Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 89 of 189
Found at i:24568950 original size:14 final size:17
Alignment explanation
Indices: 24568931--24568968 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
24568921 ATTTATTTCT
24568931 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
24568945 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
24568962 TAATATA
1 TAATATA
24568969 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:24568986 original size:11 final size:11
Alignment explanation
Indices: 24568948--24568986 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
24568938 ATATTTATAA
24568948 TATAATTAATT
1 TATAATTAATT
*
24568959 TAATAATATACTT
1 T-ATAAT-TAATT
24568972 TATAATTAATT
1 TATAATTAATT
24568983 TATA
1 TATA
24568987 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:24574126 original size:6 final size:6
Alignment explanation
Indices: 24574115--24574139 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24574105 AATTACACTG
24574115 GCACCT GCACCT GCACCT GCACCT G
1 GCACCT GCACCT GCACCT GCACCT G
24574140 AAGACTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (6 bp):
GCACCT
Found at i:24585740 original size:6 final size:6
Alignment explanation
Indices: 24585729--24585763 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
24585719 AAGGCTTAAG
24585729 TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA TCTGA
1 TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA TCTGA
24585764 CTGTGTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (6 bp):
TCTGAA
Found at i:24588321 original size:13 final size:13
Alignment explanation
Indices: 24588303--24588327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24588293 TTTATTTAGT
24588303 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
24588316 GTTTAGGGTTTA
1 GTTTAGGGTTTA
24588328 GGGTTAAGAA
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:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:24590457 original size:3 final size:3
Alignment explanation
Indices: 24590449--24590500 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
24590439 TATTTTAGTG
* * * *
24590449 TTA TTA TTA TTA TTA CTG TTA TTA TTA TTA CTA CTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
24590495 TTA TTA
1 TTA TTA
24590501 GTTTTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:24590468 original size:18 final size:18
Alignment explanation
Indices: 24590437--24590500 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
24590427 TGTTTAATTA
*
24590437 ATTATT-TTAGTGTTATT
1 ATTATTATTACTGTTATT
24590454 ATTATTATTACTGTTATT
1 ATTATTATTACTGTTATT
* *
24590472 ATTATTACTACTATTATT
1 ATTATTATTACTGTTATT
24590490 AATTATTATTA
1 -ATTATTATTA
24590501 GTTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.15
18 26 0.63
19 9 0.22
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTATTATTACTGTTATT
Found at i:24590472 original size:15 final size:15
Alignment explanation
Indices: 24590450--24590500 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
24590440 ATTTTAGTGT
24590450 TATTATTATTATTAC
1 TATTATTATTATTAC
*
24590465 TGTTATTATTATTAC
1 TATTATTATTATTAC
* *
24590480 TACTATTATTAATTAT
1 TATTATTATT-ATTAC
24590496 TATTA
1 TATTA
24590501 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:24595498 original size:12 final size:12
Alignment explanation
Indices: 24595481--24595505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24595471 ACCATAGTGG
24595481 AAGTATAAACAT
1 AAGTATAAACAT
24595493 AAGTATAAACAT
1 AAGTATAAACAT
24595505 A
1 A
24595506 CATCTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAGTATAAACAT
Found at i:24600321 original size:9 final size:9
Alignment explanation
Indices: 24600292--24600323 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
24600282 TGAGTTTTCG
24600292 AATTCGAAT
1 AATTCGAAT
*
24600301 AACTCGAAT
1 AATTCGAAT
24600310 AATTCGAAT
1 AATTCGAAT
24600319 AATTC
1 AATTC
24600324 AAAAATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24601252 original size:5 final size:5
Alignment explanation
Indices: 24601242--24601267 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24601232 GAACAAATAT
24601242 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
24601268 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:24609057 original size:14 final size:14
Alignment explanation
Indices: 24609038--24609069 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24609028 AAATTAAATT
*
24609038 TCAAATTATTTGAA
1 TCAAATTAATTGAA
24609052 TCAAATTAATTGAA
1 TCAAATTAATTGAA
24609066 TCAA
1 TCAA
24609070 CTCTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (14 bp):
TCAAATTAATTGAA
Found at i:24611738 original size:17 final size:17
Alignment explanation
Indices: 24611716--24611752 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24611706 AATGACATGA
*
24611716 GTTCACATATCATAAGG
1 GTTCACATATCACAAGG
24611733 GTTCACATATCACAAGG
1 GTTCACATATCACAAGG
24611750 GTT
1 GTT
24611753 TGCAAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (17 bp):
GTTCACATATCACAAGG
Found at i:24611858 original size:24 final size:23
Alignment explanation
Indices: 24611808--24611859 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
24611798 TATAGGCTCG
*
24611808 CATATTTATATAAGGTTTGCATA
1 CATATTTATATAAGGTTCGCATA
* *
24611831 -ATATTTTTATAGGGTTCGCATA
1 CATATTTATATAAGGTTCGCATA
24611853 CCATATT
1 -CATATT
24611860 GTGGGGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 19 0.79
24 5 0.21
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (23 bp):
CATATTTATATAAGGTTCGCATA
Found at i:24615999 original size:43 final size:43
Alignment explanation
Indices: 24615899--24616316 Score: 342
Period size: 43 Copynumber: 9.8 Consensus size: 43
24615889 ATACGAAGTG
* * *
24615899 TATACTAGCACACATAATGCTTCATCGGATATACCGAAA-AAC
1 TATACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
24615941 TATACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
1 TATACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
* *
24615984 TATACTAGCACACACAATGCATTATCGAATATA-CTAAAGCAAC
1 TATACTAGCACACACAATGCATCATCGAATATACCGAAA-CAAC
* * * * * * *
24616027 TATACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAA
1 TATACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
* * * ** *
24616070 TATACT-G-GCACACAGTGCATAATC-AGATATGTC-AAAGCATC
1 TATACTAGCACACACAATGCATCATCGA-ATATACCGAAA-CAAC
* * *
24616111 TATACTGGCACACATAGTGCATCATCGAAT-TACC-AAAGCAAC
1 TATACTAGCACACACAATGCATCATCGAATATACCGAAA-CAAC
* * * * *
24616153 TATAC-AGGCACACATAGTGCATCATC-AGATAAACC-AAAGTAAA
1 TATACTA-GCACACACAATGCATCATCGA-ATATACCGAAA-CAAC
* ** *
24616196 TATACTAGCACACACAGTGCATCATC-ATATATATTGAAGCAAC
1 TATACTAGCACACACAATGCATCATCGA-ATATACCGAAACAAC
* *
24616239 TATACT-G-ACACACATAGTGCATCATTGGATATACCGAAACAAC
1 TATACTAGCACACACA-A-TGCATCATCGAATATACCGAAACAAC
* *
24616282 TATACTAGCACACACAATGCATCATTGGATATACC
1 TATACTAGCACACACAATGCATCATCGAATATACC
24616317 AAAGGACACA
Statistics
Matches: 310, Mismatches: 48, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.01
41 34 0.11
42 78 0.25
43 181 0.58
44 8 0.03
45 7 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (43 bp):
TATACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
Found at i:24616220 original size:169 final size:170
Alignment explanation
Indices: 24615940--24616316 Score: 440
Period size: 169 Copynumber: 2.2 Consensus size: 170
24615930 TACCGAAAAA
24615940 CTATACTAGCACACACAATGCATCATCGAATATACCGAAACAACTATACTAGCACACACAATGCA
1 CTATACTAGCACACACAATGCATCATCGAATATACCGAAACAACTATACTAGCACACACAATGCA
* * * * * *
24616005 TTATCGAATATACTAAAGCAACTATACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAA
66 TCATCGAATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGCAAA
*
24616070 TATACTGGCACACAGTGCATAATCAGATATGTCAAAGCAT
131 TATACTGACACACAGTGCATAATCAGATATGTCAAAGCAT
* * * * *
24616110 CTATACTGGCACACATAGTGCATCATCGAAT-TACC-AAAGCAACTATAC-AGGCACACATAGTG
1 CTATACTAGCACACACAATGCATCATCGAATATACCGAAA-CAACTATACTA-GCACACACAATG
* * * *
24616172 CATCATC-AGATAAACCAAAGTAAATATACTAGCACACACAGTGCATCATCATATATATTGAAGC
64 CATCATCGA-ATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGC
* * ** ** *
24616236 AACTATACTGACACACATAGTGCATCATTGGATATACCGAAA-CAA
128 AAATATACTGACACAC--AGTGCATAATCAGATATGTC-AAAGCAT
* *
24616281 CTATACTAGCACACACAATGCATCATTGGATATACC
1 CTATACTAGCACACACAATGCATCATCGAATATACC
24616317 AAAGGACACA
Statistics
Matches: 172, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
168 5 0.03
169 89 0.52
170 28 0.16
171 43 0.25
172 7 0.04
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (170 bp):
CTATACTAGCACACACAATGCATCATCGAATATACCGAAACAACTATACTAGCACACACAATGCA
TCATCGAATAAACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACTGAAGCAAA
TATACTGACACACAGTGCATAATCAGATATGTCAAAGCAT
Found at i:24616295 original size:212 final size:212
Alignment explanation
Indices: 24615899--24616295 Score: 509
Period size: 212 Copynumber: 1.9 Consensus size: 212
24615889 ATACGAAGTG
* *
24615899 TATACTAGCACACATAATGCTTCATCGGATATACCGAAAAACTATACTAGCACACACAATGCATC
1 TATACTAGCACACATAATGCATCATCGAATATACCGAAAAACTATACTAGCACACACAATGCATC
* * *
24615964 ATCGAATATACCGAAACAACTATACTAGCACACACAATGCATTATCGAATATACTAAAGCAACTA
66 ATCGAATAAACCGAAACAAATATACTAGCACACACAATGCATCATCGAATATACTAAAGCAACTA
* * * *
24616029 TACTGGCACACACAGTGCATCATCGGATAAACTGAAGCAAATATACTGGCACACAGTGCATAATC
131 TACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACAGTGCATAATC
24616094 AGATATGTCAAAGCATC
196 AGATATGTCAAAGCATC
* * * *
24616111 TATACTGGCACACATAGTGCATCATCGAAT-TACC-AAAGCAACTATAC-AGGCACACATAGTGC
1 TATACTAGCACACATAATGCATCATCGAATATACCGAAA--AACTATACTA-GCACACACAATGC
* * * *
24616173 ATCATC-AGATAAACC-AAAGTAAATATACTAGCACACACAGTGCATCATC-ATATATATTGAAG
63 ATCATCGA-ATAAACCGAAA-CAAATATACTAGCACACACAATGCATCATCGA-ATATACTAAAG
* * * *
24616235 CAACTATACTGACACACATAGTGCATCATTGGATATACCGAAACAACTATACTAGCACACA
125 CAACTATACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACA
24616296 CAATGCATCA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
210 3 0.02
211 10 0.06
212 145 0.92
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (212 bp):
TATACTAGCACACATAATGCATCATCGAATATACCGAAAAACTATACTAGCACACACAATGCATC
ATCGAATAAACCGAAACAAATATACTAGCACACACAATGCATCATCGAATATACTAAAGCAACTA
TACTGACACACACAGTGCATCATCGGATAAACCGAAACAAATATACTAGCACACAGTGCATAATC
AGATATGTCAAAGCATC
Found at i:24616330 original size:72 final size:72
Alignment explanation
Indices: 24616254--24616394 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
24616244 TGACACACAT
** * * * *
24616254 AGTGCATCATTGGATATACCGAA-ACAACTATACTAGCACACACAATGCATCATTGGATATACCA
