Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 162 of 199
Found at i:47901742 original size:28 final size:29
Alignment explanation
Indices: 47901686--47901739 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
47901676 GTTAGAATTT
* *
47901686 TTTTTAGAGGAATTGAAATTAAATTTTAA
1 TTTTTAAAGGAATTGAAATCAAATTTTAA
47901715 TTTTTAAAGG-ATT-AAATCAAATTTT
1 TTTTTAAAGGAATTGAAATCAAATTTT
47901740 TAACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 3 0.13
29 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (29 bp):
TTTTTAAAGGAATTGAAATCAAATTTTAA
Found at i:47901778 original size:31 final size:31
Alignment explanation
Indices: 47901737--47901804 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
47901727 TAAATCAAAT
* * *
47901737 TTTTAACATTTTTA-GGAGGGCAATGTGGTAA
1 TTTTATCATTTTTAGGGAGGCCAAAGTGG-AA
47901768 TTTTATCATTTTTAGGGAGGCCAAAGTGGAA
1 TTTTATCATTTTTAGGGAGGCCAAAGTGGAA
47901799 TTTTAT
1 TTTTAT
47901805 TTTTACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (31 bp):
TTTTATCATTTTTAGGGAGGCCAAAGTGGAA
Found at i:47903810 original size:86 final size:85
Alignment explanation
Indices: 47903711--47903881 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 85
47903701 CACATAGTCG
* *
47903711 TGTGGCTCAAGTCAATCCCTAACATGGTTTGGGCACACAGGCATGTCACAT-GCTCATGTGACCT
1 TGTGGCTCAAGTCAATCCCTAACATGGTTTGGGCACACAGCCATGTCAC-TCGC-CATGTGACCC
47903775 AAGTCAGTGGCTCACATGGCCA
64 AAGTCAGTGGCTCACATGGCCA
* * *
47903797 TGTGGCTCAAGTCAATCCCTAGCATGGTTTGGGCACACTGCCATGTCACTCGGCCGTGTGACCCA
1 TGTGGCTCAAGTCAATCCCTAACATGGTTTGGGCACACAGCCATGTCACTC-GCCATGTGACCCA
*
47903862 AGTTAGTGGCTCACATGGCC
65 AGTCAGTGGCTCACATGGCC
47903882 TACCACATAG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
85 1 0.01
86 74 0.96
87 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.25
Consensus pattern (85 bp):
TGTGGCTCAAGTCAATCCCTAACATGGTTTGGGCACACAGCCATGTCACTCGCCATGTGACCCAA
GTCAGTGGCTCACATGGCCA
Found at i:47909608 original size:16 final size:16
Alignment explanation
Indices: 47909587--47909618 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47909577 TCACTACTAT
*
47909587 GTCTTTTATATTTTTC
1 GTCTTTTAAATTTTTC
47909603 GTCTTTTAAATTTTTC
1 GTCTTTTAAATTTTTC
47909619 ATGCATAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (16 bp):
GTCTTTTAAATTTTTC
Found at i:47911312 original size:12 final size:12
Alignment explanation
Indices: 47911295--47911333 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47911285 AATAAGATTT
47911295 AATATTAAATTA
1 AATATTAAATTA
*
47911307 AATATTATATTA
1 AATATTAAATTA
47911319 AAT-TTAATATTA
1 AATATTAA-ATTA
47911331 AAT
1 AAT
47911334 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATTAAATTA
Found at i:47911318 original size:17 final size:17
Alignment explanation
Indices: 47911296--47911330 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47911286 ATAAGATTTA
47911296 ATATTAAATTAAATATT
1 ATATTAAATTAAATATT
*
47911313 ATATTAAATTTAATATT
1 ATATTAAATTAAATATT
47911330 A
1 A
47911331 AATCTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAAATTAAATATT
Found at i:47911522 original size:25 final size:26
Alignment explanation
Indices: 47911482--47911532 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
47911472 AGTTGTAGAG
47911482 AGAAAATTTTCTAAAGAGATTATTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
* *
47911508 AGAAAA-TTTCTAAAGATATTTTTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
47911533 TATTTATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAGATTATTCT
Found at i:47914121 original size:138 final size:136
Alignment explanation
Indices: 47913868--47914140 Score: 338
Period size: 138 Copynumber: 2.0 Consensus size: 136
47913858 GAGCCATAAA
* * *
47913868 TGGGCTGCTCACACAAGCTGTCAGTCGAAATGTAACTACACGATGCCACTCACACGAGTTGACGA
1 TGGGCTGCTCACACAAGCTGTCAGTCGAAATGTAACTACACGAAGCCACTCACACAAGCTGACGA
* * *
47913933 GTATCCACAACAAATTTCAGAACTCAGCCATCGGTAGGACATTCAGGACCAGA-ACCCTG-AACA
66 ATATCCACAACAAATGTCAGAACTCAGCCATCGGTAGGACATTCAAGACCA-ACACCC-GAAACA
47913996 TGGTAACT
129 TGGTAACT
* * * ** *
47914004 TGGGTCTGCTCACACAAGCTGAT-GGTCGGAATGTAAGCTACATGAAGCTGCTCACATAAGCTGA
1 TGGG-CTGCTCACACAAGCTG-TCAGTCGAAATGTAA-CTACACGAAGCCACTCACACAAGCTGA
* *
47914068 TGAATATTCACAACAAATGTC-GAACCTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAA
63 CGAATATCCACAACAAATGTCAGAA-CTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAA
47914132 CATGGTAAC
127 CATGGTAAC
47914141 CCTAATGACA
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
136 4 0.03
137 32 0.27
138 81 0.69
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (136 bp):
TGGGCTGCTCACACAAGCTGTCAGTCGAAATGTAACTACACGAAGCCACTCACACAAGCTGACGA
ATATCCACAACAAATGTCAGAACTCAGCCATCGGTAGGACATTCAAGACCAACACCCGAAACATG
GTAACT
Found at i:47916576 original size:12 final size:12
Alignment explanation
Indices: 47916559--47916590 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47916549 TAAAAAAATG
47916559 AAAAAATTGAAA
1 AAAAAATTGAAA
47916571 AAAAAATTGAAA
1 AAAAAATTGAAA
*
47916583 AAAGAATT
1 AAAAAATT
47916591 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:47917072 original size:16 final size:16
Alignment explanation
Indices: 47917051--47917083 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47917041 TTTAGTTTTA
47917051 TATTTTATA-TTTTATT
1 TATTTT-TACTTTTATT
47917067 TATTTTTACTTTTATT
1 TATTTTTACTTTTATT
47917083 T
1 T
47917084 TTAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTTACTTTTATT
Found at i:47918033 original size:6 final size:6
Alignment explanation
Indices: 47918022--47918071 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
47918012 TAAAAAAATC
* *
47918022 AAAAAG ATAAAG AAAAAG AAAGGAG AAAAAG AAAAAAG CAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG -AAAAAG -AAAAAG AAAAA
47918072 TATATATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 20 0.54
7 17 0.46
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:47918048 original size:13 final size:13
Alignment explanation
Indices: 47918030--47918071 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
47918020 TCAAAAAGAT
47918030 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
**
47918043 GGAGAAAAAGAAA
1 AAAGAAAAAGAAA
47918056 AAAGCAAAAAGAAA
1 AAAG-AAAAAGAAA
47918070 AA
1 AA
47918072 TATATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:47918863 original size:17 final size:18
Alignment explanation
Indices: 47918830--47918863 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47918820 TGTAATATAA
*
47918830 ATATTTGTTAGTAAAAAT
1 ATATTTATTAGTAAAAAT
47918848 ATATTTATTA-TAAAAA
1 ATATTTATTAGTAAAAA
47918864 ATTATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATATTTATTAGTAAAAAT
Found at i:47918871 original size:16 final size:18
Alignment explanation
Indices: 47918842--47918874 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
47918832 ATTTGTTAGT
47918842 AAAAATATATTTATTATA
1 AAAAATATATTTATTATA
