * * *
299280 AAAAATTACAAAAATGCCCTTAGGGGATATCTTTGACGTATAAGTACCCAATACTCTTAAAGGAC
1 AAAAATTACGAAAATACCC-TAGGGGATACCTTCGACATA-AAGTACTCGATACCCCTAAAGGAC
* * * * ** *
299345 TTAAAAAGGACTATAAAAGGGATGAACCTATCTTAAATACTCATATTCGGCATAAAAGCAGG-CC
64 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGC-GGACC
* ** * * **
299409 CAGTTATAACCTAGGACTCAGTTCTA
128 CGGCGACAACCTAGGAGTTGGTTCTA
** * * * *
299435 AAAAATTACGAAAATACCACTAAAGGATACTTTCGACATGAAAGTATCTTGTTACCCCTAAAAGA
1 AAAAATTACGAAAATACC-CTAGGGGATACCTTCGACAT-AAAGTA-CTCGATACCCCTAAAGGA
* * * * * *
299500 CTTAAAAAGGACTATAAAAGGAATGAACCTATCCTAAATACCCACATTCGGCATAAAAGCAGACC
63 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACC
* * * * * * *
299565 CGGTGATAACTTAAGAATCGATTCTA
128 CGGCGACAACCTAGGAGTTGGTTCTA
* * * * * * *
299591 AAAAATTATGAAAATGCCCTTAGGGGATATCTTCGATATGAAAGTATCTAGGTACCCCTAAAAGA
1 AAAAATTACGAAAATACCC-TAGGGGATACCTTCGACAT-AAAGTA-CTCGATACCCCTAAAGGA
* * * *
299656 CTTAAAAAAGACTATAAAAGGAATGAACCTATCCTAAATGCCCA-CTATCGGCATAAAAGCGGAC
63 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCT-TTGGCATAAAAGCGGAC
* * *
299720 TCGGTGACAACCTAAGAGTTGGTTCTA
127 CCGGCGACAACCTAGGAGTTGGTTCTA
* * * *
299747 AAAAATTACGAAAAGACCCTTGAGG--ACCTTTGACATAAAAGTAC-CTGATACCCCTAAAGGAC
1 AAAAATTACGAAAATACCCTAGGGGATACCTTCGACAT-AAAGTACTC-GATACCCCTAAAGGAC
* * *
299809 TTAAAAAGG--TTTGAAATGGGATGAACCTATCCTAATTGCCCACCTTTGGCATAAAAGCGGACC
64 TTAAAAAGGACTAT-AAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACC
* *
299872 CGACGATAACCTAGGAGTTGGTTCTA
128 CGGCGACAACCTAGGAGTTGGTTCTA
* * * * *
299898 AAAAGTTACAAAAATACCTCTAGGGGATACCTTCGACATACAAGTACACGGTACCCCTAAATGAC
1 AAAAATTACGAAAATACC-CTAGGGGATACCTTCGACATA-AAGTACTCGATACCCCTAAAGGAC
* *
299963 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGTGGACCT
64 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCC
*
300028 GGCGACAACCTATGAGTTGGTTCT-
129 GGCGACAACCTAGGAGTTGGTTCTA
* ** *
300052 AAAAATTACGAAAATACCCTTATGGGATACCTTCGATGTATAAGTACCCGATACCCCTAAAGGAC
1 AAAAATTACGAAAATACCC-TAGGGGATACCTTCGACATA-AAGTACTCGATACCCCTAAAGGAC
* * * * * *
300117 TTTAAAAGG--TTTAAAATAGGACGAACCTATCCTAACTGCCCACCTTTGGCATAAATGCAGACC
64 TTAAAAAGGACTATAAAA-GGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACC
*
300180 CGGCGACAACCTAGGTGTTGGTTCTA
128 CGGCGACAACCTAGGAGTTGGTTCTA
* * * * * * *
300206 AAAAATTACGAAAATGCCCCTAAGGGATATCTTCGACATGAACGTATCTTGGTACCCTTAAAGGA
1 AAAAATTACGAAAAT-ACCCTAGGGGATACCTTCGACAT-AAAGTA-CTCGATACCCCTAAAGGA
* * * * * * *
300271 CTTAAAAATGATTAT-AAAGGAATGAACCTATCCTAAAC-ACTCACCTTTGGCAT--AAGCGAAT
63 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCT-AACTGCCCACCTTTGGCATAAAAGCGGAC
* *
300332 CCGGTGACAACCTAGGAGTTAGTTCTA
127 CCGGCGACAACCTAGGAGTTGGTTCTA
* * * * **
300359 AAAAATTACAAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTACTCGCTACCTTTAAAGGAC
1 AAAAATTACGAAAATA-CCCTAGGGGATACCTTCGACAT-AAAGTACTCGATACCCCTAAAGGAC
* * * *
300424 TAAAAAAGG--TTTGAAATGGGATGAACCTATCCTAACTG-CCACCTTTGGCCTAAAAGCGGACC
64 TTAAAAAGGACTAT-AAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACC
** * *
300486 CAACGACAACTTAAGAGTTGGTTCTA
128 CGGCGACAACCTAGGAGTTGGTTCTA
* ** * * * * * *
300512 TAAAATTATAAAAATACCCCTAGGGGATACTTTCGACGTAAAAGTACTTGGTAGCCTTAAAGGAC
1 AAAAATTACGAAAATA-CCCTAGGGGATACCTTCGACAT-AAAGTACTCGATACCCCTAAAGGAC
* * * * *
300577 TTTAAAATGACTATAAAAGGGATAAACCTATCCTAACTGCCCACCTTTGGTATAAAAGCAGACCC
64 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCC
*
300642 GGCGACAACCTATGAGTTGGTTCTA
129 GGCGACAACCTAGGAGTTGGTTCTA
* * * * * ** *
300667 AAAAATTATGAAAATGCCCATGGGGGATACTTTCAATGTACAAGTACTCGATACCCCTAAAGAAC
1 AAAAATTACGAAAATACCC-TAGGGGATACCTTCGACATA-AAGTACTCGATACCCCTAAAGGAC
* * **
300732 TTAAAAA-AATTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGTAGA-CC
64 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCC
** *
300795 AACGACAACCTA-AAGTTGGTT-TA
129 GGCGACAACCTAGGAGTTGGTTCTA
*
300818 AAAAATTACAAAAATACC
1 AAAAATTACGAAAATACC
300836 TCTGGAGATA
Statistics
Matches: 1165, Mismatches: 200, Indels: 76
0.81 0.14 0.05
Matches are distributed among these distances:
150 4 0.00
151 110 0.09
152 84 0.07
153 246 0.21
154 211 0.18
155 261 0.22
156 247 0.21
157 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (153 bp):
AAAAATTACGAAAATACCCTAGGGGATACCTTCGACATAAAGTACTCGATACCCCTAAAGGACTT
AAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCCGG
CGACAACCTAGGAGTTGGTTCTA
Found at i:300242 original size:308 final size:307
Alignment explanation
Indices: 299280--300832 Score: 1576
Period size: 308 Copynumber: 5.0 Consensus size: 307
299270 TAAGTTCAAG
* * * * ** *
299280 AAAAATTACAAAAATGCCCTTAGGGGATATCTTTGACGTATAAGTACCCAATACTCTTAAAGGAC
1 AAAAATTACAAAAATGCCCCTAGGGGATATCTTCGACATA-AAGTACACGGTACCCTTAAAGGAC
* * * * ** *
299345 TTAAAAAGGACTATAAAAGGGATGAACCTATCTTAAATACTCATATTCGGCATAAAAGCAGG-CC
65 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGC-GGACC
* * * * ** ** * **
299409 CAGTTATAACCTAGGACTCAGTTCTAAAAAATTACGAAAATACCACTAAAGGATACTTTCGACAT
129 CGGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACC-CTAGGGGATACCTTCGATGT
* * * * * * *
299474 GAAAGTATCTTGTTACCCCTAAAAGACTTAAAAAGGACTATAAAA-GGAATGAACCTATCCTAAA
193 AAAAGTA-CTCGATACCCCTAAAGGACTTAAAAAGG--TTTAAAATGGGATGAACCTATCCTAAC
* * * ** * * * * *
299538 TACCCACATTCGGCATAAAAGCAGACCCGGTGATAACTTAAGAATCGATTCTA
255 TGCCCACCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
** * * * *
299591 AAAAATTATGAAAATGCCCTTAGGGGATATCTTCGATATGAAAGTATCTA-GGTACCCCTAAAAG
1 AAAAATTACAAAAATGCCCCTAGGGGATATCTTCGACAT-AAAGTA-C-ACGGTACCCTTAAAGG
* * * *
299655 ACTTAAAAAAGACTATAAAAGGAATGAACCTATCCTAAATGCCCA-CTATCGGCATAAAAGCGGA
63 ACTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCT-TTGGCATAAAAGCGGA
* * * * * * **
299719 CTCGGTGACAACCTAAGAGTTGGTTCTAAAAAATTACGAAAAGACCCTTGAGG--ACCTTTGACA
127 CCCGGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACCCTAGGGGATACCTTCGATG
* *
299782 TAAAAGTAC-CTGATACCCCTAAAGGACTTAAAAAGGTTTGAAATGGGATGAACCTATCCTAATT
192 TAAAAGTACTC-GATACCCCTAAAGGACTTAAAAAGGTTTAAAATGGGATGAACCTATCCTAACT
* * *
299846 GCCCACCTTTGGCATAAAAGCGGACCCGACGATAACCTAGGAGTTGGTTCTA
256 GCCCACCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
* * * * * *
299898 AAAAGTTACAAAAATACCTCTAGGGGATACCTTCGACATACAAGTACACGGTACCCCTAAATGAC
1 AAAAATTACAAAAATGCCCCTAGGGGATATCTTCGACATA-AAGTACACGGTACCCTTAAAGGAC
* *
299963 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGTGGACCT
65 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCC
* * *
300028 GGCGACAACCTATGAGTTGGTTCT-AAAAATTACGAAAATACCCTTATGGGATACCTTCGATGTA
130 GGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACCC-TAGGGGATACCTTCGATGTA
* * * * *
300092 TAAGTACCCGATACCCCTAAAGGACTTTAAAAGGTTTAAAATAGGACGAACCTATCCTAACTGCC
194 AAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTAAAATGGGATGAACCTATCCTAACTGCC
* * * *
300157 CACCTTTGGCATAAATGCAGACCCGGCGACAACCTAGGTGTTGGTTCTA
259 CACCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
* * * **
300206 AAAAATTACGAAAATGCCCCTAAGGGATATCTTCGACATGAACGTATCTTGGTACCCTTAAAGGA
1 AAAAATTACAAAAATGCCCCTAGGGGATATCTTCGACAT-AAAGTA-CACGGTACCCTTAAAGGA
* * * * * * *
300271 CTTAAAAATGATTAT-AAAGGAATGAACCTATCCTAAAC-ACTCACCTTTGGCAT--AAGCGAAT
64 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCT-AACTGCCCACCTTTGGCATAAAAGCGGAC
* * * *
300332 CCGGTGACAACCTAGGAGTTAGTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTTGACG
128 CCGGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATA-CCCTAGGGGATACCTTCGATG
* ** * *
300397 TAAAAGTACTCGCTACCTTTAAAGGACTAAAAAAGGTTTGAAATGGGATGAACCTATCCTAACTG
192 TAAAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTAAAATGGGATGAACCTATCCTAACTG