1 AGTGCATCATTAAATATACCGAAGA-AAATATACTAGCACACACAATACATCATCGAATATACCA
24616318 AAGGACAC
65 AAGGACAC
* * * * *
24616326 AGTGCATCATTAAATATATCGAAGAAAATATATTGGCACACATAGTACATCATCGAATATACCAA
1 AGTGCATCATTAAATATACCGAAGAAAATATACTAGCACACACAATACATCATCGAATATACCAA
24616391 AGGA
66 AGGA
24616395 TAACCTGTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 56 0.98
73 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (72 bp):
AGTGCATCATTAAATATACCGAAGAAAATATACTAGCACACACAATACATCATCGAATATACCAA
AGGACAC
Found at i:24620332 original size:35 final size:35
Alignment explanation
Indices: 24620263--24620390 Score: 175
Period size: 35 Copynumber: 3.6 Consensus size: 35
24620253 ATTACATCGA
*
24620263 CAATCCAACCAAAACACACCAGATGCTCACAAGAGC
1 CAATCCAACCAAAACACACCA-ATGCTCATAAGAGC
* *
24620299 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* **
24620334 TAATCCTTCCAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCAAAACACACCAATGCTCATAAGAGC
* *
24620369 TAATCCAACCGAAACACACCAA
1 CAATCCAACCAAAACACACCAA
24620391 AACAGAGAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 64 0.77
36 19 0.23
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.13
Consensus pattern (35 bp):
CAATCCAACCAAAACACACCAATGCTCATAAGAGC
Found at i:24621841 original size:70 final size:70
Alignment explanation
Indices: 24621680--24621895 Score: 236
Period size: 70 Copynumber: 3.1 Consensus size: 70
24621670 GGTTGTTACA
* * *
24621680 GGTGTTGTGGCGAAATATT-AAATGAGTGAAGTAACAGTTTTGTGGCGGAATATTAAATGAATGA
1 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGA
**
24621744 AGTAAG
65 AGTATC
**
24621750 GGTGTTGTGGTAAAATATTAAAATAATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGAA
24621815 GTATC
66 GTATC
** * * *** *** * * *
24621820 GGTGTTGTGGCGGTATGTTAAAAGAATGAAGTATTGGTGTTGTAATGGGATGTTAATTGAAAGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGAA
24621885 GTATC
66 GTATC
24621890 GGTGTT
1 GGTGTT
24621896 CTAACGAAAT
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
70 119 0.97
71 4 0.03
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGCGGGATATTAAATGAATGAA
GTATC
Found at i:24621853 original size:35 final size:35
Alignment explanation
Indices: 24621680--24621862 Score: 206
Period size: 35 Copynumber: 5.2 Consensus size: 35
24621670 GGTTGTTACA
* *
24621680 GGTGTTGTGGCGAAATATTAAATGAGTGAAGTAAC
1 GGTGTTGTGGCGGAATATTAAATGAATGAAGTAAC
* * *
24621715 AGTTTTGTGGCGGAATATTAAATGAATGAAGTAAG
1 GGTGTTGTGGCGGAATATTAAATGAATGAAGTAAC
***
24621750 GGTGTTGTGGTAAAATATTAAAAT-AATGAAGTAAC
1 GGTGTTGTGGCGGAATATT-AAATGAATGAAGTAAC
* * *
24621785 AGTGTTGTGGCGGGATATTAAATGAATGAAGTATC
1 GGTGTTGTGGCGGAATATTAAATGAATGAAGTAAC
* * * **
24621820 GGTGTTGTGGCGGTATGTTAAAAGAATGAAGTATT
1 GGTGTTGTGGCGGAATATTAAATGAATGAAGTAAC
24621855 GGTGTTGT
1 GGTGTTGT
24621863 AATGGGATGT
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
34 4 0.03
35 116 0.94
36 4 0.03
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.32
Consensus pattern (35 bp):
GGTGTTGTGGCGGAATATTAAATGAATGAAGTAAC
Found at i:24621873 original size:35 final size:35
Alignment explanation
Indices: 24621770--24621901 Score: 131
Period size: 35 Copynumber: 3.8 Consensus size: 35
24621760 TAAAATATTA
* * ** *
24621770 AAAT-AATGAAGTAACAGTGTTGTGGCGGGATATT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
** *
24621804 AAATGAATGAAGTATCGGTGTTGTGGCGGTATGTT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
* * *
24621839 AAAAGAATGAAGTATTGGTGTTGTAATGGGATGTT
1 AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
* * *
24621874 AATTGAAAGAAGTATCGGTGTTCTAACG
1 AAATGAATGAAGTATCGGTGTTGTAACG
24621902 AAATTTTAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 4 0.05
35 77 0.95
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (35 bp):
AAATGAATGAAGTATCGGTGTTGTAACGGGATGTT
Found at i:24625389 original size:3 final size:3
Alignment explanation
Indices: 24625377--24625405 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24625367 AAAGTAAAAG
24625377 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24625406 AGAAACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24626976 original size:21 final size:21
Alignment explanation
Indices: 24626932--24626976 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24626922 AGAAGTTAGG
** *
24626932 GTTGTATCGGTAGAACCCTGA
1 GTTGTATCAATAGAACCCTCA
*
24626953 GTTGTATCAATAGAACTCTCA
1 GTTGTATCAATAGAACCCTCA
24626974 GTT
1 GTT
24626977 CTACTGGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (21 bp):
GTTGTATCAATAGAACCCTCA
Found at i:24631294 original size:357 final size:356
Alignment explanation
Indices: 24630577--24631226 Score: 866
Period size: 357 Copynumber: 1.8 Consensus size: 356
24630567 TTTTAATAAA
*
24630577 AGCAAATGATAAATTGACCACCTTGGAAGGAAGCCATATGGACACTTGACCTTCTAAGTTCTAAA
1 AGCAAATGATAAATTGACCACCTCGGAAGGAAG-C--ATGGACACTTGACC-TCTAAGTTCTAAA
* *
24630642 TTGGTGTATTGCCAGTAGAAGATTAGAGAGTAAATGCCATGAAGGAATTTAAATTCAAGTTTACA
62 TTGGTGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACA
* * * *
24630707 AATGAGAAAATAAGAAGCTGTAATCTTAGATTATTACATAAAATGGTAAATAGAAGATCAGCATT
127 AATGAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGAAAATAGAAGATCAGCATT
* *
24630772 CAATAAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAGTAGAATTTTGCATAGCATCAATGG
192 CAATAAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAATAGAATTTAGCATAGCATC-A--G
*
24630837 GTTATAATGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGT
254 GATATAATGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGT
** * *
24630902 AGGCTTCAATCATTGGATGAAGTGACAATTTGACATTT
319 ACACTTCAATCATTAGATGAAGCGACAATTTGACATTT
* * *
24630940 AGCAAATGATAAATTGACCATCTCGGAATGAAG-ATGGACAGTTGA-C-CTAAGTTCTAACATTG
1 AGCAAATGATAAATTGACCACCTCGGAAGGAAGCATGGACACTTGACCTCTAAGTTCTAA-ATTG
* * * *
24631002 GTGTATTGCCAGTACAAGATTAGAGAGTAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGAT
65 GTGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACAAAT
** *
24631067 GAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGCAAACATTAGAAGATTGGGATT
130 GAGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGG-AAA-A-TAGAAGATCAGCATT
* *
24631132 C-ATAAGGAATAAGTGCAAAGCTAG-ATGCTACTAGA-AATAATAGAATTTAGCATAGCA-C-GG
192 CAATAAGGAATAAGTACAAAGCTAGCA-GCTACCAGAGAA-AATAGAATTTAGCATAGCATCAGG
* * *
24631192 ATATAATGAAATTGCGGCCGCTTAAGGAGATAAGA
255 ATATAATGAAACTGCAGCCACTTAAGGAGATAAGA
24631227 CGTGGTTACA
Statistics
Matches: 256, Mismatches: 25, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
354 33 0.13
356 11 0.04
357 103 0.40
358 7 0.03
359 59 0.23
360 13 0.05
363 30 0.12
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (356 bp):
AGCAAATGATAAATTGACCACCTCGGAAGGAAGCATGGACACTTGACCTCTAAGTTCTAAATTGG
TGTATTGCCAGTACAAGATTAGAGAGTAAATGCCATGAAGGAATTCAAATTCAAGTTTACAAATG
AGAAAATAAGAAGCTGCAATCTAAGATTATTACACAAAATGGAAAATAGAAGATCAGCATTCAAT
AAGGAATAAGTACAAAGCTAGCAGCTACCAGAGAAAATAGAATTTAGCATAGCATCAGGATATAA
TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAGCAATAAAAATAAGGTACACTTC
AATCATTAGATGAAGCGACAATTTGACATTT
Found at i:24632929 original size:60 final size:60
Alignment explanation
Indices: 24632817--24632992 Score: 164
Period size: 60 Copynumber: 2.9 Consensus size: 60
24632807 AAAAAACACG
* * * * * *
24632817 GGTACTTAATTGTGACAAAAAAATAAACTCAAGTACCTAATTAAACACTGAAGCT-AAACTTA
1 GGTACTTAAATGGGAC--AAAAA-AAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
* *
24632879 GGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAG-TCAAACTCA
1 GGTACTTAAATGGGACAAA-AAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
* * * *
24632939 AGTAC-CAAATTGGGAC-AAAAAAACTCAAATACCGAATTGAACATTGAAGC-CAAA
1 GGTACTTAAA-TGGGACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAA
24632993 TTCATGTATC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
58 31 0.32
59 6 0.06
60 43 0.45
61 2 0.02
62 14 0.15
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (60 bp):
GGTACTTAAATGGGACAAAAAAAACTCAAGTACCAAATTGAACATTGAAGCTCAAACTCA
Found at i:24633754 original size:25 final size:25
Alignment explanation
Indices: 24633709--24633757 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
24633699 TTTGACAAGT
24633709 TTAGGTACAAATTGAGAAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAAGC
24633734 TTAGGTACCAAATT-AGGAAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAAA
24633758 ATGTCAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.20
Consensus pattern (25 bp):
TTAGGTACAAATTGAGAAAAAAAGC
Found at i:24638468 original size:88 final size:87
Alignment explanation
Indices: 24638319--24638764 Score: 412
Period size: 88 Copynumber: 5.1 Consensus size: 87
24638309 AGAGTAGATC
* * * *
24638319 GGTTAAAAATAACAGATCTTGCCTTCCTGTGCCGACAGCGAAGCAGATCGAAGACGCCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGAC-ACAGCCTTG
*
24638384 CCTCCCTGGGTTGCAGCGGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
* *
24638407 GGTTAAAAATAGCAGATCTTACCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACATCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACA-CAGCCTTG
** *
24638472 CCTCCCTGGGTTACAGCAGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
* * *
24638495 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCAAAGTAGATCGAAGACTCCAGCCTTA
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGAC-ACAGCCTTG
* * * ** ** * *
24638560 TCTCCTTGAGCAGTTGTGGAGTA
65 CCTCCCTGGGTGGCAGCGGAGCA
* * ** * ** * * * * *
24638583 GGTTGAAAATTA-TAGATCTTATCTCCCTAAGCAG-TAGCGGAGTAGATTGAAGACACTAACCTT
1 GGTT-AAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACAC-AGCCTT
* *
24638646 GCCTCCCTTGGTGGCAG-GAGAACA
64 GCCTCCCTGGGTGGCAGCG-GAGCA
* * ** * *
24638670 GGTTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGACACTAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACAC-AGCCTTG
* *
24638735 CCTCCCTCGGTGGCAGTGGAGCA
65 CCTCCCTGGGTGGCAGCGGAGCA
24638758 GGTTAAA
1 GGTTAAA
24638765 GATTACATAT
Statistics
Matches: 285, Mismatches: 65, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
86 7 0.02
87 49 0.17
88 222 0.78
89 7 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (87 bp):
GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGTAGATCGAAGACACAGCCTTGC
CTCCCTGGGTGGCAGCGGAGCA
Found at i:24638716 original size:175 final size:175
Alignment explanation
Indices: 24638319--24638804 Score: 476
Period size: 175 Copynumber: 2.8 Consensus size: 175
24638309 AGAGTAGATC
* ** * * * *
24638319 GGTTAAAAATAACAGATCTTGCCTTCCTGTGCCGACAGCGAAGCAGATCGAAGACGCCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTA
* ** * * * * ** * * *
24638384 CCTCCCTGGGTTGCAGCGGAGCAGGTTAAA-AATAGCAGATCTTACCTTCCTGCGCCGACAGCGA