47918860 AAAAAT-TA-TTATTAT
1 AAAAATATATTTATTAT
47918875 TATAACTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAATATATTTATTATA
Found at i:47918919 original size:23 final size:23
Alignment explanation
Indices: 47918887--47918930 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47918877 TAACTATCAT
*
47918887 TAAAATAATAAAGTAAA-TAAACA
1 TAAAAGAATAAAG-AAACTAAACA
47918910 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
47918931 AGAACAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAACA
Found at i:47918932 original size:17 final size:18
Alignment explanation
Indices: 47918900--47918934 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47918890 AATAATAAAG
*
47918900 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
47918918 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
47918935 CAAAAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:47918940 original size:18 final size:18
Alignment explanation
Indices: 47918905--47918943 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47918895 TAAAGTAAAT
*
47918905 AAACATAAAAGAATAAAG
1 AAACATAAAAGAAAAAAG
47918923 AAAC-TAAAAGAACAAAAG
1 AAACATAAAAGAA-AAAAG
47918941 AAA
1 AAA
47918944 GAAATGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (18 bp):
AAACATAAAAGAAAAAAG
Found at i:47919400 original size:17 final size:18
Alignment explanation
Indices: 47919378--47919411 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47919368 GAAATGAGTT
47919378 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
47919395 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
47919412 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:47919891 original size:21 final size:21
Alignment explanation
Indices: 47919858--47919927 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
47919848 TTATTGGCTT
*
47919858 TGTCG-ATCAGGCACTATATG
1 TGTCGTATTAGGCACTATATG
* **
47919878 TGTCGTATTAGGCACAACGTG
1 TGTCGTATTAGGCACTATATG
* *
47919899 TGTCAT-TTCAGGCACTTTATG
1 TGTCGTATT-AGGCACTATATG
*
47919920 TGTTGTAT
1 TGTCGTAT
47919928 ACTGCTTCGA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 7 0.19
21 28 0.78
22 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (21 bp):
TGTCGTATTAGGCACTATATG
Found at i:47923157 original size:7 final size:7
Alignment explanation
Indices: 47923142--47923187 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
47923132 TTAAAATTTG
47923142 AAATATAA
1 AAAT-TAA
47923150 AAATTAA
1 AAATTAA
47923157 AAATTAA
1 AAATTAA
**
47923164 AAATTTT
1 AAATTAA
47923171 AAATTAA
1 AAATTAA
47923178 AAA-TAA
1 AAATTAA
47923184 AAAT
1 AAAT
47923188 AAATTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 6 0.18
7 23 0.70
8 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATTAA
Found at i:47923223 original size:7 final size:7
Alignment explanation
Indices: 47923211--47923272 Score: 99
Period size: 7 Copynumber: 9.0 Consensus size: 7
47923201 TACGGGCTTA
47923211 GGGAAAT
1 GGGAAAT
47923218 GGGAAAT
1 GGGAAAT
47923225 GGGAAAT
1 GGGAAAT
47923232 GGGAAAT
1 GGGAAAT
47923239 GGGAAAT
1 GGGAAAT
47923246 GGGAAAT
1 GGGAAAT
*
47923253 GGG-AAG
1 GGGAAAT
47923259 GGGAAAT
1 GGGAAAT
*
47923266 GAGAAAT
1 GGGAAAT
47923273 TTATTTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
6 5 0.10
7 46 0.90
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.13
Consensus pattern (7 bp):
GGGAAAT
Found at i:47923500 original size:64 final size:64
Alignment explanation
Indices: 47923425--47923591 Score: 253
Period size: 64 Copynumber: 2.6 Consensus size: 64
47923415 TGATCACCTC
* * *
47923425 TACTTCTACCTATCAACCTGACCTCTTAGTTTACTGTATTTATTAATTATTAATTTGTTTTATG
1 TACTTCCACCTATCAACCTGACGTCTTAGTTTACTATATTTATTAATTATTAATTTGTTTTATG
* *
47923489 TACTTTCACCTATCTACCTGACGTCTTAGTTTACTATATTTATTAATTATTAATTTGTTTTATG
1 TACTTCCACCTATCAACCTGACGTCTTAGTTTACTATATTTATTAATTATTAATTTGTTTTATG
* * * *
47923553 TACTTCCACCTACCAACTTGACGTCTTAATTTGCTATAT
1 TACTTCCACCTATCAACCTGACGTCTTAGTTTACTATAT
47923592 AGTTTGGGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (64 bp):
TACTTCCACCTATCAACCTGACGTCTTAGTTTACTATATTTATTAATTATTAATTTGTTTTATG
Found at i:47932049 original size:10 final size:10
Alignment explanation
Indices: 47932036--47932062 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47932026 AAAATTCAAA
47932036 AAAAATATTT
1 AAAAATATTT
47932046 AAAAATATTT
1 AAAAATATTT
47932056 AAAAATA
1 AAAAATA
47932063 AACAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATTT
Found at i:47932261 original size:19 final size:19
Alignment explanation
Indices: 47932237--47932273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47932227 TGGAAGGTGG
*
47932237 ATGGCCATAGTGATAAAAA
1 ATGGCCAAAGTGATAAAAA
*
47932256 ATGGCCAAAGTGGTAAAA
1 ATGGCCAAAGTGATAAAA
47932274 TGGGTAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
ATGGCCAAAGTGATAAAAA
Found at i:47942611 original size:16 final size:18
Alignment explanation
Indices: 47942592--47942632 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
47942582 GTCAAGCAAC
47942592 ATTATTTAAAATA-AT-A
1 ATTATTTAAAATATATAA
* *
47942608 ATTAATTAACATATATAA
1 ATTATTTAAAATATATAA
47942626 ATTATTT
1 ATTATTT
47942633 TGACAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTAAAATATATAA
Found at i:47945462 original size:17 final size:17
Alignment explanation
Indices: 47945436--47945468 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47945426 AATATTTAAT
47945436 ATTTATATTT-TTTATA
1 ATTTATATTTATTTATA
47945452 ATTTAATATTTATTTAT
1 ATTT-ATATTTATTTAT
47945469 TTTTGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTATATTTATTTATA
Found at i:47945482 original size:27 final size:23
Alignment explanation
Indices: 47945429--47945474 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
47945419 TAAATTTAAT
*
47945429 ATTTAATATTTATATTTTTTATA
1 ATTTAATATTTATATTTTTGATA
47945452 ATTTAATATTTATTTATTTTTGA
1 ATTTAATATTTA--TATTTTTGA
47945475 GTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTAATATTTATATTTTTGATA
Found at i:47948415 original size:19 final size:19
Alignment explanation
Indices: 47948391--47948427 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47948381 TAAATTTGAT
*
47948391 GTTATTACTGTTATTATTA
1 GTTATTACTGTAATTATTA
*
47948410 GTTATTATTGTAATTATT
1 GTTATTACTGTAATTATT
47948428 TGCTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (19 bp):
GTTATTACTGTAATTATTA
Found at i:47948826 original size:35 final size:35
Alignment explanation
Indices: 47948787--47948855 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
47948777 TAAATATGTG
* *
47948787 TACATGCATATGT-TTTTCATATTTTCATAATTTTA
1 TACATACATATATCTTTT-ATATTTTCATAATTTTA
* *
47948822 TACATATATATATCTTTTATATTTTTATAATTTT
1 TACATACATATATCTTTTATATTTTCATAATTTT
47948856 TATAATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (35 bp):
TACATACATATATCTTTTATATTTTCATAATTTTA
Found at i:47948854 original size:9 final size:9
Alignment explanation