* * * *
300462 -CCACCTTTGGCCTAAAAGCGGACCCAACGACAACTTAAGAGTTGGTTCTA
257 CCCACCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
* * * * ** *
300512 TAAAATTATAAAAATACCCCTAGGGGATA-CTTTCGACGTAAAAGTACTTGGTAGCCTTAAAGGA
1 AAAAATTACAAAAATGCCCCTAGGGGATATC-TTCGACAT-AAAGTACACGGTACCCTTAAAGGA
* * * * *
300576 CTTTAAAATGACTATAAAAGGGATAAACCTATCCTAACTGCCCACCTTTGGTATAAAAGCAGACC
64 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACC
* * * * * * *
300641 CGGCGACAACCTATGAGTTGGTTCTAAAAAATTATGAAAATGCCCATGGGGGATACTTTCAATGT
129 CGGTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACCC-TAGGGGATACCTTCGATGT
* * **
300706 ACAAGTACTCGATACCCCTAAAGAACTTAAAAAAATTATAAAA-GGGATGAACCTATCCTAACTG
193 AAAAGTACTCGATACCCCTAAAGGACTTAAAAAGGTT-TAAAATGGGATGAACCTATCCTAACTG
* *
300770 CCCACCTTTGGCATAAAAGTAGA-CCAACGACAACCTAA-AGTTGGTT-TA
257 CCCACCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
300818 AAAAATTACAAAAAT
1 AAAAATTACAAAAAT
300833 ACCTCTGGAG
Statistics
Matches: 1040, Mismatches: 175, Indels: 59
0.82 0.14 0.05
Matches are distributed among these distances:
305 53 0.05
306 251 0.24
307 193 0.19
308 325 0.31
309 70 0.07
311 47 0.05
312 101 0.10
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (307 bp):
AAAAATTACAAAAATGCCCCTAGGGGATATCTTCGACATAAAGTACACGGTACCCTTAAAGGACT
TAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGCGGACCCG
GTGACAACCTAGGAGTTGGTTCTAAAAAATTACGAAAATACCCTAGGGGATACCTTCGATGTAAA
AGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTAAAATGGGATGAACCTATCCTAACTGCCCA
CCTTTGGCATAAAAGCAGACCCGACGACAACCTAAGAGTTGGTTCTA
Found at i:300458 original size:615 final size:608
Alignment explanation
Indices: 299280--300832 Score: 1805
Period size: 615 Copynumber: 2.5 Consensus size: 608
299270 TAAGTTCAAG
* * * * * ** *
299280 AAAAATTACAAAAATGCCCTTAGGGGATATCTTTGACGTATAAGTACCCAATACTCTTAAAGGAC
1 AAAAATTACAAAAATACCC-TAGGGGATACCTTCGACGTAAAAGTACACGGTACCCTTAAAGGAC
* * * * ** *
299345 TTAAAAAGGACTATAAAAGGGATGAACCTATCTTAAATACTCATATTCGGCATAAAAGCAGG-CC
65 TTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAG-AGGACC
* ** * * * ** *
299409 CAGTTATAACCTAGGACTCAGTTCTAAAAAATTACGAAAATACCACTAAAGGATACTTTCGACAT
129 CGGCGACAACCTATGAGTTGGTTCTAAAAAATTACGAAAATACC-CTAAGGGATACTTTCG--AT
* * * ** *
299474 G-AAAGTATCTTGTTACCCCTAAAAGACTTAAAAAGGACTATAAAAGGAATGAACCTATCCTAAA
191 GTAAAGTA-CTCGATACCCCTAAAGGACTTAAAAAGGTTTA-AAAAGG-ATGAACCTATCCTAAC
* * * * * * * * * *
299538 TACCCACATTCGGCATAAAAGCAGACCCGGTGATAACTTAAGAATCGATTCTAAAAAATTATGAA
253 TGCCCACCTTTGGCATAAAAGCAGACCCGGCGACAACCT-AGAGTTGGTTCTAAAAAATTACGAA
* * *
299603 AATGCCCTTAGGGGATATCTTCGATATGAAAGTATCTAGGTACCCCTAAAAGACTTAAAAAAGAC
317 AATGCCCCTAAGGGATATCTTCGACATGAAAGTATCTAGGTACCCCTAAAAGACTTAAAAAAGAC
** *
299668 TATAAAAGGAATGAACCTATCCTAAATGCCCACTATCGGCATAAAAGCGGACTCGGTGACAACCT
382 TATAAAAGGAATGAACCTATCCTAAACACCCACTATCGGCAT-AAAGCGAACTCGGTGACAACCT
* * *
299733 AAGAGTTGGTTCTAAAAAATTACGAAAAGACCCTTGAGGACCTTTGACATAAAAGTACCTGATAC
446 AAGAGTTAGTTCTAAAAAATTACAAAAAGACCCTAGAGGACCTTTGACATAAAAGTACCTGATAC
* *
299798 CCCTAAAGGACTTAAAAAGGTTTGAAATGGGATGAACCTATCCTAATTGCCCACCTTTGGCATAA
511 CCCTAAAGGACTAAAAAAGGTTTGAAATGGGATGAACCTATCCTAACTG-CCACCTTTGGCATAA
* * *
299863 AAGCGGACCCGACGATAACCTAGGAGTTGGTTCT
575 AAGCGGACCCAACGACAACCTAAGAGTTGGTTCT
* * * *
299897 AAAAAGTTACAAAAATACCTCTAGGGGATACCTTCGACATACAAGTACACGGTACCCCTAAATGA
1 AAAAA-TTACAAAAATACC-CTAGGGGATACCTTCGACGTAAAAGTACACGGTACCCTTAAAGGA
*
299962 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGTGGACC
64 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGAGGACC
* * *
300027 TGGCGACAACCTATGAGTTGGTTCT-AAAAATTACGAAAATACCCTTATGGGATACCTTCGATGT
129 CGGCGACAACCTATGAGTTGGTTCTAAAAAATTACGAAAATACCC-TAAGGGATACTTTCGATGT
* * *
300091 ATAAGTACCCGATACCCCTAAAGGACTTTAAAAGGTTTAAAATAGGACGAACCTATCCTAACTGC