66 CCTCCCTCGGCAGCAGTGGAGCAGGTTAAAGATTA-CAGATCTTATCTCCCTAAGCAG-TAGCGG
* * * *
24638448 AGCAGATCGAAGACA-TCAGCCTTGCCTCCCTGGGTTACAGCAGAGCA
129 AGCAGATTGAAGACACT-AACCTTGCCTCCCTGGGTGACAGCAGAACA
* *
24638495 GGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCAAAGTAGATCGAAGACTCCAGCCTTA
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTA
* * ** * *
24638560 TCT-CCTTGAGCAGTTGTGGAGTAGGTTGAAA-ATTATAGATCTTATCTCCCTAAGCAGTAGCGG
66 CCTCCCTCG-GCAGCAGTGGAGCAGGTT-AAAGATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * * *
24638623 AGTAGATTGAAGACACTAACCTTGCCTCCCTTGGTGGCAGGAGAACA
129 AGCAGATTGAAGACACTAACCTTGCCTCCCTGGGTGACAGCAGAACA
* * * * ** * *
24638670 GGTTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGACACTAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTA
** * *
24638735 CCTCCCTCGGTGGCAGTGGAGCAGGTTAAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAG
66 CCTCCCTCGGCAGCAGTGGAGCAGGTTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGCGGAG
24638800 CAGAT
131 CAGAT
24638805 CGCATCCAGC
Statistics
Matches: 253, Mismatches: 52, Indels: 11
0.80 0.16 0.03
Matches are distributed among these distances:
174 3 0.01
175 150 0.59
176 94 0.37
177 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (175 bp):
GGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAGCCTTA
CCTCCCTCGGCAGCAGTGGAGCAGGTTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGCGGAG
CAGATTGAAGACACTAACCTTGCCTCCCTGGGTGACAGCAGAACA
Found at i:24638866 original size:44 final size:44
Alignment explanation
Indices: 24638817--24638914 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
24638807 CATCCAGCCT
* * *
24638817 TATCTCCCTGGTCAGCAGTGGAATATGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
*
24638861 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCT
1 TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
24638905 TATCTCCCTG
1 TATCTCCCTG
24638915 AAGTTACAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGGGGAATAGGTTGAAGATTGAGAATCC
Found at i:24639008 original size:44 final size:44
Alignment explanation
Indices: 24638900--24639010 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
24638890 GAAGATTGAG
* * * *
24638900 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGGAGATTAAAACCAAT
*
24638944 AATCCTATCTCCCTGAAGTTGCAATGGAGCGA-ATTAAAACCAA-
1 AATCTTATCTCCCTGAAGTTGCAATGGAG-GAGATTAAAACCAAT
*
24638987 AGATCTTATCTCTCTGAAGTTGCA
1 A-ATCTTATCTCCCTGAAGTTGCA
24639011 GATAGCAGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 56 0.97
45 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGGAGATTAAAACCAAT
Found at i:24639130 original size:44 final size:43
Alignment explanation
Indices: 24639033--24639144 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
24639023 CATCTGGTCT
* * *
24639033 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGAAAATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAAACTGAG-AAGAAAATCC
* * *
24639077 TATCCCCCTAAAATTGCAGTGGAGCAAACTGA-ATGAATAAGTCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAAACTGAGAAGAA-AA-TCC
*
24639121 TATCTCCCTAAAGTTGTAGTGGAG
1 TATCTCCCTAAAGTTGCAGTGGAG
24639145 TGGATTAGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 4 0.07
43 2 0.04
44 51 0.89
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (43 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAAACTGAGAAGAAAATCC
Found at i:24640577 original size:14 final size:15
Alignment explanation
Indices: 24640543--24640577 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
24640533 TAAATCCATT
24640543 TTTATATTTAAGTAC
1 TTTATATTTAAGTAC
24640558 TTTATATTTAAGTA-
1 TTTATATTTAAGTAC
24640572 TTTATA
1 TTTATA
24640578 CAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTATATTTAAGTAC
Found at i:24649069 original size:6 final size:6
Alignment explanation
Indices: 24649060--24649086 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24649050 AGAAGGACAA
24649060 GGACTC GGACTC GGACTC GGACTC GGA
1 GGACTC GGACTC GGACTC GGACTC GGA
24649087 TTCAAGCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.37, T:0.15
Consensus pattern (6 bp):
GGACTC
Found at i:24650975 original size:13 final size:13
Alignment explanation
Indices: 24650957--24650981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24650947 TTGAATTCTA
24650957 ATTTTTAAATTTC
1 ATTTTTAAATTTC
24650970 ATTTTTAAATTT
1 ATTTTTAAATTT
24650982 TAGGCTACTA
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:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTAAATTTC
Found at i:24661456 original size:2 final size:2
Alignment explanation
Indices: 24661449--24661509 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
24661439 TCTATTCCCT
24661449 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
24661491 TC TC TC TC TT TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC T
24661510 GTAAAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:24671859 original size:30 final size:30
Alignment explanation
Indices: 24671813--24671995 Score: 234
Period size: 30 Copynumber: 6.2 Consensus size: 30
24671803 GTATATGTTT
* *
24671813 TATATATTTCCGAATTGATTTGTATATGAA
1 TATACATTGCCGAATTGATTTGTATATGAA
** *
24671843 TATACATTTTCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGAA
*
24671873 TATACATCGCCGAATTGATTTGTATATGGAA
1 TATACATTGCCGAATTGATTTGTATAT-GAA
24671904 -ATACATTGCCGAATTGATTTGTATATTG-A
1 TATACATTGCCGAATTGATTTGTATA-TGAA
**
24671933 TATACATTGATGAATTGATTTGTATATGAA
1 TATACATTGCCGAATTGATTTGTATATGAA
24671963 TATACATTGCCG--TTGATTTGTATATG--
1 TATACATTGCCGAATTGATTTGTATATGAA
24671989 TATACAT
1 TATACAT
24671996 ATATATTGTT
Statistics
Matches: 137, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.05
28 14 0.10
29 3 0.02
30 110 0.80
31 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGAA
Found at i:24672188 original size:41 final size:40
Alignment explanation
Indices: 24672137--24672216 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
24672127 AAGGTGTGAT
* * *
24672137 TTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATATGA
1 TTCGTATAAGACCATGCCTAGGACAGTGGCATCG-ATATGA
* *
24672178 TTCGTATAAGACCCTGCCTGGGACAGTGGCATCGATATG
1 TTCGTATAAGACCATGCCTAGGACAGTGGCATCGATATG
24672217 CGTTAACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
TTCGTATAAGACCATGCCTAGGACAGTGGCATCGATATGA
Found at i:24674542 original size:32 final size:32
Alignment explanation
Indices: 24674475--24674547 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
24674465 TAACAGTTGG
* * *
24674475 AACTGAATT-TTAAAATATAAAAAACTAGATG
1 AACTAAATTCTTAAAATATAAAAAACTAAATA
* *
24674506 AACTATATTCTTAAAATA-AATAAAATTAAATA
1 AACTAAATTCTTAAAATATAA-AAAACTAAATA
24674538 AACTAAATTC
1 AACTAAATTC
24674548 CAAATTTACG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
31 9 0.26
32 25 0.74
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (32 bp):
AACTAAATTCTTAAAATATAAAAAACTAAATA
Found at i:24676617 original size:19 final size:18
Alignment explanation
Indices: 24676593--24676652 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
24676583 TTTAACAAAA
24676593 TTTTTAAAACTTTATAAAT
1 TTTTTAAAACTTT-TAAAT
* *
24676612 TTTTTATAACTTTTATGAT
1 TTTTTAAAACTTTTA-AAT
*
24676631 TTTTTAATAATTTTTAAAT
1 TTTTTAA-AACTTTTAAAT
24676650 TTT
1 TTT
24676653 AGAAGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.06
19 25 0.74
20 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTAAAACTTTTAAAT
Found at i:24686679 original size:3 final size:3
Alignment explanation
Indices: 24686671--24686701 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24686661 TTCTCAACTT
*
24686671 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24686702 ATATATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:24687413 original size:14 final size:14
Alignment explanation
Indices: 24687391--24687439 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
24687381 CACAGATGGT
24687391 AATCAGAATATTAA
1 AATCAGAATATTAA
*
24687405 AATCTGAATATTATA
1 AATCAGAATATTA-A
24687420 TGAATCAGCAATATTAA
1 --AATCAG-AATATTAA
24687437 AAT
1 AAT
24687440 ATGTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
17 6 0.21
18 7 0.24
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (14 bp):
AATCAGAATATTAA
Found at i:24687628 original size:38 final size:38
Alignment explanation
Indices: 24687583--24687659 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
24687573 TGAATCAAAG
24687583 TTAATTGGTTCATGTAA-CAACAAAAAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAACCAA-AAAAAAAAAAGAGTTAA
*
24687621 TTAATTGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAACCAAAAAAAAAAAAGAGTTAA
24687659 T
1 T
24687660 GATTTCAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 34 0.92
39 3 0.08
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (38 bp):
TTAATTGGTTCATGTAACCAAAAAAAAAAAAGAGTTAA
Found at i:24689524 original size:8 final size:8
Alignment explanation
Indices: 24689511--24689535 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24689501 TATTATTTAA
24689511 ATTTTGAT
1 ATTTTGAT
24689519 ATTTTGAT
1 ATTTTGAT
24689527 ATTTTGAT
1 ATTTTGAT
24689535 A
1 A
24689536 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTTTGAT
Found at i:24692289 original size:43 final size:41
Alignment explanation
Indices: 24692175--24692412 Score: 251
Period size: 43 Copynumber: 5.6 Consensus size: 41
24692165 TCTTGAGCTA
* *
24692175 TAGCGGCGCTTTCCCAAAAACGTCGCTATAGCTCGAGACCTT
1 TAGCGGCGCTTT-CCACAAACGCCGCTATAGCTCGAGACCTT
* * * * *
24692217 TAGCTGCACTTTTCCACAAACGCCACTATAGCTCAAGACATT
1 TAGCGGCGC-TTTCCACAAACGCCGCTATAGCTCGAGACCTT
* * *
24692259 TAGCGGTGCTTTGCTCACAAACGCCGCTATAGCTCAAGAGCTT
1 TAGCGGCGCTTT-C-CACAAACGCCGCTATAGCTCGAGACCTT
**
24692302 TAGCGGCGCTTTTACCACAAACGCCGCTATAAATCGAGACCTT
1 TAGCGGCGC-TTT-CCACAAACGCCGCTATAGCTCGAGACCTT
* *
24692345 TAGCGGCGCTTTTACCACAAACGCCGCTATAGTTCGATACCTT
1 TAGCGGCGC-TTT-CCACAAACGCCGCTATAGCTCGAGACCTT
*
24692388 TAGCGGCGCTTCTCACAAAAACGCC
1 TAGCGGCGCTT-TC-CACAAACGCC
24692413 ACTAAAATAT
Statistics
Matches: 167, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
41 3 0.02
42 41 0.25
43 119 0.71
44 4 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (41 bp):
TAGCGGCGCTTTCCACAAACGCCGCTATAGCTCGAGACCTT
Found at i:24692356 original size:86 final size:83
Alignment explanation
Indices: 24692175--24692420 Score: 278
Period size: 86 Copynumber: 2.9 Consensus size: 83
24692165 TCTTGAGCTA
* * * *
24692175 TAGCGGCGCTTTCCCAAAAACGTCGCTATAGCTCGAGACCTTTAGCTGCACTTTTCCACAAACGC
1 TAGCGGCGCTTT-CCACAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTTCCACAAACGC
**
24692240 CACTATAGCTCAAGACATT
65 CACTATAAATCAAGACATT
* * *