Indices: 47948836--47948864 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
47948826 TATATATATC
47948836 TTTTAT-AT
1 TTTTATAAT
47948844 TTTTATAAT
1 TTTTATAAT
47948853 TTTTATAAT
1 TTTTATAAT
47948862 TTT
1 TTT
47948865 GTTCATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47950892 original size:17 final size:17
Alignment explanation
Indices: 47950854--47950902 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
47950844 GGGTGAGAAG
47950854 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
47950872 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
47950889 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
47950903 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:47951276 original size:9 final size:9
Alignment explanation
Indices: 47951262--47951298 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47951252 TATAGTTTGA
47951262 TATTCGAAT
1 TATTCGAAT
47951271 TATTCGAAT
1 TATTCGAAT
*
47951280 TATTCGAGT
1 TATTCGAAT
*
47951289 TATTTGAAT
1 TATTCGAAT
47951298 T
1 T
47951299 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47951367 original size:9 final size:9
Alignment explanation
Indices: 47951350--47951380 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47951340 TCGACTTGAT
47951350 TCGAATAAC
1 TCGAATAAC
*
47951359 TCGATTAAC
1 TCGAATAAC
47951368 TCGAATAAC
1 TCGAATAAC
47951377 TCGA
1 TCGA
47951381 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47956083 original size:22 final size:22
Alignment explanation
Indices: 47956055--47956096 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47956045 CTTATGTCCC
47956055 AGAATTACACTGCATTGAACAT
1 AGAATTACACTGCATTGAACAT
* *
47956077 AGAATTACAGTGGATTGAAC
1 AGAATTACACTGCATTGAAC
47956097 CTTGAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (22 bp):
AGAATTACACTGCATTGAACAT
Found at i:47956440 original size:44 final size:44
Alignment explanation
Indices: 47956386--47956783 Score: 268
Period size: 45 Copynumber: 9.0 Consensus size: 44
47956376 GATAGCAGAT
* * * *
47956386 CTTGCATTCCTATACT-ATAGGCGAAGCAGATCGAAGACATCAG
1 CTTGCCTTCCTGTACTGACAGGCGAAGCAGATCGAAGACACCAG
* * *
47956429 CGTTGCCTTCCTGTACTGACA-GCGGAGCAGA-CTGAAGATAGCAG
1 C-TTGCCTTCCTGTACTGACAGGCGAAGCAGATC-GAAGACACCAG
47956473 ATCTTGCCTTCCTGTACTGACA-GCGAAGCAGATCGAAGACACCAG
1 --CTTGCCTTCCTGTACTGACAGGCGAAGCAGATCGAAGACACCAG
* * * *
47956518 CCTTTCCTTCCTGTACTGACAGTG-G-AGCAGA-CTGAAGATAGCAAAT
1 -CTTGCCTTCCTGTACTGACAG-GCGAAGCAGATC-GAAGACA-C-CAG
* * *
47956564 CTTGCCTTCCTGTACTAAC-GGTGAAGCAGATCAAAGACACCAG
1 CTTGCCTTCCTGTACTGACAGGCGAAGCAGATCGAAGACACCAG
* * * * * *
47956607 CCTTGCCTTCCTATACTAACA-GCGGAGCAGA-CTGTAGATAGCAG
1 -CTTGCCTTCCTGTACTGACAGGCGAAGCAGATC-GAAGACACCAG
* *
47956651 ATCTTGCCTTCCTGTACTGGA-A-GTGAAGTAGATCGAAGACACCAG
1 --CTTGCCTTCCTGTACT-GACAGGCGAAGCAGATCGAAGACACCAG
* * * * *
47956696 CCTTGCCTTCCTGTACTAACA-GCGGAGCAGA-CTGCAGATAGCAG
1 -CTTGCCTTCCTGTACTGACAGGCGAAGCAGATC-GAAGACACCAG
* *
47956740 ATCTTGCCTTCCTGTACCGACA-GCGAAGTAGATCGAAGACACCA
1 --CTTGCCTTCCTGTACTGACAGGCGAAGCAGATCGAAGACACCA
47956784 TAGTTTACAG
Statistics
Matches: 279, Mismatches: 52, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
43 8 0.03
44 130 0.47
45 133 0.48
46 8 0.03
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTGACAGGCGAAGCAGATCGAAGACACCAG
Found at i:47956527 original size:89 final size:89
Alignment explanation
Indices: 47956372--47956783 Score: 603
Period size: 89 Copynumber: 4.6 Consensus size: 89
47956362 AATAGATCAG
* * * * *
47956372 TGAAGATAGCAGATCTTGCATTCCTATACT-ATAGGCGAAGCAGATCGAAGACATCAGCGTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACA-GCGAAGCAGATCGAAGACACCAGCCTTGCC
*
47956436 TTCCTGTACTGACAGCGGAGCAGAC
65 TTCCTGTACTAACAGCGGAGCAGAC
*
47956461 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTTCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
47956526 TCCTGTACTGACAGTGGAGCAGAC
66 TCCTGTACTAACAGCGGAGCAGAC
* * * * *
47956550 TGAAGATAGCAAATCTTGCCTTCCTGTACTAACGGTGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
47956615 TCCTATACTAACAGCGGAGCAGAC
66 TCCTGTACTAACAGCGGAGCAGAC
* * *
47956639 TGTAGATAGCAGATCTTGCCTTCCTGTACTGGA-AGTGAAGTAGATCGAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACT-GACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
47956703 TTCCTGTACTAACAGCGGAGCAGAC
65 TTCCTGTACTAACAGCGGAGCAGAC
* * *
47956728 TGCAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGTAGATCGAAGACACCA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
47956784 TAGTTTACAG
Statistics
Matches: 294, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 2 0.01
89 289 0.98
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTAACAGCGGAGCAGAC
Found at i:47958543 original size:19 final size:19
Alignment explanation
Indices: 47958519--47958555 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47958509 TAAATTTGAT
*
47958519 GTTATTACTGTTATTATTA
1 GTTATTACTGTAATTATTA
*
47958538 GTTATTATTGTAATTATT
1 GTTATTACTGTAATTATT
47958556 TGCTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (19 bp):
GTTATTACTGTAATTATTA
Found at i:47960428 original size:20 final size:19
Alignment explanation
Indices: 47960382--47960428 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
47960372 ATAAATTTGG
47960382 AATTTTTTATAAATATTTT
1 AATTTTTTATAAATATTTT
**
47960401 AAAATTTTA-AAATTACTTTT
1 AATTTTTTATAAA-TA-TTTT
47960421 AATTTTTT
1 AATTTTTT
47960429 TATTTTTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTTTATAAATATTTT
Found at i:47961158 original size:96 final size:96
Alignment explanation
Indices: 47960985--47961158 Score: 235
Period size: 96 Copynumber: 1.8 Consensus size: 96
47960975 GTAAAACTTT
47960985 TTCAAAAAAAGCAATTAAGCCCTTCCTCTCTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAA
1 TTCAAAAAAAGCAATTAAGCCCTTCCTCTCTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAA
* *
47961050 AATGTATAAAAAAAAAAAGCCCTCAAATTTC
66 AACGCATAAAAAAAAAAAGCCCTCAAATTTC
** * * * *
47961081 TTCAAAAAAAGCAATTAAGTTC-TCTTTTTTTTTTTTGGCACTCAATTG-GATACTTGAACTTTC
1 TTCAAAAAAAGCAATTAAGCCCTTCCTCTCTTTTTTT-GCACTCAATTGAG-CACTTGAACTTTC
*
47961144 AAAACGCATCAAAAA
64 AAAACGCATAAAAAA
47961159 GACCCTCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 12 0.18
96 55 0.82
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (96 bp):
TTCAAAAAAAGCAATTAAGCCCTTCCTCTCTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAA
AACGCATAAAAAAAAAAAGCCCTCAAATTTC
Found at i:47961277 original size:19 final size:19
Alignment explanation
Indices: 47961223--47961280 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
47961213 TTAGAAAATA
*
47961223 AATAAAAATAAATAAATTTT
1 AATAAAAATATA-AAATTTT
* * *
47961243 AGA-CAAATTATTAAATTTT
1 A-ATAAAAATATAAAATTTT
47961262 AATAAAAATATAAAATTTT
1 AATAAAAATATAAAATTTT
47961281 CAAATTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 6 0.21
21 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAAAAATATAAAATTTT
Found at i:47961334 original size:18 final size:19
Alignment explanation
Indices: 47961307--47961371 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
47961297 TAGAATTTTT
47961307 TTATAAAAATTGTAAAAAA
1 TTATAAAAATTGTAAAAAA
**
47961326 TTA-AAAAATTGTAAAATT
1 TTATAAAAATTGTAAAAAA
**
47961344 TTATAAAAATCATAAAAAA
1 TTATAAAAATTGTAAAAAA
47961363 TTTATAAAA
1 -TTATAAAA
47961372 TGCATCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 16 0.42
19 14 0.37
20 8 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
TTATAAAAATTGTAAAAAA
Found at i:47961362 original size:21 final size:22
Alignment explanation
Indices: 47961338--47961384 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
47961328 AAAAAATTGT
47961338 AAAATTTTATAAAAAT-CAT-AA
1 AAAATTTTAT-AAAATGCATCAA
47961359 AAAA-TTTATAAAATGCATCAA
1 AAAATTTTATAAAATGCATCAA
47961380 AAAAT
1 AAAAT
47961385 CCCTTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATTTTATAAAATGCATCAA
Found at i:47961381 original size:20 final size:20
Alignment explanation
Indices: 47961306--47961384 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 20
47961296 TTAGAATTTT
**
47961306 TTTATAAAAATTGTAAAAAA
1 TTTATAAAAATCATAAAAAA
** *
47961326 -TTA-AAAAATTGT-AAAAT
1 TTTATAAAAATCATAAAAAA
47961343 TTTATAAAAATCATAAAAAA
1 TTTATAAAAATCATAAAAAA
47961363 TTTAT-AAAATGCATCAAAAAA
1 TTTATAAAAAT-CAT-AAAAAA
47961384 T
1 T
47961385 CCCTTTAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
17 4 0.08
18 12 0.24
19 15 0.30
20 12 0.24
21 7 0.14
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
TTTATAAAAATCATAAAAAA
Found at i:47961989 original size:19 final size:19
Alignment explanation
Indices: 47961965--47962018 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 19
47961955 TCTCTCCATC
47961965 TTTATTTATGTTTTAATAA
1 TTTATTTATGTTTTAATAA
*
47961984 TTTATTTATATTTTTTAATAA
1 TTTA-TT-TATGTTTTAATAA
47962005 TTTATTTATGTTTT
1 TTTATTTATGTTTT
47962019 TTATTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 16 0.52
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTATTTATGTTTTAATAA
Found at i:47962001 original size:21 final size:21
Alignment explanation
Indices: 47961975--47962021 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
47961965 TTTATTTATG
47961975 TTTTAATAATTTATTTATATT
1 TTTTAATAATTTATTTATATT
*
47961996 TTTTAATAATTTATTTATGTT
1 TTTTAATAATTTATTTATATT
47962017 TTTTA
1 TTTTA
47962022 TTTATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTAATAATTTATTTATATT
Found at i:47969245 original size:3 final size:3
Alignment explanation
Indices: 47969200--47969225 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47969190 ACAAGACATA
47969200 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
47969226 CTTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47975198 original size:2 final size:2
Alignment explanation
Indices: 47975188--47975234 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
47975178 TCTACTTTTT
47975188 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47975231 TA TA
1 TA TA
47975235 AACACAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:47975354 original size:56 final size:56
Alignment explanation
Indices: 47975282--47975394 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
47975272 TTACGATATG
* *
47975282 TTTGGTTCGTTGGAATAAAATAGAGCTGTAGT-GAAATTTATTCTGTAGGAATGAAA
1 TTTGGTTCGCTCGAATAAAATAGAGCTGTAGTAG-AATTTATTCTGTAGGAATGAAA
47975338 TTTGGTTCGCTCGAATAAAATAGAGCTGTAGTAGAATTTATTCTGTAGGAATGAAA
1 TTTGGTTCGCTCGAATAAAATAGAGCTGTAGTAGAATTTATTCTGTAGGAATGAAA
47975394 T
1 T
47975395 AAAAGTGTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 53 0.98
57 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (56 bp):
TTTGGTTCGCTCGAATAAAATAGAGCTGTAGTAGAATTTATTCTGTAGGAATGAAA
Found at i:47979170 original size:63 final size:63
Alignment explanation
Indices: 47979050--47979181 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 63
47979040 ACCTACTTGA
* * * * * *
47979050 CTATATTTATTAATTATTAATTAGTTTTATGTGCTTCCACCCATCAGCCTACCTCTTAGTTGG
1 CTATATTTATCAATTATTAATTAGTTTTATGTACTTCCACCCACCAACCTACATCTTAATTGG
* * *
47979113 CTATATTTATCAATTATTAATTTGTTTTATGTACTT-CACCTACCAACCTGACATCTTAATTTG
1 CTATATTTATCAATTATTAATTAGTTTTATGTACTTCCACCCACCAACCT-ACATCTTAATTGG
47979176 CTATAT
1 CTATAT
47979182 AGTTCCACGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 10 0.17
63 49 0.83
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (63 bp):
CTATATTTATCAATTATTAATTAGTTTTATGTACTTCCACCCACCAACCTACATCTTAATTGG
Found at i:47980367 original size:30 final size:28
Alignment explanation
Indices: 47980304--47980457 Score: 146
Period size: 30 Copynumber: 5.2 Consensus size: 28
47980294 AAAAAATAAA
* * *
47980304 AAAATTATATTTTGACCCCTAAACTTTT
1 AAAATTACATTTTAACCCCTAAATTTTT
* *
47980332 AAAATTGCATCTTAACCCCTAAATTTTCCT
1 AAAATTACATTTTAACCCCTAAATTTT--T
* *
47980362 AAAATTGCATTTTAACCCCTAAATTTCAAT
1 AAAATTACATTTTAACCCCTAAATTT--TT
* * *
47980392 AAAATTACATTTTGACACATAAACTTTTT
1 AAAATTACATTTTAACCCCTAAA-TTTTT
*
47980421 GAAATTACATTTTAACCCCTAAATTTTCT
1 AAAATTACATTTTAACCCCTAAATTTT-T
47980450 CAAAATTA
1 -AAAATTA
47980458 TGTTTTGGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
28 26 0.25
29 21 0.21
30 52 0.51
31 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAATTACATTTTAACCCCTAAATTTTT
Found at i:47980833 original size:12 final size:11
Alignment explanation
Indices: 47980816--47980858 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
47980806 GTTCAAGGAG
47980816 GAAGAAGAAGAA
1 GAAGAAGAA-AA
47980828 GAAGAAGAAAA
1 GAAGAAGAAAA
47980839 -AAGAA-AAAA
1 GAAGAAGAAAA
*
47980848 GAAAAAGAAAA
1 GAAGAAGAAAA
47980859 AGAAAAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 4 0.14
10 9 0.32
11 6 0.21
12 9 0.32
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAGAAGAAAA
Found at i:47980844 original size:7 final size:7
Alignment explanation
Indices: 47980832--47980874 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
47980822 GAAGAAGAAG
47980832 AAGAAAA
1 AAGAAAA
47980839 AAGAAAA
1 AAGAAAA
47980846 AAG-AAA
1 AAGAAAA
47980852 AAG-AAA
1 AAGAAAA
47980858 AAGAAAA
1 AAGAAAA
47980865 AGAGAAAA
1 A-AGAAAA
47980873 AA
1 AA
47980875 AAGGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 15 0.44
8 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:47980855 original size:20 final size:19
Alignment explanation
Indices: 47980826--47980873 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
47980816 GAAGAAGAAG
*
47980826 AAGAAGAAGAAAAAAGAAAA
1 AAGAAAAAG-AAAAAGAAAA
47980846 AAGAAAAAGAAAAAGAAAA
1 AAGAAAAAGAAAAAGAAAA
47980865 AGAGAAAAA
1 A-AGAAAAA
47980874 AAAGGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAAAGAAAA
Found at i:47980856 original size:26 final size:27
Alignment explanation
Indices: 47980820--47980874 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
47980810 AAGGAGGAAG
* *
47980820 AAGAAGAAGAAGAAGAAAAA-AGAAAA