193 A-AAGTACTCGATACCCCTAAAGGACTTAAAAAGGTTTAAAA-AGGATGAACCTATCCTAACTGC
* *
300156 CCACCTTTGGCATAAATGCAGACCCGGCGACAACCTAGGTGTTGGTTCTAAAAAATTACGAAAAT
256 CCACCTTTGGCATAAAAGCAGACCCGGCGACAACCTA-GAGTTGGTTCTAAAAAATTACGAAAAT
* * * * * *
300221 GCCCCTAAGGGATATCTTCGACATGAACGTATCTTGGTACCCTTAAAGGACTTAAAAATGATTAT
320 GCCCCTAAGGGATATCTTCGACATGAAAGTATCTAGGTACCCCTAAAAGACTTAAAAAAGACTAT
* * *
300286 -AAAGGAATGAACCTATCCTAAACACTCACCT-TTGGCAT-AAGCGAA-TCCGGTGACAACCTAG
385 AAAAGGAATGAACCTATCCTAAACACCCA-CTATCGGCATAAAGCGAACT-CGGTGACAACCTAA
* * * *
300347 GAGTTAGTTCTAAAAAATTACAAAAATACCCCTAGGGGATACCTTTGACGTAAAAGTA-CTCGCT
448 GAGTTAGTTCTAAAAAATTACAAAAAGA-CCCTAGAGG--ACCTTTGACATAAAAGTACCT-GAT
** *
300411 ACCTTTAAAGGACTAAAAAAGGTTTGAAATGGGATGAACCTATCCTAACTGCCACCTTTGGCCTA
509 ACCCCTAAAGGACTAAAAAAGGTTTGAAATGGGATGAACCTATCCTAACTGCCACCTTTGGCATA
*
300476 AAAGCGGACCCAACGACAACTTAAGAGTTGGTTCT
574 AAAGCGGACCCAACGACAACCTAAGAGTTGGTTCT
* * ** *
300511 ATAAAATTATAAAAATACCCCTAGGGGATACTTTCGACGTAAAAGTACTTGGTAGCCTTAAAGGA
1 A-AAAATTACAAAAATA-CCCTAGGGGATACCTTCGACGTAAAAGTACACGGTACCCTTAAAGGA
* * * *
300576 CTTTAAAATGACTATAAAAGGGATAAACCTATCCTAACTGCCCACCTTTGGTATAAAAGCA-GAC
64 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAG-AGGAC
* * ** *
300640 CCGGCGACAACCTATGAGTTGGTTCTAAAAAATTATGAAAATGCCCATGGGGGATACTTTCAATG
128 CCGGCGACAACCTATGAGTTGGTTCTAAAAAATTACGAAAATACCC-TAAGGGATACTTTCGATG
* ** *
300705 TACAAGTACTCGATACCCCTAAAGAACTTAAAAAAATTATAAAAGGGATGAACCTATCCTAACTG
192 TA-AAGTACTCGATACCCCTAAAGGACTTAAAAAGGTT-TAAAAAGGATGAACCTATCCTAACTG
* ** * *
300770 CCCACCTTTGGCATAAAAGTAGA-CCAACGACAACCTAAAGTTGGTT-TAAAAAATTACAAAAAT
255 CCCACCTTTGGCATAAAAGCAGACCCGGCGACAACCTAGAGTTGGTTCTAAAAAATTACGAAAAT
300833 ACCTCTGGAG
Statistics
Matches: 797, Mismatches: 120, Indels: 43
0.83 0.12 0.04
Matches are distributed among these distances:
611 1 0.00
612 60 0.08
613 14 0.02
614 221 0.28
615 307 0.39
616 35 0.04
617 42 0.05
618 116 0.15
619 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (608 bp):
AAAAATTACAAAAATACCCTAGGGGATACCTTCGACGTAAAAGTACACGGTACCCTTAAAGGACT
TAAAAAGGACTATAAAAGGGATGAACCTATCCTAACTGCCCACCTTTGGCATAAAAGAGGACCCG
GCGACAACCTATGAGTTGGTTCTAAAAAATTACGAAAATACCCTAAGGGATACTTTCGATGTAAA
GTACTCGATACCCCTAAAGGACTTAAAAAGGTTTAAAAAGGATGAACCTATCCTAACTGCCCACC
TTTGGCATAAAAGCAGACCCGGCGACAACCTAGAGTTGGTTCTAAAAAATTACGAAAATGCCCCT
AAGGGATATCTTCGACATGAAAGTATCTAGGTACCCCTAAAAGACTTAAAAAAGACTATAAAAGG
AATGAACCTATCCTAAACACCCACTATCGGCATAAAGCGAACTCGGTGACAACCTAAGAGTTAGT
TCTAAAAAATTACAAAAAGACCCTAGAGGACCTTTGACATAAAAGTACCTGATACCCCTAAAGGA
CTAAAAAAGGTTTGAAATGGGATGAACCTATCCTAACTGCCACCTTTGGCATAAAAGCGGACCCA
ACGACAACCTAAGAGTTGGTTCT
Found at i:302179 original size:13 final size:13
Alignment explanation
Indices: 302161--302185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
302151 AGATTGCACA
302161 GTATCGATACATT
1 GTATCGATACATT
302174 GTATCGATACAT
1 GTATCGATACAT
302186 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:302198 original size:20 final size:21
Alignment explanation
Indices: 302173--302225 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
302163 ATCGATACAT
*
302173 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
302193 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
302214 TGTATCGATACA
1 TGTATCGATACA
302226 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:302310 original size:20 final size:20
Alignment explanation
Indices: 302267--302318 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
302257 CTTAACTGTT
*
302267 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
302286 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
302306 TGTATCGATACAT
1 TGTATCGATACAT
302319 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:311404 original size:13 final size:13
Alignment explanation