24692259 TAGCGGTGCTTTGCTCACAAACGCCGCTATAGCTCAAGAGCTTTAGCGGCGCTTTTACCACAAAC
1 TAGCGGCGCTTT-C-CACAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTT-CCACAAAC
* * *
24692324 GCCGCTATAAATCGAGACCTT
63 GCCACTATAAATCAAGACATT
* * * *
24692345 TAGCGGCGCTTTTACCACAAACGCCGCTATAGTTCGATACCTTTAGCGGCGCTTCTCACAAAAAC
1 TAGCGGCGC-TTT-CCACAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTTC-CACAAAC
24692410 GCCACTA-AAAT
63 GCCACTATAAAT
24692421 ATAACATTTA
Statistics
Matches: 136, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
84 12 0.09
85 40 0.29
86 80 0.59
87 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (83 bp):
TAGCGGCGCTTTCCACAAACGCCGCTATAGCTCGAGACCTTTAGCGGCGCTTTTCCACAAACGCC
ACTATAAATCAAGACATT
Found at i:24694112 original size:28 final size:28
Alignment explanation
Indices: 24694072--24694132 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
24694062 AAAACAAGAA
*
24694072 TCAAATTAGTTCAA-CTCCAAGTCCTTAG
1 TCAAATCAGTTCAACCT-CAAGTCCTTAG
* *
24694100 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTCCTTAG
24694128 TCAAA
1 TCAAA
24694133 AGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTCCTTAG
Found at i:24697451 original size:18 final size:18
Alignment explanation
Indices: 24697428--24697467 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24697418 AAATTATAAT
*
24697428 TTTTATTTTTTTATTTCA
1 TTTTATTTTTGTATTTCA
*
24697446 TTTTATTTTTGTATTTTA
1 TTTTATTTTTGTATTTCA
24697464 TTTT
1 TTTT
24697468 TTCTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTGTATTTCA
Found at i:24697839 original size:22 final size:22
Alignment explanation
Indices: 24697814--24697855 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24697804 AACCCTAAAT
* *
24697814 CCCTAGCTCTTAACACCTAACC
1 CCCTAACTCATAACACCTAACC
*
24697836 CCCTAACTCATAACCCCTAA
1 CCCTAACTCATAACACCTAA
24697856 ACCTTAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.45, G:0.02, T:0.21
Consensus pattern (22 bp):
CCCTAACTCATAACACCTAACC
Found at i:24697872 original size:21 final size:20
Alignment explanation
Indices: 24697847--24697887 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24697837 CCTAACTCAT
*
24697847 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
24697868 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
24697888 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:24698098 original size:25 final size:24
Alignment explanation
Indices: 24698048--24698098 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
24698038 ATTATATATG
* **
24698048 AAATTATTTAATATATAAATTTAA
1 AAATTATTTAAAATATAAATAAAA
24698072 AAATATATTTAAAATATAAATAAAA
1 AAAT-TATTTAAAATATAAATAAAA
24698097 AA
1 AA
24698099 TTAATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTATTTAAAATATAAATAAAA
Found at i:24698175 original size:21 final size:21
Alignment explanation
Indices: 24698133--24698194 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
24698123 TTGACCCATG
* * *
24698133 AAACCCTAAACTCTAAATCCTT
1 AAACCTTAAACCCTAA-CCCTT
*
24698155 -AACTCTTAACCCCTAACCCTT
1 AAAC-CTTAAACCCTAACCCTT
*
24698176 AAACCTTAAATCCTAACCC
1 AAACCTTAAACCCTAACCC
24698195 GACCCTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (21 bp):
AAACCTTAAACCCTAACCCTT
Found at i:24698227 original size:33 final size:33
Alignment explanation
Indices: 24698179--24698252 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
24698169 AACCCTTAAA
* * * * *
24698179 CCTTAAATCCTAACCCGACCCTGAATCCCTAAT
1 CCTTAAACCCCAACCCAACCCAGAATCCCTAAC
24698212 CCTTAAACCCCAACCCAACCCAGAATCCCTAAC
1 CCTTAAACCCCAACCCAACCCAGAATCCCTAAC
*
24698245 CCCTAAAC
1 CCTTAAAC
24698253 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.45, G:0.04, T:0.18
Consensus pattern (33 bp):
CCTTAAACCCCAACCCAACCCAGAATCCCTAAC
Found at i:24699163 original size:41 final size:41
Alignment explanation
Indices: 24699101--24699382 Score: 411
Period size: 41 Copynumber: 6.9 Consensus size: 41
24699091 TTTTATTATT
* *
24699101 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * ** *
24699142 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
24699183 ATTAGCGGCGCTTCTTCAAAAACGCTGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
24699224 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
** * *
24699265 ATTAGCATCGCTTCTTCAAAAACGCCACTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
24699306 ATTAGCGGCGCTTATTCAAAAACGCTGCTAAAGGCCAAAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
24699347 GTTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
24699383 TCAAGAACTC
Statistics
Matches: 214, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 214 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:24699552 original size:40 final size:40
Alignment explanation
Indices: 24699419--24699553 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
24699409 TGGCTTAGGC
*
24699419 TTTTT-GCGGCGCTTTTTAGAAAA-CGCCACTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAATGCTCTA
* *
24699457 TTTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
** * * *
24699497 CCTTTAGCAGCGTTTTTATAAAAGCGCCGCTAATGCTCAA
1 TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
* *
24699537 TTTTTAGTGGTGTTTTT
1 TTTTTAGCGGCGTTTTT
24699554 TGTCCAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 14 0.18
39 18 0.23
40 47 0.59
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCTA
Found at i:24705717 original size:27 final size:27
Alignment explanation
Indices: 24705687--24705797 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
24705677 AGGCTAGCCC
* *
24705687 TTCATAATTTATCACAAAAGCTTTTCT
1 TTCATAATTTACCACAAAAGCTTTCCT
* ** * *
24705714 TTCATGATTCGCCACAAAGGCTTTTCT
1 TTCATAATTTACCACAAAAGCTTTCCT
24705741 TTCAT-ATTTCACCACAAAAGCTTTCCT
1 TTCATAATTT-ACCACAAAAGCTTTCCT
* *
24705768 TTCATATTTTACCACAAATGCTTTCCT
1 TTCATAATTTACCACAAAAGCTTTCCT
24705795 TTC
1 TTC
24705798 TTGATGTGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
26 3 0.04
27 65 0.92
28 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (27 bp):
TTCATAATTTACCACAAAAGCTTTCCT
Found at i:24710557 original size:23 final size:23
Alignment explanation
Indices: 24710531--24710574 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
24710521 AAAATTTAGA
*
24710531 CAGCATATATACAGCAATTTGGG
1 CAGCATATATACAACAATTTGGG
24710554 CAGCATATATACAACAATTTG
1 CAGCATATATACAACAATTTG
24710575 AGCAACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
CAGCATATATACAACAATTTGGG
Found at i:24710642 original size:24 final size:24
Alignment explanation
Indices: 24710594--24710846 Score: 151
Period size: 24 Copynumber: 11.0 Consensus size: 24
24710584 TTTTTTTCAC
*
24710594 CAAAATTGGACAGCA--TATATA-
1 CAAAATTGGACAGCATTTATACAT
* * *
24710615 CAAAATTAGACTGCATTTATGCAT
1 CAAAATTGGACAGCATTTATACAT
* *
24710639 CAAAATTTGACAACA--TATACAT
1 CAAAATTGGACAGCATTTATACAT
* *
24710661 -ATATAATTGGACTGCATTTATACTT
1 CA-A-AATTGGACAGCATTTATACAT
** *
24710686 CAAAATTTAACAGCA--TATATA-
1 CAAAATTGGACAGCATTTATACAT
*
24710707 CAAAATTGGACTGCATTTATACAT
1 CAAAATTGGACAGCATTTATACAT
*
24710731 CAAAATTTGACAGCA--TATACAT
1 CAAAATTGGACAGCATTTATACAT
*
24710753 -ATATAATTGGACTGCA-TTATACAT
1 CA-A-AATTGGACAGCATTTATACAT
*
24710777 CAAAATTTGACAGCA--TATACAT
1 CAAAATTGGACAGCATTTATACAT
* **
24710799 -ATATAATTGTATTGCATTTATACAT
1 CA-A-AATTGGACAGCATTTATACAT
** *
24710824 CAAAATTTAACAGCATATATACA
1 CAAAATTGGACAGCATTTATACA
24710847 AAATTGAACA
Statistics
Matches: 176, Mismatches: 36, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
21 28 0.16
22 27 0.15
23 46 0.26
24 57 0.32
25 16 0.09
26 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (24 bp):
CAAAATTGGACAGCATTTATACAT
Found at i:24710689 original size:47 final size:47
Alignment explanation
Indices: 24710594--24710842 Score: 346
Period size: 47 Copynumber: 5.4 Consensus size: 47
24710584 TTTTTTTCAC
* * * * *
24710594 CAAAATTGGACAGCATAT--ATACAAAATTAGACTGCATTTATGCAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* *
24710639 CAAAATTTGACAACATATACATATATAATTGGACTGCATTTATACTT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* * *
24710686 CAAAATTTAACAGCATAT--ATACAAAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
24710731 CAAAATTTGACAGCATATACATATATAATTGGACTGCA-TTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
* *
24710777 CAAAATTTGACAGCATATACATATATAATTGTATTGCATTTATACAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
*
24710824 CAAAATTTAACAGCATATA
1 CAAAATTTGACAGCATATA
24710843 TACAAAATTG
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
45 57 0.31
46 44 0.24
47 80 0.44
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (47 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACAT
Found at i:24710705 original size:92 final size:90
Alignment explanation
Indices: 24710594--24710842 Score: 363
Period size: 92 Copynumber: 2.7 Consensus size: 90
24710584 TTTTTTTCAC
* * *
24710594 CAAAATTGGACAGCATATATACAAAATTAGACTGCATTTATGCATCAAAATTTGACAACATATAC
1 CAAAATTTGACAGCATATATACAAAATT-GACTGCATTTATACATCAAAATTTGACAGCATATAC
*
24710659 ATATATAATTGGACTGCATTTATACTT
65 ATATATAATTGGACTGCA-TTATACAT
*
24710686 CAAAATTTAACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
1 CAAAATTTGACAGCATATATACAAAATT-GACTGCATTTATACATCAAAATTTGACAGCATATAC
24710751 ATATATAATTGGACTGCATTATACAT
65 ATATATAATTGGACTGCATTATACAT
* * * *
24710777 CAAAATTTGACAGCATATACATATATAATTGTATTGCATTTATACATCAAAATTTAACAGCATAT
1 CAAAATTTGACAGCATAT--ATACAAAATTG-ACTGCATTTATACATCAAAATTTGACAGCATAT
24710842 A
63 A
24710843 TACAAAATTG
Statistics
Matches: 143, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
91 24 0.17
92 79 0.55
93 40 0.28
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (90 bp):
CAAAATTTGACAGCATATATACAAAATTGACTGCATTTATACATCAAAATTTGACAGCATATACA
TATATAATTGGACTGCATTATACAT
Found at i:24710794 original size:138 final size:137
Alignment explanation
Indices: 24710594--24710852 Score: 412
Period size: 138 Copynumber: 1.9 Consensus size: 137
24710584 TTTTTTTCAC
*
24710594 CAAAATTGGACAGCATATATACAAAATTAGACTGCATTTATGCATCAAAATTTGACAACATATAC
1 CAAAATTGGACAGCATATATACAAAATTAGACTGCATTTATACATCAAAATTTGACAACATATAC
*
24710659 ATATATAATTGGACTGCATTTATACTTCAAAATTTAACAGCATATATACAAAATTGGACTGCATT
66 ATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTGGACTGCATT
24710724 TATACAT
131 TATACAT
* * * * *
24710731 CAAAATTTGACAGCATATACATATATAATTGGACTGCA-TTATACATCAAAATTTGACAGCATAT
1 CAAAATTGGACAGCATAT--ATACAAAATTAGACTGCATTTATACATCAAAATTTGACAACATAT
* *
24710795 ACATATATAATTGTATTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTG
64 ACATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTG
24710853 AACAGCACAT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