1 AAGAAAAAGAAAAAGAAAAAGAGAAAA
47980846 AAGAAAAAGAAAAAGAAAAAGAGAAAA
1 AAGAAAAAGAAAAAGAAAAAGAGAAAA
47980873 AA
1 AA
47980875 AAGGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (27 bp):
AAGAAAAAGAAAAAGAAAAAGAGAAAA
Found at i:47980861 original size:29 final size:29
Alignment explanation
Indices: 47980820--47980883 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
47980810 AAGGAGGAAG
* *
47980820 AAGAAGAAGAAGAAGAAAAA-AG--AAAA
1 AAGAAAAAGAAAAAGAAAAAGAGAAAAAA
47980846 AAGAAAAAGAAAAAGAAAAAGAGAAAAAA
1 AAGAAAAAGAAAAAGAAAAAGAGAAAAAA
47980875 AAGGAAAAA
1 AA-GAAAAA
47980884 ACTTATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 18 0.56
27 2 0.06
29 6 0.19
30 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (29 bp):
AAGAAAAAGAAAAAGAAAAAGAGAAAAAA
Found at i:47980882 original size:7 final size:6
Alignment explanation
Indices: 47980820--47980883 Score: 67
Period size: 6 Copynumber: 10.3 Consensus size: 6
47980810 AAGGAGGAAG
* *
47980820 AAGAAG AAGAAG AAGAAAA AAGAAAA AAGAAA AAGAAA AAGAAA AAGAGAA
1 AAGAAA AAGAAA AAG-AAA AAG-AAA AAGAAA AAGAAA AAGAAA AAGA-AA
*
47980871 AA-AAA AGGAAA AA
1 AAGAAA AAGAAA AA
47980884 ACTTATTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
5 3 0.06
6 33 0.63
7 16 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:47981167 original size:12 final size:11
Alignment explanation
Indices: 47981148--47981245 Score: 107
Period size: 10 Copynumber: 9.1 Consensus size: 11
47981138 AAGCAGGCCA
47981148 AAGAAAAAAAG
1 AAGAAAAAAAG
47981159 AAGGAAAAAAAG
1 AA-GAAAAAAAG
*
47981171 AAAAGAAAAAAG
1 AAGA-AAAAAAG
*
47981183 GAGAAAAAAA-
1 AAGAAAAAAAG
47981193 AAGAAAAAATAG
1 AAGAAAAAA-AG
47981205 AAG-AAAAAAG
1 AAGAAAAAAAG
47981215 AAG-AAAAAAG
1 AAGAAAAAAAG
*
47981225 AA-AAGAAAA-
1 AAGAAAAAAAG
47981234 AAGAAAAAAAG
1 AAGAAAAAAAG
47981245 A
1 A
47981246 GGTTCAATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.03
10 33 0.45
11 16 0.22
12 23 0.31
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:47981189 original size:22 final size:19
Alignment explanation
Indices: 47981162--47981242 Score: 90
Period size: 21 Copynumber: 4.0 Consensus size: 19
47981152 AAAAAAGAAG
47981162 GAAAAAAAGAAAAGAAAAAA
1 GAAAAAAA-AAAAGAAAAAA
*
47981182 GGAGAAAAAAAAAGAAAAAATA
1 -GAAAAAAAAAAAG-AAAAA-A
*
47981204 GAAGAAAAAAGAAGAAAAAA
1 GAA-AAAAAAAAAGAAAAAA
*
47981224 GAAAAGAAAAAAGAAAAAA
1 GAAAAAAAAAAAGAAAAAA
47981243 AGAGGTTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 14 0.27
20 9 0.17
21 19 0.37
22 10 0.19
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (19 bp):
GAAAAAAAAAAAGAAAAAA
Found at i:47981243 original size:22 final size:21
Alignment explanation
Indices: 47981147--47981243 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 21
47981137 GAAGCAGGCC
*
47981147 AAAGAAAAAAAGAAGGAAAAAAAGA
1 AAAGAAAAAAA-AA-G-AAAGAA-A
**
47981172 AAAGAAAAAAGGAGAAA-AAA
1 AAAGAAAAAAAAAGAAAGAAA
*
47981192 AAAG-AAAAAATAG-AAGAAA
1 AAAGAAAAAAAAAGAAAGAAA
*
47981211 AAAGAAGAAAAAAGAAAAGAAA
1 AAAGAAAAAAAAAG-AAAGAAA
47981233 AAAGAAAAAAA
1 AAAGAAAAAAA
47981244 GAGGTTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.03
19 14 0.23
20 12 0.20
21 2 0.03
22 19 0.31
23 1 0.02
24 1 0.02
25 10 0.16
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAAGAAA
Found at i:47981586 original size:18 final size:18
Alignment explanation
Indices: 47981565--47982330 Score: 303
Period size: 18 Copynumber: 42.5 Consensus size: 18
47981555 ATTGTAAATA
47981565 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTTCGTGTT
47981583 TTCACAAAAAATTTCCGTG-T
1 TT--CAAAAAATTT-CGTGTT
* * **
47981603 TTC-GAAATTTTCGTGGC
1 TTCAAAAAATTTCGTGTT
47981620 TTCAAAATAATTTTTC-TCGTGT
1 TTCAAAA-AA--TTTCGT-GT-T
47981642 TTCAAAAAATATTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
* *
47981661 TTCAAAAAAATTCCAT-TT
1 TTC-AAAAAATTTCGTGTT
*
47981679 TTC-AAAATTTTCCGTGTT
1 TTCAAAAAATTT-CGTGTT
* *
47981697 TTCTAAAAATTTCCATG-T
1 TTCAAAAAATTT-CGTGTT
* * *
47981715 TTCTAAAATTTTTGTG-T
1 TTCAAAAAATTTCGTGTT
* *
47981732 TTCAAAAATTTTCGTATT
1 TTCAAAAAATTTCGTGTT
** * *
47981750 TTCAAAACTTTTTGTATT
1 TTCAAAAAATTTCGTGTT
*
47981768 TTC-AACAATTCTCGTG-T
1 TTCAAAAAATT-TCGTGTT
* *
47981785 TTCACAAATTTTCGTGTT
1 TTCAAAAAATTTCGTGTT
*** **
47981803 TT-AAATTTTTTTTATGTTT
1 TTCAAA-AAATTTCGTG-TT
*
47981822 TTTAAAAAATTCTCGTG-T
1 TTCAAAAAATT-TCGTGTT
*
47981840 TTC-AAAAATTGTCCTGTT
1 TTCAAAAAATT-TCGTGTT
*
47981858 TT--AAAAATGTTTGTG-T
1 TTCAAAAAAT-TTCGTGTT
* * *
47981874 TTCTAAAATTTTCGT-AT
1 TTCAAAAAATTTCGTGTT
* *
47981891 TTCTAAAATTTTCGTGTT
1 TTCAAAAAATTTCGTGTT
*
47981909 TTC-AAAATTTTGCGTG-T
1 TTCAAAAAATTT-CGTGTT
47981926 TTC-AAAAATCTTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
47981944 TTC-AAAAATTTCG-GTGT
1 TTCAAAAAATTTCGTGT-T
*
47981961 TTCAAAAAATTCCCGTGTT
1 TTCAAAAAATT-TCGTGTT
*
47981980 TT--AAAAATTTCTGTGCT
1 TTCAAAAAATTTC-GTGTT
* *
47981997 TTCAAAAATTTTTGTGTT
1 TTCAAAAAATTTCGTGTT
** *
47982015 TTCAAAATTTTTTGT-TT
1 TTCAAAAAATTTCGTGTT
*
47982032 TTC-AAAAATCCTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
47982050 TTC-AAAAATTTCGGTGTT
1 TTCAAAAAATTTC-GTGTT
* * *
47982068 TT-GAAAATTTTCGAGTT
1 TTCAAAAAATTTCGTGTT
*
47982085 TTCAAAAAAAAATCTCGTG-T
1 TTC---AAAAAATTTCGTGTT
* * *
47982105 TTCATAAATTTTCGTTTT
1 TTCAAAAAATTTCGTGTT
* *
47982123 TTTAAAAAATAATC--G-T
1 TTCAAAAAAT-TTCGTGTT
*
47982139 TTC-AAAAATCTTCTTGTT
1 TTCAAAAAAT-TTCGTGTT
* *
47982157 TTAAAAAAAATTTCCTGTGT
1 TT-CAAAAAATTTCGTGT-T
*
47982177 TTC-AAAAATCTTCGTGTC
1 TTCAAAAAAT-TTCGTGTT
*
47982195 TTC-AAAAATTCCGATGTT
1 TTCAAAAAATTTCG-TGTT
* *
47982213 TTCAAAAATTTTCATGTT
1 TTCAAAAAATTTCGTGTT
*
47982231 TTCAAAAAATTCCCGTGTT
1 TTCAAAAAATT-TCGTGTT
*
47982250 TT-AAAAATTTTCGTGTTT
1 TTCAAAAAATTTCGTG-TT
* * *
47982268 TTTAAGAATTTTCGTG-T
1 TTCAAAAAATTTCGTGTT
* *
47982285 CTC-TAAAATTCTCGTGTT
1 TTCAAAAAATT-TCGTGTT
**
47982303 TT-AAAATTTTTTTCGTGTT
1 TTCAAAA--AATTTCGTGTT
47982322 TTCAAAAAA
1 TTCAAAAAA
47982331 ATAATTTTTT
Statistics
Matches: 574, Mismatches: 106, Indels: 136
0.70 0.13 0.17
Matches are distributed among these distances:
15 8 0.01
16 27 0.05
17 164 0.29
18 207 0.36
19 87 0.15
20 53 0.09
21 21 0.04
22 7 0.01
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (18 bp):
TTCAAAAAATTTCGTGTT
Found at i:47981732 original size:17 final size:17
Alignment explanation
Indices: 47981678--47982312 Score: 203
Period size: 17 Copynumber: 35.8 Consensus size: 17
47981668 AAATTCCATT
47981678 TTTC-AAAATTTTCCGTG
1 TTTCTAAAATTTT-CGTG
* *
47981695 TTTTCTAAAAATTTCCATG
1 -TTTCT-AAAATTTTCGTG
*
47981714 TTTCTAAAATTTTTGTG
1 TTTCTAAAATTTTCGTG
* *
47981731 TTTCAAAAATTTTCGTA
1 TTTCTAAAATTTTCGTG
* *
47981748 TTT-TCAAAACTTTTTGTA
1 TTTCT-AAAA-TTTTCGTG
*
47981766 TTT-TCAACAATTCTCGTG
1 TTTCT-AA-AATTTTCGTG
47981784 TTTC-ACAAATTTTCGTG
1 TTTCTA-AAATTTTCGTG
* **
47981801 TTT-TAAATTTTTTTTATG
1 TTTCTAAA--ATTTTCGTG
* *
47981819 TTTTTTAAAAAATTCTCGTG
1 -TTTCT--AAAATTTTCGTG