Indices: 311386--311411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
311376 AAAACCCAGA
311386 TGTATCGATACAT
1 TGTATCGATACAT
311399 TGTATCGATACAT
1 TGTATCGATACAT
311412 GGGTTACTAT
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:312522 original size:20 final size:20
Alignment explanation
Indices: 312499--312548 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
312489 ACATTTAATT
312499 GTATCGATACATGTTGCACA
1 GTATCGATACATGTTGCACA
**
312519 GTATCGATACATGTTGCATT
1 GTATCGATACATGTTGCACA
312539 GTATCGATAC
1 GTATCGATAC
312549 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCACA
Found at i:312627 original size:19 final size:20
Alignment explanation
Indices: 312603--312653 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
312593 TAGCTAAACT
*
312603 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
312622 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
312642 TGTATCGATACA
1 TGTATCGATACA
312654 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:314254 original size:9 final size:9
Alignment explanation
Indices: 314240--314270 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
314230 CATCAAGGAC
314240 GATGAAGAT
1 GATGAAGAT
314249 GATGAAGAT
1 GATGAAGAT
*
314258 GATGATGAT
1 GATGAAGAT
314267 GATG
1 GATG
314271 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:318803 original size:21 final size:21
Alignment explanation
Indices: 318779--318825 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
318769 TTTGATGCTG
318779 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
318799 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
318820 ATTTTG
1 ATTTTG
318826 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:318964 original size:13 final size:13
Alignment explanation
Indices: 318946--318984 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
318936 ATAATCACCC
*
318946 TGTATCGATACAG
1 TGTATCGATACAA
318959 TGTATCGATACAA
1 TGTATCGATACAA
318972 TGTATCGATACAA
1 TGTATCGATACAA
318985 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:318995 original size:20 final size:20
Alignment explanation
Indices: 318970--319048 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
318960 GTATCGATAC
318970 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
318990 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
319015 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
319035 CATGTATCGATACA
1 AATGTATCGATACA
319049 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:321083 original size:15 final size:15
Alignment explanation
Indices: 321063--321093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
321053 ATTTCGTTTG
*
321063 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
321078 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
321093 G
1 G
321094 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:322926 original size:21 final size:21
Alignment explanation
Indices: 322897--322941 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
322887 AAGTTTTCAT
*
322897 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
322917 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
322939 TTT
1 TTT
322942 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:325177 original size:13 final size:13
Alignment explanation
Indices: 325159--325184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
325149 CAATTTTTTG
325159 TGTATCGATACAT
1 TGTATCGATACAT
325172 TGTATCGATACAT
1 TGTATCGATACAT
325185 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:325986 original size:14 final size:14
Alignment explanation
Indices: 325967--325995 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
325957 ATTCACGATA
325967 TACTTGGGTTTTAT
1 TACTTGGGTTTTAT
325981 TACTTGGGTTTTAT
1 TACTTGGGTTTTAT
325995 T
1 T