137 17 0.15
138 79 0.71
139 15 0.14
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (137 bp):
CAAAATTGGACAGCATATATACAAAATTAGACTGCATTTATACATCAAAATTTGACAACATATAC
ATATATAATTGGACTGCATTTATACATCAAAATTTAACAGCATATATACAAAATTGGACTGCATT
TATACAT
Found at i:24710815 original size:23 final size:23
Alignment explanation
Indices: 24710743--24710815 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
24710733 AAATTTGACA
*
24710743 GCATATACATATATAATTGGACT
1 GCATATACATATATAATTGTACT
*
24710766 GCATTATACATCA-A-AATT-TGACA
1 GCA-TATACAT-ATATAATTGT-ACT
*
24710789 GCATATACATATATAATTGTATT
1 GCATATACATATATAATTGTACT
24710812 GCAT
1 GCAT
24710816 TTATACATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.20
23 21 0.52
24 9 0.22
25 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (23 bp):
GCATATACATATATAATTGTACT
Found at i:24711225 original size:14 final size:15
Alignment explanation
Indices: 24711201--24711230 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24711191 TATATACATT
24711201 ACCATATAAATACTA
1 ACCATATAAATACTA
24711216 ACCATA-AAATACTA
1 ACCATATAAATACTA
24711230 A
1 A
24711231 TCCGTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:24711967 original size:43 final size:43
Alignment explanation
Indices: 24711883--24712007 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 43
24711873 TCGTACAATT
* ** *
24711883 CCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGATG
1 CCAACATCCCAGACGTGGTCTTACACGTAAACACATATCGATG
*
24711926 TC-ACTATCCCAGACAG-GGTCTTACACGTAAACACA-AGTCGATG
1 CCAAC-ATCCCAGAC-GTGGTCTTACACGTAAACACATA-TCGATG
*
24711969 CCAACGTCCCAGACGTGGTCTTACACG-ATAACACATATC
1 CCAACATCCCAGACGTGGTCTTACACGTA-AACACATATC
24712008 TAAAATCCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
42 5 0.07
43 59 0.87
44 4 0.06
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
CCAACATCCCAGACGTGGTCTTACACGTAAACACATATCGATG
Found at i:24714179 original size:47 final size:47
Alignment explanation
Indices: 24714034--24714553 Score: 835
Period size: 47 Copynumber: 11.1 Consensus size: 47
24714024 CCCTTCGGGA
* * * * * * *
24714034 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24714081 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24714127 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24714174 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24714221 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24714268 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24714315 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24714362 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24714409 CTCATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24714456 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24714503 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24714550 CTTA
1 CTTA
24714554 CTATCATTTC
Statistics
Matches: 445, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 40 0.09
47 405 0.91
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24725111 original size:26 final size:26
Alignment explanation
Indices: 24725081--24725138 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
24725071 CCGGAGCTCT
* *
24725081 TGATTAAAAGTTGTTTGTGAGCTTCC
1 TGATTAAAAGTTCTTTGTGAACTTCC
24725107 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAAGTTCTTTGTGAACTTCC
24725133 TGATTA
1 TGATTA
24725139 TGGCTCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (26 bp):
TGATTAAAAGTTCTTTGTGAACTTCC
Found at i:24727215 original size:25 final size:25
Alignment explanation
Indices: 24727163--24727280 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
24727153 CCCTCTCGAG
* *
24727163 AGCCATATAACCGGAAGCTCATATA
1 AGCCATATAACAGGAAGCTCATACA
* * *
24727188 AGCCATGTAACAGGAAGCTTATCCA
1 AGCCATATAACAGGAAGCTCATACA
** *
24727213 AGCTGTATAACAGAAAGCTCATA-A
1 AGCCATATAACAGGAAGCTCATACA
* * **
24727237 GAGCCATA-ATC-GAAAAGCTCATATG
1 -AGCCATATAACAG-GAAGCTCATACA
24727262 AGCCA-ATAACAGGAAGCTC
1 AGCCATATAACAGGAAGCTC
24727281 CTGATAACCA
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
23 2 0.03
24 26 0.37
25 43 0.61
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATACA
Found at i:24734494 original size:24 final size:25
Alignment explanation
Indices: 24734467--24734527 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
24734457 AGATGCTCCG
* *
24734467 AAGAGCTAT-TAGCGGAAAGCTCGC
1 AAGAGCTATATAACGGAAAGCTCGA
* *
24734491 AAGAACTATATAACGGGAAGCTCGA
1 AAGAGCTATATAACGGAAAGCTCGA
*
24734516 AAGGGCTA-ATAA
1 AAGAGCTATATAA
24734528 GGGGATGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.41, C:0.16, G:0.26, T:0.16
Consensus pattern (25 bp):
AAGAGCTATATAACGGAAAGCTCGA
Found at i:24745990 original size:15 final size:17
Alignment explanation
Indices: 24745960--24745993 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
24745950 ATCATAGTTT
24745960 AATTAATTTAAAACTTA
1 AATTAATTTAAAACTTA
24745977 AATTAA-TT-AAACTTA
1 AATTAATTTAAAACTTA
24745992 AA
1 AA
24745994 ACCCTTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAATTTAAAACTTA
Found at i:24750043 original size:178 final size:177
Alignment explanation
Indices: 24749707--24750045 Score: 511
Period size: 178 Copynumber: 1.9 Consensus size: 177
24749697 AATTTGGCCG
24749707 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
1 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
** * * *
24749772 TGATAAAATGTTTTGTTTGCTTTTGTGTTGGTACGAGGTGTTCAGAGAACTAGAAATGTTAAGCT
66 TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
* *
24749837 TGATCTTCAGTTTAGTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
131 TAATCTTCAGTTTACTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
* * *
24749884 TTAATCTTTCGACTTA-TATTTTTGTTGTGTGCTTTAGAAACAAATCCATTGCATATTCTGTGAC
1 TTAATCATTAGACTTATTA-TTTTGTTGTGTGCCTTAG-AACAAATCCATTGCATATTCTGTGAC
* *
24749948 TGTGATCAAATGTTTTGTTTGCTTTTGTGGCGGTTA-AAGGTGTTCAGAGAACCAGAAATGTAAA
64 TCTGATAAAATGTTTTGTTTGCTTTTGTGGCGG-TACAAGGTGTTCAGAGAACCAGAAATGTAAA
* *
24750012 GCTTAATCTTCTGTTTACTTTAGTTTATTTAGCT
128 GCTTAATCTTCAGTTTACTTTAGTATATTTAGCT
24750046 CTATATATTA
Statistics
Matches: 145, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
176 2 0.01
177 31 0.21
178 110 0.76
179 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (177 bp):
TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
TAATCTTCAGTTTACTTTAGTATATTTAGCTTTATCTGTTTTGGGAA
Found at i:24761696 original size:14 final size:15
Alignment explanation
Indices: 24761669--24761714 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
24761659 ACTTTAAACT
*
24761669 AAATATTAAAATTAA
1 AAATGTTAAAATTAA
24761684 TAAAT-TT-AAATTAA
1 -AAATGTTAAAATTAA
24761698 AAATGTTAAAATTAA
1 AAATGTTAAAATTAA
24761713 AA
1 AA
24761715 TTGTGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.14
14 9 0.32
15 11 0.39
16 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATGTTAAAATTAA
Found at i:24763844 original size:4 final size:4
Alignment explanation
Indices: 24763837--24763874 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
24763827 TATATGTGTG
24763837 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
24763875 ATGCGCTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:24765540 original size:26 final size:26
Alignment explanation
Indices: 24765460--24765540 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
24765450 TTCGATCATG
24765460 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
24765486 CGTGTA-T-CGAATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
24765511 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
24765537 TGTG
1 TGTG
24765541 AACCGAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:24765548 original size:51 final size:50
Alignment explanation
Indices: 24765350--24765548 Score: 215
Period size: 51 Copynumber: 3.9 Consensus size: 50
24765340 AGTGAAAGTG
* * *
24765350 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACC-GAATGGT
* * *
24765401 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTA--TGCATACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTG-A-ACCGAATGGT
* * ** * *
24765450 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGT
*
24765501 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGAAT
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAT
24765549 ATCATTGTTT
Statistics
Matches: 119, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
48 2 0.02
49 4 0.03
50 34 0.29
51 76 0.64
52 1 0.01
53 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGT
Found at i:24770061 original size:15 final size:15
Alignment explanation
Indices: 24770041--24770072 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24770031 CATTTCACTA
*
24770041 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
24770056 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
24770071 TT
1 TT
24770073 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:24773296 original size:17 final size:17
Alignment explanation
Indices: 24773258--24773302 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
24773248 AATGAATGAA
*
24773258 AAATTGAGA-ACTAAAT
1 AAATTGAGAGAATAAAT
*
24773274 -AGTTGAGAGAATAAAT
1 AAATTGAGAGAATAAAT
24773290 AAATTGAGAGAAT
1 AAATTGAGAGAAT
24773303 TAGGAGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.24
Consensus pattern (17 bp):
AAATTGAGAGAATAAAT
Found at i:24773516 original size:23 final size:23
Alignment explanation
Indices: 24773463--24773517 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
24773453 AGACACGTTT
* *
24773463 CTATTTCACTCTCTAGAATTAGA
1 CTATTTCCCCCTCTAGAATTAGA
24773486 CTATTTCCCCCTCTAGAATTAGA
1 CTATTTCCCCCTCTAGAATTAGA
24773509 CTATTTCCC
1 CTATTTCCC
24773518 TAAATATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.38
Consensus pattern (23 bp):
CTATTTCCCCCTCTAGAATTAGA
Found at i:24774170 original size:72 final size:66
Alignment explanation
Indices: 24774094--24774254 Score: 216
Period size: 70 Copynumber: 2.4 Consensus size: 66
24774084 CATCAAACGT
24774094 GAAAATGTTTTTAAAGAAATTAATAAAACTTGCAAAAAAATTACTTAATACATAAAATACTACTT
1 GAAAATGTTTTTAAAGAAATTAATAAAACTTG--AAAAAATTACTTAATACATAAAATACTACTT
24774159 AAAACAA
64 ----CAA
* * * *
24774166 GAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATATTACTTCA
1 GAAAATGTTTTTAAAGAAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACTACTTCA
24774231 A
66 A
*
24774232 AAAAATGTTTTT-AAGAAATTAAT
1 GAAAATGTTTTTAAAGAAATTAAT
24774255 TCATTTAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
65 10 0.12
66 12 0.15
70 30 0.37
72 29 0.36
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.32
Consensus pattern (66 bp):
GAAAATGTTTTTAAAGAAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACTACTTCA
A
Found at i:24774228 original size:70 final size:72
Alignment explanation
Indices: 24774094--24774233 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 72
24774084 CATCAAACGT
* *
24774094 GAAAATGTTTTTAAAGAAATTAATAAAACTTGCAAAAAAATTACTTAATACATAAAATACTACTT
1 GAAAATATTTTAAAAGAAATTAATAAAACTTG-AAAAAAATTACTTAATACATAAAATACTACTT
24774159 -AAAACAA
65 CAAAACAA
* *
24774166 GAAAATATTTTAAAAGTAATTAATAAAACTTG-AAAAAATTACTTAATACATAAAATATTACTTC
1 GAAAATATTTTAAAAGAAATTAATAAAACTTGAAAAAAATTACTTAATACATAAAATACTACTTC
24774230 AAAA
66 AAAA
24774234 AAATGTTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 30 0.48
71 4 0.06
72 29 0.46
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.31
Consensus pattern (72 bp):
GAAAATATTTTAAAAGAAATTAATAAAACTTGAAAAAAATTACTTAATACATAAAATACTACTTC
AAAACAA
Found at i:24776173 original size:20 final size:20
Alignment explanation
Indices: 24776148--24776185 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24776138 AGCAGGCTGA
24776148 GGGCCAGATCTCTAATTTGC
1 GGGCCAGATCTCTAATTTGC
24776168 GGGCCAGATCTCTAATTT
1 GGGCCAGATCTCTAATTT
24776186 CTTAGGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
GGGCCAGATCTCTAATTTGC
Found at i:24785218 original size:41 final size:41
Alignment explanation
Indices: 24785161--24785242 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
24785151 TAGTTTTCTG
24785161 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
*
24785202 CTAAATCGTGTATATGTTTATCCAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
24785243 AACAGAGCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (41 bp):
CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
Found at i:24791501 original size:16 final size:17
Alignment explanation
Indices: 24791458--24791518 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
24791448 ATTATTTTAT
*
24791458 TTTTATTTTTAATAT--
1 TTTTAATTTTAATATAA
24791473 TTTATAAATTTTAATATAA
1 TTT-T-AATTTTAATATAA
*
24791492 TTTT-ATTTTAATATAT
1 TTTTAATTTTAATATAA
24791508 TTTTAATTTTA
1 TTTTAATTTTA
24791519 CCAAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
15 3 0.08
16 16 0.41
17 16 0.41
18 1 0.03
19 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATTTTAATATAA
Found at i:24797616 original size:22 final size:21
Alignment explanation
Indices: 24797579--24797620 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24797569 CTAAAACTTT
24797579 AAAAATAATATAAAATCAAATA
1 AAAAATAATATAAAAT-AAATA
* *
24797601 AAAAATAATTTTAAATAAAT
1 AAAAATAATATAAAATAAAT
24797621 TTTATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATAATATAAAATAAATA
Found at i:24805234 original size:31 final size:30
Alignment explanation
Indices: 24805199--24805302 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 30
24805189 TATAATAACA
24805199 AATTTAGTGTTCAACTTTTATATATTATATC
1 AATTTAGTGTT-AACTTTTATATATTATATC
** * * * *
24805230 AATTTAGTCATAA-TTTTAAAAAAATAACATTC
1 AATTTAGTGTTAACTTTT--ATATATTATA-TC
24805262 AAAATTTAGTGTTAAACTTTTATATATTATATC
1 --AATTTAGTGTT-AACTTTTATATATTATATC
24805295 AATTTAGT
1 AATTTAGT
24805303 CATAATTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
29 4 0.07
30 2 0.04
31 23 0.43
32 2 0.04
33 2 0.04
34 15 0.28
35 2 0.04
36 4 0.07
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (30 bp):
AATTTAGTGTTAACTTTTATATATTATATC
Found at i:24805267 original size:65 final size:65
Alignment explanation
Indices: 24805198--24805334 Score: 265
Period size: 65 Copynumber: 2.1 Consensus size: 65
24805188 ATATAATAAC
*
24805198 AAATTTAGTGTTCAACTTTTATATATTATATCAATTTAGTCATAATTTTAAAAAAATAACATTCA
1 AAATTTAGTGTTAAACTTTTATATATTATATCAATTTAGTCATAATTTTAAAAAAATAACATTCA
24805263 AAATTTAGTGTTAAACTTTTATATATTATATCAATTTAGTCATAATTTTAAAAAAATAACATTCA
1 AAATTTAGTGTTAAACTTTTATATATTATATCAATTTAGTCATAATTTTAAAAAAATAACATTCA
24805328 AAATTTA
1 AAATTTA
24805335 CAAATGGTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (65 bp):
AAATTTAGTGTTAAACTTTTATATATTATATCAATTTAGTCATAATTTTAAAAAAATAACATTCA
Found at i:24805433 original size:6 final size:6
Alignment explanation
Indices: 24805424--24805477 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
24805414 TTTAAATGTT
* *
24805424 ATATTA ATATTA ATATTA ATATTA ATATTA A-ATAA ATA-TA ATTTTTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A-TATTA
24805471 ATATTA A
1 ATATTA A
24805478 ATAAAATAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 6 0.15
6 32 0.78
7 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:24806457 original size:19 final size:19
Alignment explanation
Indices: 24806433--24806471 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24806423 ACAAAATGAT
24806433 TATGGATGAATGGTTGTGA
1 TATGGATGAATGGTTGTGA
24806452 TATGGATGAATGGTTGTGA
1 TATGGATGAATGGTTGTGA
24806471 T
1 T
24806472 GAGGTGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (19 bp):
TATGGATGAATGGTTGTGA
Found at i:24811084 original size:354 final size:354
Alignment explanation
Indices: 24810435--24811145 Score: 1422
Period size: 354 Copynumber: 2.0 Consensus size: 354
24810425 GCATAGCATC
24810435 ATAATACGATATTCCCAAGTGCATAAAGCTAACCACAATATATACAATCTTTAAAGAGCTCTATA
1 ATAATACGATATTCCCAAGTGCATAAAGCTAACCACAATATATACAATCTTTAAAGAGCTCTATA
24810500 TATCTTATGACATGTCAATTATACTTAGAAAGCTTATCAATATTATTTAATAGGGTCGCTTTGAT
66 TATCTTATGACATGTCAATTATACTTAGAAAGCTTATCAATATTATTTAATAGGGTCGCTTTGAT
24810565 TATAATACATGAATTTTCAACACAACCAACAATTTTTAACATTTATCTTAACTTGAATGAGTCGA
131 TATAATACATGAATTTTCAACACAACCAACAATTTTTAACATTTATCTTAACTTGAATGAGTCGA
24810630 TGGTTAAAGCTATTCTCAGGCACTCATTTGACACTGATTCGAATCGTGTTACCGTATCCCCACCC
196 TGGTTAAAGCTATTCTCAGGCACTCATTTGACACTGATTCGAATCGTGTTACCGTATCCCCACCC
24810695 CTAATATTGTATAAAATAACAATTGAACATCTCATTAACAACAAAATAACAACTAGATTCCCCCA
261 CTAATATTGTATAAAATAACAATTGAACATCTCATTAACAACAAAATAACAACTAGATTCCCCCA
24810760 CTTAACATATTTAACAATCGTATGAATCA
326 CTTAACATATTTAACAATCGTATGAATCA
24810789 ATAATACGATATTCCCAAGTGCATAAAGCTAACCACAATATATACAATCTTTAAAGAGCTCTATA
1 ATAATACGATATTCCCAAGTGCATAAAGCTAACCACAATATATACAATCTTTAAAGAGCTCTATA
24810854 TATCTTATGACATGTCAATTATACTTAGAAAGCTTATCAATATTATTTAATAGGGTCGCTTTGAT
66 TATCTTATGACATGTCAATTATACTTAGAAAGCTTATCAATATTATTTAATAGGGTCGCTTTGAT
24810919 TATAATACATGAATTTTCAACACAACCAACAATTTTTAACATTTATCTTAACTTGAATGAGTCGA
131 TATAATACATGAATTTTCAACACAACCAACAATTTTTAACATTTATCTTAACTTGAATGAGTCGA
24810984 TGGTTAAAGCTATTCTCAGGCACTCATTTGACACTGATTCGAATCGTGTTACCGTATCCCCACCC
196 TGGTTAAAGCTATTCTCAGGCACTCATTTGACACTGATTCGAATCGTGTTACCGTATCCCCACCC
24811049 CTAATATTGTATAAAATAACAATTGAACATCTCATTAACAACAAAATAACAACTAGATTCCCCCA
261 CTAATATTGTATAAAATAACAATTGAACATCTCATTAACAACAAAATAACAACTAGATTCCCCCA
24811114 CTTAACATATTTAACAATCGTATGAATCA
326 CTTAACATATTTAACAATCGTATGAATCA
24811143 ATA
1 ATA
24811146 GGATACACTA
Statistics
Matches: 357, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
354 357 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (354 bp):
ATAATACGATATTCCCAAGTGCATAAAGCTAACCACAATATATACAATCTTTAAAGAGCTCTATA
TATCTTATGACATGTCAATTATACTTAGAAAGCTTATCAATATTATTTAATAGGGTCGCTTTGAT
TATAATACATGAATTTTCAACACAACCAACAATTTTTAACATTTATCTTAACTTGAATGAGTCGA
TGGTTAAAGCTATTCTCAGGCACTCATTTGACACTGATTCGAATCGTGTTACCGTATCCCCACCC
CTAATATTGTATAAAATAACAATTGAACATCTCATTAACAACAAAATAACAACTAGATTCCCCCA
CTTAACATATTTAACAATCGTATGAATCA
Found at i:24811957 original size:10 final size:10
Alignment explanation
Indices: 24811928--24811959 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24811918 ACCTAACCCC
24811928 AGAA-AAAAA
1 AGAAGAAAAA
24811937 A-AAGAAAAA
1 AGAAGAAAAA
24811946 AGAAGAAAAA
1 AGAAGAAAAA
24811956 AGAA
1 AGAA
24811960 AAACCTAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.10
9 7 0.33
10 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAGAAAAA
Found at i:24814547 original size:12 final size:12
Alignment explanation
Indices: 24814530--24814565 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
24814520 AACATTTTGA
24814530 CATTCATGCATT
1 CATTCATGCATT
24814542 CATTCATGCATT
1 CATTCATGCATT
*
24814554 CATTCATACATT
1 CATTCATGCATT
24814566 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:24822893 original size:69 final size:69
Alignment explanation
Indices: 24822775--24822947 Score: 222
Period size: 69 Copynumber: 2.5 Consensus size: 69
24822765 TTTTCAAGGG
* * *
24822775 AAATCAACTCATATTGCGAGAAATGATTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-TG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
24822839 TTTCA
66 TTT-A
** * *
24822844 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
*
24822909 TTTT
66 TTTA
** * *
24822913 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
24822948 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 86 0.95
70 5 0.05
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTA
Found at i:24823201 original size:135 final size:139
Alignment explanation
Indices: 24823045--24823385 Score: 588
Period size: 138 Copynumber: 2.5 Consensus size: 139
24823035 TTAATTTCAA
24823045 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA-TTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
24823109 TTTA-TTGTTCAAGAATCAACTCATATTGCGAGAGGT-GGTTG-ACCTTTTAATTTCTACTTTTT
66 TTTAGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
24823171 CAAAATCAG
131 CAAAATCAG
24823180 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGA-GTA-TTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
24823243 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTA-GTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
24823308 TCAAAATCAG
130 TCAAAATCAG
24823318 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
24823382 TCAA
62 TCAA
24823386 AAAAAATTCA
Statistics
Matches: 195, Mismatches: 0, Indels: 14
0.93 0.00 0.07
Matches are distributed among these distances:
133 6 0.03
134 19 0.10
135 41 0.21
136 32 0.16
137 7 0.04
138 63 0.32
140 5 0.03
141 3 0.02
142 13 0.07
143 6 0.03
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (139 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTAGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTT
CAAAATCAG
Found at i:24823479 original size:71 final size:72
Alignment explanation
Indices: 24823305--24823527 Score: 281
Period size: 71 Copynumber: 3.0 Consensus size: 72
24823295 AATTTCTACT
* ** * * *
24823305 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-TCAC--GTTGAGGTAATT
24823368 TCAATTTCTG
63 TCAATTTCTG
24823378 TCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-CACGTTGAGGTAA
1 T-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCACGTTGAGGTAA
*
24823442 TTTCAATTTATG
61 TTTCAATTTCTG
*