* * *
47981839 TTTCAAAAATTGTCCTG
1 TTTCTAAAATTTTCGTG
47981856 TTT-TAAAAATGTTT-GTG
1 TTTCT-AAAAT-TTTCGTG
*
47981873 TTTCTAAAATTTTCGTA
1 TTTCTAAAATTTTCGTG
47981890 TTTCTAAAATTTTCGTG
1 TTTCTAAAATTTTCGTG
47981907 TTT-TCAAAATTTTGCGTG
1 TTTCT-AAAATTTT-CGTG
* *
47981925 TTTCAAAAATCTTCGTG
1 TTTCTAAAATTTTCGTG
*
47981942 TTT-TCAAAAATTTCGGTG
1 TTTCT-AAAATTTTC-GTG
* **
47981960 TTTCAAAAAATTCCCGTG
1 TTTC-TAAAATTTTCGTG
*
47981978 TTT-TAAAAATTTCTGTG
1 TTTCTAAAATTTTC-GTG
* *
47981995 CTTTCAAAAATTTTTGTG
1 -TTTCTAAAATTTTCGTG
* *
47982013 TTT-TCAAAATTTTTTGTT
1 TTTCT-AAAA-TTTTCGTG
* **
47982031 TTTCAAAAATCCTCGTG
1 TTTCTAAAATTTTCGTG
*
47982048 TTT-TCAAAAATTTCGGTG
1 TTTCT-AAAATTTTC-GTG
*
47982066 TTT-TGAAAATTTTCGAG
1 TTTCT-AAAATTTTCGTG
* * *
47982083 TTTTCAAAAAAAAATCTCGTG
1 -TTTC---TAAAATTTTCGTG
*
47982104 TTTC-ATAAATTTTCGTT
1 TTTCTA-AAATTTTCGTG
* **
47982121 TTTTTAAAAAATAATC--G
1 TTTCT--AAAATTTTCGTG
* * *
47982138 TTTCAAAAATCTTCTTG
1 TTTCTAAAATTTTCGTG
*
47982155 TTT-TAAAAAAAATTTCCTGTG
1 TTTCT----AAAATTTTC-GTG
* *
47982176 TTTCAAAAATCTTCGTG
1 TTTCTAAAATTTTCGTG
* *
47982193 TCTTC-AAAAATTCCGATG
1 T-TTCTAAAATTTTCG-TG
* *
47982211 TTTTCAAAAATTTTCATG
1 -TTTCTAAAATTTTCGTG
* **
47982229 TTTTCAAAAAATTCCCGTG
1 -TTTC-TAAAATTTTCGTG
47982248 TTT-TAAAAATTTTCGTG
1 TTTCT-AAAATTTTCGTG
*
47982265 TTTTTTAAGAATTTTCGTG
1 -TTTCTAA-AATTTTCGTG
* *
47982284 TCTCTAAAATTCTCGTG
1 TTTCTAAAATTTTCGTG
47982301 TTT-TAAAATTTT
1 TTTCTAAAATTTT
47982313 TTTCGTGTTT
Statistics
Matches: 459, Mismatches: 99, Indels: 120
0.68 0.15 0.18
Matches are distributed among these distances:
15 7 0.02
16 21 0.05
17 190 0.41
18 140 0.31
19 59 0.13
20 25 0.05
21 14 0.03
22 3 0.01
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
TTTCTAAAATTTTCGTG
Found at i:47981874 original size:34 final size:34
Alignment explanation
Indices: 47981636--47982367 Score: 258
Period size: 35 Copynumber: 20.5 Consensus size: 34
47981626 ATAATTTTTC
* * *
47981636 TCGTGTTTCAAAAAATATTCGTGTTTTCAAAAAAATT
1 TCGTGTTT-TAAAAAT-TTTGTGTTTTC-AAAAATTT
* * *
47981673 CCAT-TTTTCAAAATTTTCCGTGTTTTCTAAAAATTT
1 TCGTGTTTTAAAAATTTT--GTGTTTTC-AAAAATTT
* * *
47981709 CCATGTTTCTAAAATTTTTGTG-TTTCAAAAATTT
1 TCGTGTTT-TAAAAATTTTGTGTTTTCAAAAATTT
* * * * *
47981743 TCGTATTTTCAAAACTTTTTGTATTTTCAACAATTC
1 TCGTGTTTT-AAAA-ATTTTGTGTTTTCAAAAATTT
* * **
47981779 TCGTGTTTCACAAATTTTCGTGTTTT-AAATTTTTTT
1 TCGTGTTTTAAAAATTTT-GTGTTTTCAAA--AATTT
* * * *
47981815 TATGTTTTTTAAAAAATTCTCGTG-TTTCAAAAATTG
1 T-CGTGTTTT-AAAAATT-TTGTGTTTTCAAAAATTT
* *
47981851 TCCTGTTTTAAAAATGTTTGTG-TTTCTAAAATTT
1 TCGTGTTTTAAAAAT-TTTGTGTTTTCAAAAATTT
*
47981885 TCGTATTTCT-AAAATTTTCGTGTTTTC-AAAATTT
1 TCGTGTTT-TAAAAATTTT-GTGTTTTCAAAAATTT
* *
47981919 TGCGTGTTTCAAAAATCTTCGTGTTTTCAAAAA-TT
1 T-CGTGTTTTAAAAAT-TTTGTGTTTTCAAAAATTT
* **
47981954 TCGGTGTTTCAAAAAATTCCCGTGTTTT-AAAAA-TT
1 TC-GTGTTT-TAAAAATT-TTGTGTTTTCAAAAATTT
* *
47981989 TCTGTGCTTTCAAAAATTTTTGTGTTTTCAAAATTTT
1 TC-GTG-TTTTAAAAA-TTTTGTGTTTTCAAAAATTT
* * *
47982026 TTGT-TTTTCAAAAATCCTCGTGTTTTCAAAAA-TT
1 TCGTGTTTT-AAAAAT-TTTGTGTTTTCAAAAATTT
* * * *
47982060 TCGGTGTTTTGAAAATTTTCGAGTTTTCAAAAAAAAATC
1 TC-GTGTTTTAAAAATTTT-GTGTTTTC---AAAAATTT
* * * * **
47982099 TCGTGTTTCATAAATTTTCGTTTTTTTAAAAAATAA
1 TCGTGTTTTAAAAATTTT-G-TGTTTTCAAAAATTT
* *
47982135 TC--GTTTCAAAAATCTTCT-TGTTTTAAAAAAAATTT
1 TCGTGTTTTAAAAAT-TT-TGTGTTTT--CAAAAATTT
* * * *
47982170 CCTGTGTTTCAAAAATCTTCGTGTCTTCAAAAA-TT
1 TC-GTGTTTTAAAAAT-TTTGTGTTTTCAAAAATTT
* * *
47982205 CCGATGTTTTCAAAAATTTTCATGTTTTCAAAAAATTC
1 TCG-TGTTTT-AAAAATTTT-GTGTTTTC-AAAAATTT
* * *
47982243 CCGTGTTTTAAAAATTTTCGTGTTTTTTAAGAATTT
1 TCGTGTTTTAAAAATTTT-GTG-TTTTCAAAAATTT
* * *
47982279 TCGTGTCTCT-AAAATTCTCGTGTTTT-AAAATTTTTT
1 TCGTGT-TTTAAAAATT-TTGTGTTTTCAAAA--ATTT
** ** * *
47982315 TCGTGTTTTCAAAAAAATAATTTTTTCAAAAATAT
1 TCGTGTTTT-AAAAATTTTGTGTTTTCAAAAATTT
* *
47982350 TCGTGTTTCAAAATTTTT
1 TCGTGTTTTAAAAATTTT
47982368 TTACCGTATT
Statistics
Matches: 530, Mismatches: 105, Indels: 123
0.70 0.14 0.16
Matches are distributed among these distances:
33 9 0.02
34 95 0.18
35 158 0.30
36 155 0.29
37 42 0.08
38 63 0.12
39 8 0.02
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (34 bp):
TCGTGTTTTAAAAATTTTGTGTTTTCAAAAATTT
Found at i:47993169 original size:34 final size:34
Alignment explanation
Indices: 47993131--47993216 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
47993121 TATTATGCCT
47993131 AAAAACAAAAACAAAAACAAAAACAAAAACAA-AA
1 AAAAACAAAAACAAAAACAAAAA-AAAAACAACAA
*
47993165 AAAAACAAAAACAAAAACAAACAAAAAACAACAA
1 AAAAACAAAAACAAAAACAAAAAAAAAACAACAA
* *
47993199 AGAAAAGAAAAAGAAAAA
1 A-AAAACAAAAACAAAAA
47993217 TCAAGATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 8 0.17
34 25 0.53
35 14 0.30
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (34 bp):
AAAAACAAAAACAAAAACAAAAAAAAAACAACAA
Found at i:47993209 original size:28 final size:25
Alignment explanation
Indices: 47993131--47993216 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
47993121 TATTATGCCT
*
47993131 AAAAAC-AAAAACAA-AAACAAAAAC
1 AAAAACAAAAAACAACAAA-AAAAAA
*
47993155 AAAAACAAAAAAAAACAAAAACAAAA
1 AAAAACAAAAAACAACAAAAA-AAAA
* * *
47993181 ACAAACAAAAAACAACAAAGAAAAG
1 AAAAACAAAAAACAACAAAAAAAAA
*
47993206 AAAAAGAAAAA
1 AAAAACAAAAA
47993217 TCAAGATGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.12
25 21 0.41
26 24 0.47
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (25 bp):
AAAAACAAAAAACAACAAAAAAAAA
Found at i:47993216 original size:6 final size:6
Alignment explanation
Indices: 47993131--47993195 Score: 100
Period size: 6 Copynumber: 11.3 Consensus size: 6
47993121 TATTATGCCT
47993131 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC -AAAA- AAAAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
*
47993177 AAAAAC AAACA- AAAAAC AA
1 AAAAAC AAAAAC AAAAAC AA
47993196 CAAAGAAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 12 0.22
6 42 0.78
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:47994183 original size:59 final size:60
Alignment explanation
Indices: 47994083--47994209 Score: 238
Period size: 59 Copynumber: 2.1 Consensus size: 60
47994073 TCAATTTTTG
47994083 TTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
1 TTTTT-AAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
47994144 TTTTTAAAAAATCAACTCATAATACG-GAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
1 TTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
47994203 TTTTTAA
1 TTTTTAA
47994210 TTTCTATTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 40 0.61
60 21 0.32
61 5 0.08
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (60 bp):
TTTTTAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
Found at i:47994339 original size:153 final size:153
Alignment explanation
Indices: 47994144--47994832 Score: 1111
Period size: 153 Copynumber: 4.5 Consensus size: 153
47994134 CGCTGAGGTA
*