325996 TTTAAGCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TACTTGGGTTTTAT
Found at i:326687 original size:15 final size:15
Alignment explanation
Indices: 326667--326697 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
326657 TAAAAATATC
*
326667 CAAATTGAGGAAGCT
1 CAAATTGAAGAAGCT
326682 CAAATTGAAGAAGCT
1 CAAATTGAAGAAGCT
326697 C
1 C
326698 CAAACGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (15 bp):
CAAATTGAAGAAGCT
Found at i:328948 original size:20 final size:20
Alignment explanation
Indices: 328913--328953 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
328903 CAAATTTCTT
328913 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
328935 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
328954 TTCATAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:331288 original size:33 final size:33
Alignment explanation
Indices: 331223--331288 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
331213 TACACATTTA
*
331223 ATTGTATCGATACATGTTGCACAGTATTGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
* **
331256 ATTGTATGGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
331289 TTGAAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:331379 original size:13 final size:13
Alignment explanation
Indices: 331361--331386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
331351 TACACAAAGT
331361 ATGTATCGATACA
1 ATGTATCGATACA
331374 ATGTATCGATACA
1 ATGTATCGATACA
331387 CCATAAAATG
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):
ATGTATCGATACA
Found at i:331403 original size:33 final size:32
Alignment explanation
Indices: 331343--331406 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
331333 TAGCCAAACT
*
331343 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
331375 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
331407 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:332829 original size:20 final size:20
Alignment explanation
Indices: 332783--332836 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
332773 TTGTATCGAT
* *
332783 ACAA-TGTATCAATACATGT
1 ACAATTGTATCGATACATGG
*
332802 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
332821 ACAATTGTATCGATAC
1 ACAATTGTATCGATAC
332837 GTGAAATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 13 0.45
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:332905 original size:13 final size:13
Alignment explanation
Indices: 332884--332914 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
332874 CGATACATGG
*
332884 TACAATGTATCGA
1 TACATTGTATCGA
332897 TACATTGTATCGA
1 TACATTGTATCGA
332910 TACAT
1 TACAT
332915 AATGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:332910 original size:33 final size:33
Alignment explanation
Indices: 332868--332936 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
332858 CTACCACTGT
**
332868 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATAATGA-AATGTATCGATACA
*
332901 TTGTATCGATACATAATGAAATGTGTCGATACA
1 TTGTATCGATACATAATGAAATGTATCGATACA
332934 TTG
1 TTG
332937 CCTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATAATGAAATGTATCGATACA
Found at i:333978 original size:13 final size:13
Alignment explanation
Indices: 333960--333985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
333950 CATTTTATGG
333960 TGTATCGATACAT
1 TGTATCGATACAT
333973 TGTATCGATACAT
1 TGTATCGATACAT
333986 ACTGTGTGTA
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:333982 original size:33 final size:32
Alignment explanation
Indices: 333940--334003 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
333930 TACAAACCAA
**
333940 TGTATCGATACATTTTATGGTGTATCGATACAT
1 TGTATCGATACATACTAT-GTGTATCGATACAT
*
333973 TGTATCGATACATACTGTGTGTATCGATACA
1 TGTATCGATACATACTATGTGTATCGATACA
334004 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTATGTGTATCGATACAT
Found at i:340780 original size:13 final size:13
Alignment explanation
Indices: 340762--340786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
340752 CAATTCTTCA
340762 TGTATCGATACAT
1 TGTATCGATACAT
340775 TGTATCGATACA
1 TGTATCGATACA
340787 ATGTGTCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:340784 original size:33 final size:33
Alignment explanation
Indices: 340742--340806 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
340732 TTTGAGACAA
*
340742 TGTATCGATACAAT-TCTTCATGTATCGATACAT
1 TGTATCGATACAATGT-GTCATGTATCGATACAT
*
340775 TGTATCGATACAATGTGTCATGTATTGATACA
1 TGTATCGATACAATGTGTCATGTATCGATACA
340807 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTGTCATGTATCGATACAT
Found at i:341163 original size:20 final size:22
Alignment explanation
Indices: 341121--341167 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
341111 ACACTAGGTG
* *
341121 TAGGAGCTGCCCGATTGCGACC
1 TAGGAGCTGCCCGATCGCAACC
341143 TAGGAG-TG-CCGATCGCAACC
1 TAGGAGCTGCCCGATCGCAACC
341163 T-GGAG
1 TAGGAG
341168 GTAGCTACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.48
21 2 0.09
22 6 0.26
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (22 bp):
TAGGAGCTGCCCGATCGCAACC
Found at i:344570 original size:20 final size:20
Alignment explanation
Indices: 344544--344598 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
344534 AAAAAGATAG
*
344544 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
344564 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
344584 AATGTATCGATACAT
1 AATGTATCGATACAT
344599 CTGGGTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:345321 original size:13 final size:13
Alignment explanation
Indices: 345302--345341 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
345292 ATAGTAACCC
345302 ATGTATCGATACA
1 ATGTATCGATACA
*
345315 TTGTATCGATACA
1 ATGTATCGATACA
*
345328 ATGTATTGATACA
1 ATGTATCGATACA
345341 A
1 A
345342 AGAACATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:348285 original size:3 final size:3
Alignment explanation
Indices: 348277--348315 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
348267 GAGTCAACTC
* * *
348277 CAT CAT CAT CAT TAT CAT CAT CAT TAT CAT CAT CTT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
348316 TATCTTTGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (3 bp):
CAT
Found at i:348295 original size:12 final size:12
Alignment explanation
Indices: 348278--348310 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
348268 AGTCAACTCC
348278 ATCATCATCATT
1 ATCATCATCATT
348290 ATCATCATCATT
1 ATCATCATCATT
348302 ATCATCATC
1 ATCATCATC
348311 TTCATTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:349805 original size:72 final size:72
Alignment explanation
Indices: 349715--349859 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 72
349705 ATGGATTCTC
** * *
349715 TTATGTTCAGCTGTTGGAGACTTAAATTTATAGGCTTGAATGTTGACATACTCGTTGGAGATTGA
1 TTATGTTCAGCTACTGGAGACTTAAATTTATACGCTTGAATGTTGACATACTCGTTGAAGATTGA
349780 ATGATTG
66 ATGATTG
*
349787 TTATGTTTAGCTACTGGAGACTTAAATTTATACGCTTGAATGTTGACATACTCGTTGAAGATTGA
1 TTATGTTCAGCTACTGGAGACTTAAATTTATACGCTTGAATGTTGACATACTCGTTGAAGATTGA
349852 ATGATTG
66 ATGATTG
349859 T
1 T
349860 GTTTGTGGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (72 bp):
TTATGTTCAGCTACTGGAGACTTAAATTTATACGCTTGAATGTTGACATACTCGTTGAAGATTGA
ATGATTG
Found at i:350111 original size:13 final size:13
Alignment explanation
Indices: 350093--350118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
350083 ATACAATGAT
350093 ATGTATCGATACA
1 ATGTATCGATACA
350106 ATGTATCGATACA
1 ATGTATCGATACA
350119 TCTGGATGTG
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):
ATGTATCGATACA
Found at i:350213 original size:178 final size:179
Alignment explanation
Indices: 349990--350349 Score: 695