24823454 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCACGTTGAGGTAATTTCA
24823519 ATTTCTG
66 ATTTCTG
24823526 TT
1 TT
24823528 CAAAATGAGT
Statistics
Matches: 134, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
71 41 0.31
72 26 0.19
73 1 0.01
74 4 0.03
75 4 0.03
76 20 0.15
78 7 0.05
79 30 0.22
80 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGTCACGTTGAGGTAATTTCA
ATTTCTG
Found at i:24823538 original size:49 final size:49
Alignment explanation
Indices: 24823481--24823576 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
24823471 ATATTGCGAG
*
24823481 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
24823530 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
24823577 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:24823624 original size:121 final size:120
Alignment explanation
Indices: 24823410--24823648 Score: 415
Period size: 121 Copynumber: 2.0 Consensus size: 120
24823400 ATATTGCGAG
*
24823410 AAATGAGTTGAGCCTCAAGCACGTTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATAT
1 AAATGAGTTGAGCCTCAAGCACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATAT
*
24823475 TGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
24823530 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAG-CACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATA
** *
24823595 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
65 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
24823649 GTCAAAAAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 19 0.17
121 93 0.83
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.33
Consensus pattern (120 bp):
AAATGAGTTGAGCCTCAAGCACGCTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATAT
TGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:24823654 original size:72 final size:73
Alignment explanation
Indices: 24823530--24823707 Score: 277
Period size: 74 Copynumber: 2.4 Consensus size: 73
24823520 TTTCTGTTCA
* *
24823530 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAAATTCAACTCAT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCAT
24823594 ATTGCGAG
66 ATTGCGAG
** *
24823602 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACTCA
24823667 TATTGCGAG
65 TATTGCGAG
* *
24823676 AAATGAGTTGAGCCTCAAGACATGTTGAGGTA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTA
24823708 TCAACTCCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 46 0.49
74 48 0.51
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (73 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCAT
ATTGCGAG
Found at i:24823695 original size:195 final size:195
Alignment explanation
Indices: 24823356--24823922 Score: 680
Period size: 195 Copynumber: 2.8 Consensus size: 195
24823346 CGGTTCACAT
* **
24823356 GCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGA
1 GCTGAGGTAATTTCAATTTCTGT-TTTC----AAAATTCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
24823421 GCCTCAAG-CACGTTGAGGTAATTTCAATTTATGTTTTCAAAATTCAACTCATATTGCGAGAAAT
61 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAAT
*
24823485 GAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT-C-A-AAATGAGTTGAGCCTCA
126 GAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTTCTATTGCGAGAAATGAGTTGAGCCTCA
24823547 AGACAC
190 AGACAC
24823553 GCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 GCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
24823618 AGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAG
66 AGGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAAATGAG
* * *
24823683 TTGAGCCTCAAGACATGTTGAGGTA--TCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGAC
129 TTGAGCCTCAAGACACGTTGAGGTATTTCAATTTCTATTGCGAGAAATGAGTTGAGCCTCAAGAC
24823746 AC
194 AC
* * *
24823748 GTTGAGGTAGTTTCAATTTTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
1 GCTGA-G--G--T-AA---T-TTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAGGTG
* * *
24823813 AGTTGAGCCTCAGGACACACTGAGGTATTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
55 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGC
* ** * *
24823878 GAGAGGA-GAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTT
119 GAGA-AATGAGTTGAGCCTCAAGACACGTTGAGGTATT-TCAATTT
24823923 TTGTGTTTCA
Statistics
Matches: 321, Mismatches: 27, Indels: 33
0.84 0.07 0.09
Matches are distributed among these distances:
192 47 0.15
193 28 0.09
194 2 0.01
195 78 0.24
196 5 0.02
197 22 0.07
198 1 0.00
200 1 0.00
201 2 0.01
204 1 0.00
205 56 0.17
206 69 0.21
207 4 0.01
208 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (195 bp):
GCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
AGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTT
GAGCCTCAAGACACGTTGAGGTATTTCAATTTCTATTGCGAGAAATGAGTTGAGCCTCAAGACAC
Found at i:24823721 original size:49 final size:49
Alignment explanation
Indices: 24823658--24823756 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
24823648 TGTCAAAAAA
*
24823658 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGT
1 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
24823707 ATCAACTCCTATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
24823756 A
1 A
24823757 GTTTCAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
ATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
Found at i:24823891 original size:73 final size:73
Alignment explanation
Indices: 24823769--24824567 Score: 425
Period size: 74 Copynumber: 10.2 Consensus size: 73
24823759 TTCAATTTTG
* * *
24823769 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCT
*
24823834 GAGGTATT
66 GAGGTAAT
* * *
24823842 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCGGGGCACGCT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCT
24823907 GAGGT-AT
66 GAGGTAAT
* * * *
24823914 TGTCAATTTTTGTGTTTCAATTTATTTTTCAAAAATTAACTCATATTACGAGA-AATGAGTTGAG
1 T-TCAA--------TTTC----TGTTTTTCAAAAATCAACTCATATTGCGAGAGGA-GAGTTGAG
24823978 CCTCAGGACACGCTGAGGTAAT
52 CCTCAGGACACGCTGAGGTAAT
* * * *
24824000 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AAGCACGT
1 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGA-CACGC
24824064 TGAGGTAAT
65 TGAGGTAAT
* * ** * * * *
24824073 TTCAATTTCTGCTTTTCAATTTATATTTTTCAA-AAAAATTCAACTCATATTGCGAGAGGTGAGT
1 TTCAATTTCTGTTTTTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-GAGA-----GT
24824137 TGAGCCTCAGGACACGCTGAGGTAAT
48 TGAGCCTCAGGACACGCTGAGGTAAT
* * * * *
24824163 TTCAATTTCTG-TTGTCAAAAAAATCAACTCATATTACGAGA-AATGAGTTGAGCCTTAAG-CAA
1 TTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGA-GAGTTGAGCCTCAGGAC-A
* *
24824225 TGCTGAGGTATT
62 CGCTGAGGTAAT
* * *
24824237 TTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACG
1 TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTC-AGGACACG
*
24824301 TTGAGGTAAT
64 CTGAGGTAAT
* * *** * * * *
24824311 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
1 TTCAATTTCTGTTTTTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-GAGAG-----T
* *
24824376 TGAGCCTCAGGACACGCTAAGATAAT
48 TGAGCCTCAGGACACGCTGAGGTAAT
* * *
24824402 TTCAATTTCTG-TTGTCAAAAAAAAATCAACTCATATTGCGAGA-AATGAGTTGAGCCTCAAGAC
1 TTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGA-GAGTTGAGCCTCAGGAC
* *
24824465 ATGCTGAGGTATT
61 ACGCTGAGGTAAT
* * *
24824478 TTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTA-AGTTGAGCCTCAAGG-CAC
1 TTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGG-AGAGTTGAGCCTC-AGGACAC
* *
24824541 GTTGAGTTAAT
63 GCTGAGGTAAT
*
24824552 TTCAATTTCTGCTTTT
1 TTCAATTTCTGTTTTT
24824568 AAATTTATAT
Statistics
Matches: 554, Mismatches: 100, Indels: 143
0.70 0.13 0.18
Matches are distributed among these distances:
72 3 0.01
73 140 0.25
74 147 0.27
75 8 0.01
76 35 0.06
77 9 0.02
78 1 0.00
79 6 0.01
80 13 0.02
81 8 0.01
82 5 0.01
83 4 0.01
84 8 0.01
85 66 0.12
86 7 0.01
87 9 0.02
88 1 0.00
89 4 0.01
90 43 0.08
91 35 0.06
94 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (73 bp):
TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGACACGCT
GAGGTAAT
Found at i:24824434 original size:76 final size:77
Alignment explanation
Indices: 24824340--24824562 Score: 276
Period size: 76 Copynumber: 2.9 Consensus size: 77
24824330 TTTATATTTT
* *
24824340 TCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGATAATTTC
1 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTC
24824405 AATTTCTGT-TG
66 AATTTCTGTCTG
** * * * *
24824416 TCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTC
* *
24824481 AATTTTTGTCTT
66 AATTTCTGTCTG
* * * *
24824493 TC---AAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTT
1 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGATAATTT
24824554 CAATTTCTG
65 CAATTTCTG
24824563 CTTTTAAATT
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
74 55 0.44
75 2 0.02
76 65 0.52
77 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (77 bp):
TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTC
AATTTCTGTCTG
Found at i:24824520 original size:241 final size:240
Alignment explanation
Indices: 24823944--24824674 Score: 1238
Period size: 241 Copynumber: 3.0 Consensus size: 240
24823934 TTTATTTTTC
* * * * *
24823944 AAAAATTAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
*
24824009 TGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAGCACGTTGAGGTAA
66 TGTCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
24824072 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
130 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
24824137 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AA
195 TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
*
24824181 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTTAAG-CAATGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGAC-ATGCTGAGGTATTTTCAATTT
24824245 TTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
65 TTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAA
24824310 TTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAG
130 TTTCAATTTCTGCTTTTCAATTTATATTTTTC-AAAAAAATTCAACTCATATTGCGAGAGGTGAG
* *
24824375 TTGAGCCTCAGGACACGCTAAGATAATTTCAATTTCTGTTGTCAAAA
194 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
*
24824422 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
* * *
24824487 TGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAAT
66 TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
*
24824552 TTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
131 TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
* * *
24824617 GAGCCTCAGGGCATGTTGAGGTAATTTCAATTTCTGTTGTCAAAAA
196 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAA
24824663 AAAAATCAACTC