47994144 TTTTTAAAAAATCAACTCATAATACG-GAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
47994208 AATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
66 AATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
* *
47994273 GTGGTATTTTTAATTACTGTTTT
131 GAGGTATTTTTAATTTCTGTTTT
*
47994296 TTTTTCAAAAATCAACTCATAAAACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
47994361 AATTT-T-TGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC
66 AATTTCTAT-TTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC
*
47994424 TGAGGTATTTTTAATTTCT-ATTT
130 TGAGGTATTTTTAATTTCTGTTTT
*
47994447 TTTTTCAAAAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
* *
47994512 AATTACTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC
66 AATTTCT-ATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC
47994577 TGAGGTATTTTTAATCTT-TGTTTT
130 TGAGGTATTTTTAAT-TTCTGTTTT
47994601 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
* * * *
47994666 AATTTCTGTTGTTTTTCAAAAATCAACTCATAGTACGAGAGGTGAGTTGAGCCTTGGGTCACGCT
66 AATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
*
47994731 GAGGTATTTTTAATTTCTG-TTG
131 GAGGTATTTTTAATTTCTGTTTT
* * * * *
47994753 TTTTTCAAAAATTAACTCATAGTACGAGAGGTGAGTTAAGCCTCGGGTCACACGCCGATGTATTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTT
**
47994818 TCGATTTCTATTTTT
64 TTAATTTCTATTTTT
47994833 CAAATAAAAA
Statistics
Matches: 502, Mismatches: 25, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
151 71 0.14
152 147 0.29
153 184 0.37
154 100 0.20
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (153 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
AATTTCTATTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
GAGGTATTTTTAATTTCTGTTTT
Found at i:47994342 original size:77 final size:77
Alignment explanation
Indices: 47994144--47994803 Score: 1111
Period size: 76 Copynumber: 8.7 Consensus size: 77
47994134 CGCTGAGGTA
*
47994144 TTTTTAAAAAATCAACTCATAATACG-GAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994208 AATTTCT-ATTT
66 AATTTCTGTTTT
*
47994219 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGTGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994284 AATTACTGTTTT
66 AATTTCTGTTTT
*
47994296 TTTTTCAAAAATCAACTCATAAAACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994361 AATTT-T-TGTT
66 AATTTCTGTTTT
47994371 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994436 AATTTCT-ATTT
66 AATTTCTGTTTT
*
47994447 TTTTTCAAAAATCAACTCATAATACGATAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994512 AATTACTGTTTT
66 AATTTCTGTTTT
47994524 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
47994589 AATCTT-TGTTTT
66 AAT-TTCTGTTTT
47994601 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994666 AATTTCTG-TTG
66 AATTTCTGTTTT
* *
47994677 TTTTTCAAAAATCAACTCATAGTACGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
47994742 AATTTCTG-TTG
66 AATTTCTGTTTT
* * *
47994753 TTTTTCAAAAATTAACTCATAGTACGAGAGGTGAGTTAAGCCTCGGGTCAC
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
47994804 ACGCCGATGT
Statistics
Matches: 557, Mismatches: 22, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
75 97 0.17
76 243 0.44
77 216 0.39
78 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (77 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
AATTTCTGTTTT
Found at i:47995038 original size:29 final size:28
Alignment explanation
Indices: 47994996--47995121 Score: 144
Period size: 29 Copynumber: 4.2 Consensus size: 28
47994986 CAAAAAATAA
*
47994996 AAAATTTACATTTTGACCCCTAAACCTTTT
1 AAAA-TTACATTTTGACCCCTAAA-TTTTT
* *
47995026 AAAATTGCATTTTAACCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAATTTT--T
**
47995056 AAAATTACATTTTGACCTATAAAATTTTT
1 AAAATTACATTTTGACCCCT-AAATTTTT
47995085 AAAATTACATTTTGACCCCTAAATTTTCT
1 AAAATTACATTTTGACCCCTAAATTTT-T
47995114 CAAAATTA
1 -AAAATTA
47995122 TGTTTTGGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
28 10 0.12
29 37 0.45
30 28 0.34
31 7 0.09
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.40
Consensus pattern (28 bp):
AAAATTACATTTTGACCCCTAAATTTTT
Found at i:47995070 original size:59 final size:59
Alignment explanation
Indices: 47994996--47995121 Score: 173
Period size: 59 Copynumber: 2.1 Consensus size: 59
47994986 CAAAAAATAA
* * *
47994996 AAAATTTACATTTTGACCCCTAAACCTTTTAAAATTGCATTTTAACCCCTAAATTTTC-C
1 AAAA-TTACATTTTGACCCATAAAACTTTTAAAATTACATTTTAACCCCTAAATTTTCTC
* * *
47995055 TAAAATTACATTTTGACCTATAAAATTTTTAAAATTACATTTTGACCCCTAAATTTTCTC
1 -AAAATTACATTTTGACCCATAAAACTTTTAAAATTACATTTTAACCCCTAAATTTTCTC
47995115 AAAATTA
1 AAAATTA
47995122 TGTTTTGGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 54 0.92
60 5 0.08
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTGACCCATAAAACTTTTAAAATTACATTTTAACCCCTAAATTTTCTC
Found at i:47995489 original size:3 final size:3
Alignment explanation
Indices: 47995483--47995537 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
47995473 GTTCAAGGAG
* *
47995483 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA -AA GAA AAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
47995529 GAA AAA GAA
1 GAA GAA GAA
47995538 AGAGAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:47995531 original size:34 final size:34
Alignment explanation
Indices: 47995481--47995556 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
47995471 AGGTTCAAGG
* * *
47995481 AGGAAGAAGAAGAAGAAGAAG-AAGAAGAAGAAAAA
1 AGGAAAAAGAAAAAGAAAAAGAAAG-AGAA-AAAAA
47995516 A-GAAAAAGAAAAAGAAAAAGAAAGAGAAAAAAA
1 AGGAAAAAGAAAAAGAAAAAGAAAGAGAAAAAAA
47995549 AGGAAAAA
1 AGGAAAAA
47995557 ACTTATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 6 0.17
34 26 0.72
35 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (34 bp):
AGGAAAAAGAAAAAGAAAAAGAAAGAGAAAAAAA
Found at i:47995549 original size:22 final size:22
Alignment explanation
Indices: 47995493--47995557 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
47995483 GAAGAAGAAG
* *
47995493 AAGAAGAAG-AAGAAGAAGAAAA
1 AAGAAAAAGAAAG-AGAAAAAAA
*
47995515 AAGAAAAAGAAAAAGAAAAAGAA
1 AAGAAAAAGAAAGAGAAAAA-AA
47995538 AGAGAAAAA-AAAG-GAAAAAA
1 A-AGAAAAAGAAAGAGAAAAAA
47995558 CTTATTATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
21 1 0.03
22 20 0.56
23 8 0.22
24 7 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAGAAAAAGAAAGAGAAAAAAA
Found at i:47995555 original size:6 final size:6
Alignment explanation
Indices: 47995484--47995546 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
47995474 TTCAAGGAGG
* * * *
47995484 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA AAGAAA
*
47995533 AAGAAA GAGAAA AA
1 AAGAAA AAGAAA AA
47995547 AAAGGAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
6 48 0.91
7 5 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:47995833 original size:7 final size:7
Alignment explanation
Indices: 47995821--47995899 Score: 61
Period size: 7 Copynumber: 10.4 Consensus size: 7