Period size: 178 Copynumber: 2.0 Consensus size: 179
349980 ATACAATTCT
349990 TTATGTATCGATACAATATGCCATGTATCGATACGAACAGTGGTAGGGTAGCTACTCCCAGTTTC
1 TTATGTATCGATACAATATGCCATGTATCGATACGAACAGTGGTAGGGTAGCTACTCCCAGTTTC
*
350055 ATGTATTGATACAATTGTGTAAGAATCGATACAATGAT-ATGTATCGATACAATGTATCGATACA
66 ATGTATCGATACAATTGTGTAAGAATCGATACAATGATCATGTATCGATACAATGTATCGATACA
350119 TCTGGATGTGTATCGATATATACAAGGGTTTTGACCTTTGTAGTCTTAG
131 TCTGGATGTGTATCGATATATACAAGGGTTTTGACCTTTGTAGTCTTAG
*
350168 TTATGTATCGATACATTATGCCATGTATCGATACGAACAGTGGTAGGGTAGCTACTCCCAGTTTC
1 TTATGTATCGATACAATATGCCATGTATCGATACGAACAGTGGTAGGGTAGCTACTCCCAGTTTC
350233 ATGTATCGATACAATTGTGTAAGAATCGATACAATGATCATGTATCGATACAATGTATCGATACA
66 ATGTATCGATACAATTGTGTAAGAATCGATACAATGATCATGTATCGATACAATGTATCGATACA
350298 TCTGGATGTGTATCGATATATACAAGGGTTTTGACCTTTGTAGTCTTAG
131 TCTGGATGTGTATCGATATATACAAGGGTTTTGACCTTTGTAGTCTTAG
350347 TTA
1 TTA
350350 ACCTTAATGT
Statistics
Matches: 179, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
178 101 0.56
179 78 0.44
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (179 bp):
TTATGTATCGATACAATATGCCATGTATCGATACGAACAGTGGTAGGGTAGCTACTCCCAGTTTC
ATGTATCGATACAATTGTGTAAGAATCGATACAATGATCATGTATCGATACAATGTATCGATACA
TCTGGATGTGTATCGATATATACAAGGGTTTTGACCTTTGTAGTCTTAG
Found at i:350290 original size:13 final size:13
Alignment explanation
Indices: 350272--350297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
350262 TACAATGATC
350272 ATGTATCGATACA
1 ATGTATCGATACA
350285 ATGTATCGATACA
1 ATGTATCGATACA
350298 TCTGGATGTG
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):
ATGTATCGATACA
Found at i:352359 original size:2 final size:2
Alignment explanation
Indices: 352352--352396 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
352342 CCTCTTTCTT
*
352352 TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC -C ATC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC
352394 TC T
1 TC T
352397 ATTTATCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 37 0.95
3 1 0.03
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:352481 original size:38 final size:36
Alignment explanation
Indices: 352438--352519 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 36
352428 ATCCCCATTA
352438 CTCTTTTAGTTTTGCTTTTGGATTCTCAAATAAATTTC
1 CTCTTTTAGTTTT--TTTTGGATTCTCAAATAAATTTC
** *
352476 CTCTTTCCG---TTTTTGGATTCTCAAATTAATTTC
1 CTCTTTTAGTTTTTTTTGGATTCTCAAATAAATTTC
352509 CTC-TTTAGTTT
1 CTCTTTTAGTTT
352520 CAAAATCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
32 3 0.08
33 25 0.69
35 1 0.03
38 7 0.19
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (36 bp):
CTCTTTTAGTTTTTTTTGGATTCTCAAATAAATTTC
Found at i:353046 original size:37 final size:38
Alignment explanation
Indices: 352979--353063 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 38
352969 GTCAATTTTA
*
352979 AAAAGC-AAATTCAAAGTTAACAAAAGTCAAAAGTCAAT
1 AAAAGCTAAATTCAAAG-TAACAAAAGTCAAAAATCAAT
*
353017 AAAAGTTAAATTCAAA-TAACAAAAGTCAAAAATCAAT
1 AAAAGCTAAATTCAAAGTAACAAAAGTCAAAAATCAAT
353054 AAAAGCTAAA
1 AAAAGCTAAA
353064 ATAAAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 29 0.67
38 5 0.12
39 9 0.21
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.19
Consensus pattern (38 bp):
AAAAGCTAAATTCAAAGTAACAAAAGTCAAAAATCAAT
Found at i:353071 original size:37 final size:37
Alignment explanation
Indices: 352996--353071 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
352986 AATTCAAAGT
* * * *
352996 TAACAAAAGTCAAAAGTCAATAAAAGTTAAATTCAAA
1 TAACAAAAGTCAAAAATCAATAAAAGCTAAAATAAAA
353033 TAACAAAAGTCAAAAATCAATAAAAGCTAAAATAAAA
1 TAACAAAAGTCAAAAATCAATAAAAGCTAAAATAAAA
353070 TA
1 TA
353072 TAGGAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.20
Consensus pattern (37 bp):
TAACAAAAGTCAAAAATCAATAAAAGCTAAAATAAAA
Done.