1 AAAAATCAACTC
24824675 TGAGCCTTAG
Statistics
Matches: 466, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
236 1 0.00
237 62 0.13
238 88 0.19
239 73 0.16
240 70 0.15
241 171 0.37
242 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (240 bp):
AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAAT
TTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
Found at i:24824742 original size:241 final size:234
Alignment explanation
Indices: 24823994--24824773 Score: 979
Period size: 241 Copynumber: 3.3 Consensus size: 234
24823984 GACACGCTGA
* *
24823994 GGTAATTTCAATTTCTGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
1 GGTATTTTCAATTTTTGTCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
24824057 AGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATA
65 GGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATA
24824122 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAAA
130 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAA
* * *
24824185 ATCAACTCATATTACGAGAAATGAGTTGAGCCT-TAAGCAATGCT
195 ATCAACTCATATTA-G-G-CA-GAGATGAG-CTATAATCAATGCT
24824229 GAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 --GGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
24824294 AGGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAAATTCAACTCA
64 AGGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTC-AAAAAAATTCAACTCA
* *
24824359 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGATAATTTCAATTTCTGTTGTCAAAAAA
128 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAA
* * *
24824424 AAATCAACTCATATT--GCGAGAAATGAGTTGAGCCTCAA-GACATGCT
193 AAATCAACTCATATTAGGC-AGAGATGAGCT-A---T-AATCA-ATGCT
* *
24824470 GAGGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCA
1 --GGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
24824535 AGGCACGTTGAGTTAATTTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTCAACTCAT
64 AGGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCAT
* * *
24824600 ATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGTTGAGGTAATTTCAATTTCTGTTGTCAAAAAAA
129 ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAA
* ** * ** *
24824665 AAATCAACTC-TGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCT
193 AAATCAACTCAT-A---TTAGG-CAGA-GATGAGCTATAATCAA-TGCT
* * *
24824713 -GT-TTTTCAATTTTTGCCTTTCAAAAAAAATCGACTCATATTGCGAAAGGTGAGTTGAGCCT
1 GGTATTTTCAATTTTTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
24824774 TGGCTCACAC
Statistics
Matches: 484, Mismatches: 33, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
235 1 0.00
236 6 0.01
237 20 0.04
238 88 0.18
239 91 0.19
240 75 0.15
241 186 0.38
242 1 0.00
243 5 0.01
244 2 0.00
246 4 0.01
247 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (234 bp):
GGTATTTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
GCACGTTGAGGTAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATAT
TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAA
TCAACTCATATTAGGCAGAGATGAGCTATAATCAATGCT
Found at i:24825504 original size:10 final size:10
Alignment explanation
Indices: 24825483--24825512 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24825473 ACCTAACCCC
24825483 AGAAAAAA-A
1 AGAAAAAAGA
24825492 AGAAAAAAGA
1 AGAAAAAAGA
24825502 AGAAAAAAGA
1 AGAAAAAAGA
24825512 A
1 A
24825513 AAACCTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAGA
Found at i:24825507 original size:17 final size:16
Alignment explanation
Indices: 24825483--24825515 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24825473 ACCTAACCCC
24825483 AGAAAAAAAAGAAAAA
1 AGAAAAAAAAGAAAAA
24825499 AGAAGAAAAAAGAAAAA
1 AGAA-AAAAAAGAAAAA
24825516 CCTAACCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAGAAAAA
Found at i:24826127 original size:21 final size:24
Alignment explanation
Indices: 24826084--24826128 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
24826074 ATTTCTTATG
24826084 TATATATTCTTAAATACTACATATA
1 TATATATTCTTAAATAC-ACATATA
24826109 TATATATT-TT-AATAC-CATAT
1 TATATATTCTTAAATACACATAT
24826129 TGTGTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
23 5 0.25
24 2 0.10
25 8 0.40
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATATTCTTAAATACACATATA
Found at i:24827846 original size:20 final size:21
Alignment explanation
Indices: 24827823--24827865 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24827813 ATAATTTCTA
*
24827823 TAACTTTA-ATATGATTTTGT
1 TAACGTTAGATATGATTTTGT
24827843 TAACGTTAGATATGATTTTGT
1 TAACGTTAGATATGATTTTGT
24827864 TA
1 TA
24827866 CCTTGGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (21 bp):
TAACGTTAGATATGATTTTGT
Found at i:24830387 original size:12 final size:14
Alignment explanation
Indices: 24830368--24830405 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
24830358 AATTTTATAA
24830368 ATTAAAAATAAT-T
1 ATTAAAAATAATAT
24830381 A-TAAAAATAATAAT
1 ATTAAAAATAAT-AT
24830395 ATTAAAAATAA
1 ATTAAAAATAA
24830406 ATAATATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 2 0.09
15 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTAAAAATAATAT
Found at i:24830418 original size:16 final size:14
Alignment explanation
Indices: 24830370--24830442 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 14
24830360 TTTTATAAAT
24830370 TAAAAATAAT--TA
1 TAAAAATAATAATA
24830382 TAAAAATAATAATA
1 TAAAAATAATAATA
24830396 TTAAAAATAAATAATA
1 -TAAAAAT-AATAATA
*
24830412 TAGAAAATATTAAATA
1 TA-AAAATAAT-AATA
* *
24830428 TAGAAATAATTATA
1 TAAAAATAATAATA
24830442 T
1 T
24830443 TTGTAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
12 10 0.20
14 6 0.12
15 17 0.33
16 18 0.35
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAAAAATAATAATA
Found at i:24845433 original size:13 final size:13
Alignment explanation
Indices: 24845403--24845427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24845393 CAATTCATAC
24845403 AATATATAAAATG
1 AATATATAAAATG
24845416 AATATATAAAAT
1 AATATATAAAAT
24845428 ATATATCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATATAAAATG
Found at i:24847849 original size:17 final size:17
Alignment explanation
Indices: 24847777--24847850 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
24847767 TTATGATGGA
24847777 GTATGAACTATTATTTT
1 GTATGAACTATTATTTT
* * **
24847794 GCATGAATTATTATTCG
1 GTATGAACTATTATTTT
* *
24847811 GTATGAATTGA-TATTTC
1 GTATGAACT-ATTATTTT
*
24847828 ATATGAACTATTATTTT
1 GTATGAACTATTATTTT
*
24847845 TTATGA
1 GTATGA
24847851 GTTGTCATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
16 1 0.02
17 42 0.95
18 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (17 bp):
GTATGAACTATTATTTT
Found at i:24851911 original size:48 final size:48
Alignment explanation
Indices: 24851854--24851948 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
24851844 TATTGATGTC
24851854 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
1 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
*
24851902 AAAGATACGAAAACGGGGGTCACATTTAAAGTTAATGGACAACGCTT
1 AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTT
24851949 GAAGCACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (48 bp):
AAAGATACGAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
Found at i:24853961 original size:31 final size:32
Alignment explanation
Indices: 24853902--24853966 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
24853892 GGCAAATTAC
24853902 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24853934 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24853965 AA
1 AA
24853967 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:24860154 original size:31 final size:32
Alignment explanation
Indices: 24860095--24860159 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
24860085 GGCAAATTAC
24860095 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24860127 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24860158 AA
1 AA
24860160 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:24867574 original size:9 final size:9
Alignment explanation
Indices: 24867550--24867586 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
24867540 TGAGTTTTCG
24867550 AATTCGAAT
1 AATTCGAAT
* *
24867559 TACTCGAAT
1 AATTCGAAT
24867568 AATTCGAAT
1 AATTCGAAT
24867577 AATTCGAAT
1 AATTCGAAT
24867586 A
1 A
24867587 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24870284 original size:15 final size:17
Alignment explanation
Indices: 24870247--24870281 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
24870237 AGAAATTTAT
24870247 AAATAAAATATTCAAAA
1 AAATAAAATATTCAAAA
24870264 AAATAAAA-ATTCAAAA
1 AAATAAAATATTCAAAA
24870280 AA
1 AA
24870282 TAATGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAATATTCAAAA
Found at i:24870294 original size:15 final size:15
Alignment explanation
Indices: 24870247--24870284 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 15
24870237 AGAAATTTAT
24870247 AAATAAAATATTCAAAA
1 AAATAAAA-ATTC-AAA
24870264 AAATAAAAATTCAAA
1 AAATAAAAATTCAAA
24870279 AAATAA
1 AAATAA
24870285 TGAATCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAATTCAAA
Found at i:24877491 original size:16 final size:16
Alignment explanation
Indices: 24877470--24877500 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24877460 CTTTTATTTC
24877470 ATCTCCATAAAGAGAG
1 ATCTCCATAAAGAGAG
24877486 ATCTCCATAAAGAGA
1 ATCTCCATAAAGAGA
24877501 CATTTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (16 bp):
ATCTCCATAAAGAGAG
Found at i:24884647 original size:16 final size:16
Alignment explanation
Indices: 24884626--24884657 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24884616 ATTTTTAATA
24884626 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
24884642 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
24884658 AAGTGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (16 bp):
TTATTCATGCACTAGC
Found at i:24887932 original size:16 final size:17
Alignment explanation
Indices: 24887911--24887964 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 17
24887901 GAAAATTTAT
24887911 ATTTTCCAT-TTTTCTA
1 ATTTTCCATCTTTTCTA
**
24887927 ATTTTCCATCCCTTC-A
1 ATTTTCCATCTTTTCTA
24887943 ATTTTCCATCTTTT-TA
1 ATTTTCCATCTTTTCTA
24887959 ATTTTC
1 ATTTTC
24887965 TTTCCATAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTCCATCTTTTCTA
Found at i:24895826 original size:3 final size:3
Alignment explanation
Indices: 24895818--24895854 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
24895808 CTAGCTGGGT
*
24895818 AGA AGA AGA AGA AGA GGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
24895855 ATGAAGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Done.