47995811 GAAGCAGGCC
47995821 AAAGAAA
1 AAAGAAA
47995828 AAAGAAA
1 AAAGAAA
*
47995835 GGAAAAAAGA
1 --AAAGAA-A
47995845 AAAGAAA
1 AAAGAAA
47995852 AAAGGAGAA
1 AAA-GA-AA
47995861 AAA-AAGA
1 AAAGAA-A
47995868 AGAAGAAA
1 A-AAGAAA
**
47995876 AAAGCGA
1 AAAGAAA
47995883 AAAGAAA
1 AAAGAAA
47995890 AAAGAAA
1 AAAGAAA
47995897 AAA
1 AAA
47995900 AGAGGTTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
6 1 0.02
7 33 0.57
8 11 0.19
9 12 0.21
10 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:47995841 original size:12 final size:12
Alignment explanation
Indices: 47995821--47995897 Score: 93
Period size: 12 Copynumber: 6.2 Consensus size: 12
47995811 GAAGCAGGCC
47995821 AAAGAAAAAAGA
1 AAAGAAAAAAGA
*
47995833 AAGGAAAAAAGA
1 AAAGAAAAAAGA
*
47995845 AAAGAAAAAAGG
1 AAAGAAAAAAGA
*
47995857 AGA-AAAAAAGA
1 AAAGAAAAAAGA
47995868 AGAAGAAAAAAGCGA
1 A-AAGAAAAAA--GA
47995883 AAAGAAAAAAGA
1 AAAGAAAAAAGA
47995895 AAA
1 AAA
47995898 AAAGAGGTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
11 8 0.15
12 29 0.53
13 6 0.11
14 9 0.16
15 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:47996312 original size:18 final size:18
Alignment explanation
Indices: 47996289--47996411 Score: 67
Period size: 18 Copynumber: 6.9 Consensus size: 18
47996279 AATAATTTTT
47996289 TTCGTG-TTTCAAAAAATA
1 TTCGTGTTTTCAAAAAA-A
47996307 TTCGTGTTTTCAAAAAAA
1 TTCGTGTTTTCAAAAAAA
* **
47996325 TTC-TATTTTTC-AAAATT
1 TTCGT-GTTTTCAAAAAAA
* *
47996342 TTCAGTGTTTTCTAAAAAT
1 TTC-GTGTTTTCAAAAAAA
* * **
47996361 TTCCATGTTTT-TAAAATT
1 TT-CGTGTTTTCAAAAAAA
* **
47996379 TTTGTG-TTTCAAAAATT
1 TTCGTGTTTTCAAAAAAA
47996396 TTCGTGTTTTCAAAAA
1 TTCGTGTTTTCAAAAA
47996412 TTTTTATATT
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.03
17 21 0.24
18 37 0.43
19 24 0.28
20 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAAAA
Found at i:47996353 original size:36 final size:36
Alignment explanation
Indices: 47996224--47996918 Score: 154
Period size: 36 Copynumber: 19.4 Consensus size: 36
47996214 AAATATTCAA
*
47996224 AAAATTTT-GTGTTTTCACAAAAAATTTCCGTG-TTTC
1 AAAATTTTCGTGTTTTCA-AAAAAA-TTCCATGTTTTC
* ** * ***
47996260 GAAATTTTCGTGGCTTCAAAATAATTTTTTTCGTGTTTC
1 AAAATTTTCGTGTTTTCAAAA-AAATTCCAT-GT-TTTC
* *
47996299 AAAAAATATTCGTGTTTTCAAAAAAATTCTAT-TTTTC
1 --AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
* * *
47996336 AAAATTTTCAGTGTTTTCTAAAAATTTCCATGTTTTT
1 AAAATTTTC-GTGTTTTCAAAAAAATTCCATGTTTTC
* * * *
47996373 AAAATTTTTGTG-TTTC-AAAAATTTTCGTGTTTTC
1 AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
** * * *
47996407 AAAAATTTTTATATTTTC--AACAATTCTCGTG-TTTC
1 -AAAATTTTCGTGTTTTCAAAAAAATTC-CATGTTTTC
**** ** *
47996442 ACAAATTTTCGTGTTTT--AATTTTTTTTATGTTTTAAA
1 A-AAATTTTCGTGTTTTCAAAAAAATTCCATGTTTT--C
* * * *
47996479 AAAATTCTCGTG-TTTC--AAAAATTGTCGTGTTTTA
1 AAAATTTTCGTGTTTTCAAAAAAATT-CCATGTTTTC
** * *
47996513 AAAATGTTT-GTG--TTCCTAAAATTTTC--GTATTTC
1 AAAAT-TTTCGTGTTTTCAAAAAAATTCCATGT-TTTC
** * *
47996546 TAAAATTTTCGTGTTTTC-AAAATTTTGCGTG-TTTC
1 -AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
* *
47996581 AAAAATCTTCGTGTTTTC--AAAAATTCC-GGTGTTTC
1 -AAAATTTTCGTGTTTTCAAAAAAATTCCATGT-TTTC
** * ** *
47996616 AAAAAATTCCCGTGTTTT--AAAAATTTCTGTGTTTTA
1 --AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
* * ** * *
47996652 AAAATTTTTTGTATTTTC-AAAACTTTTCGTG-TTTC
1 AAAA-TTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
** * ** *
47996687 AAAAATCCTCGTGTTTTC-AAAAATTTCGGTGTTTTG
1 -AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
* *
47996723 AAAATTTTCGTGTTTTCAAAAAAAATCTCGTG-TTTC
1 AAAATTTTCGTGTTTTCAAAAAAATTC-CATGTTTTC
* * *
47996759 GTAAATTTTC--GTTTT-AAAAAAAAT-AAT-TGTTTC
1 -AAAATTTTCGTGTTTTCAAAAAAATTCCATGT-TTTC
* * *
47996792 AAAAATCTTCATGTTTTAAAAAAAATTTCC-TGTGTTTC
1 -AAAATTTTCGTGTTTTCAAAAAAA-TTCCATGT-TTTC
* *
47996830 AAAAATCTTCGTGTCTTC--AAAAATTCCAATGTTTTC
1 -AAAATTTTCGTGTTTTCAAAAAAATTCC-ATGTTTTC
* *
47996866 AAAAATTTTCATGTTTTC-AAAAAATTCCCGTGTTTT-
1 -AAAATTTTCGTGTTTTCAAAAAAATT-CCATGTTTTC
47996902 AAGAATTTTCGTGTTTT
1 AA-AATTTTCGTGTTTT
47996919 TTAAGAATTT
Statistics
Matches: 502, Mismatches: 103, Indels: 108
0.70 0.14 0.15
Matches are distributed among these distances:
32 3 0.01
33 21 0.04
34 56 0.11
35 155 0.31
36 157 0.31
37 59 0.12
38 24 0.05
39 4 0.01
40 6 0.01
41 17 0.03
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (36 bp):
AAAATTTTCGTGTTTTCAAAAAAATTCCATGTTTTC
Found at i:47996391 original size:53 final size:52
Alignment explanation
Indices: 47996332--47996567 Score: 162
Period size: 53 Copynumber: 4.5 Consensus size: 52
47996322 AAATTCTATT
* * * *
47996332 TTTCAAAATTTTCAGTGTTTTCTAAAAATTTCCATGTTTTTAA-AATTTTTGTG
1 TTTCAAAATTTTC-GTGTTTTC-AAAAATTTCCATATTTTCAACAATTCTCGTG
**
47996385 TTTCAAAAATTTTCGTGTTTTCAAAAATTTTTATATTTTCAACAATTCTCGTG
1 TTTC-AAAATTTTCGTGTTTTCAAAAATTTCCATATTTTCAACAATTCTCGTG
*** ** * * *
47996438 TTTCACAAATTTTCGTGTTTT-AATTTTTTTTATGTTTTAAAAAAATTCTCGTG
1 TTTCA-AAATTTTCGTGTTTTCAAAAATTTCCATATTTT-CAACAATTCTCGTG
* * * * *
47996491 TTTCAAAAATTGTCGTGTTTT-AAAAATGTT---TGTGTTCCTAA-AATTTTCGTA
1 TTTC-AAAATTTTCGTGTTTTCAAAAAT-TTCCATAT-TTTC-AACAATTCTCGTG
47996542 TTTCTAAAATTTTCGTGTTTTCAAAA
1 TTTC-AAAATTTTCGTGTTTTCAAAA
47996568 TTTTGCGTGT
Statistics
Matches: 152, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
51 30 0.20
52 38 0.25
53 72 0.47
54 12 0.08
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.51
Consensus pattern (52 bp):
TTTCAAAATTTTCGTGTTTTCAAAAATTTCCATATTTTCAACAATTCTCGTG
Found at i:47996412 original size:18 final size:18
Alignment explanation
Indices: 47996287--47996978 Score: 429
Period size: 17 Copynumber: 39.0 Consensus size: 18
47996277 AAAATAATTT
47996287 TTTTCGTG-TTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
47996305 TATTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** *
47996323 AATTC-TATTTTTC-AAAA
1 TTTTCGT-GTTTTCAAAAA
47996340 TTTTCAGTGTTTTCTAAAAA
1 TTTTC-GTGTTTTC-AAAAA
* * *
47996360 TTTCCATGTTTT-TAAAA
1 TTTTCGTGTTTTCAAAAA
*
47996377 TTTTTGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
47996394 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
** * *
47996412 TTTTTATATTTTCAACAA
1 TTTTCGTGTTTTCAAAAA
* *
47996430 TTCTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
***
47996447 TTTTCGTGTTTT-AATTT
1 TTTTCGTGTTTTCAAAAA
** *
47996464 TTTTTATGTTTTAAAAAAA
1 TTTTCGTGTTTT-CAAAAA
*
47996483 TTCTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
47996500 TTGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
* *
47996517 TGTTT-GTG-TTCCTAAAA
1 T-TTTCGTGTTTTCAAAAA
* *
47996534 TTTTCGT-ATTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
47996551 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
47996568 TTTTGCGTG-TTTCAAAAA
1 TTTT-CGTGTTTTCAAAAA
*
47996586 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
47996604 -TTCCG-GTGTTTCAAAAAA
1 TTTTCGTGT-TTTC-AAAAA
**
47996622 TTCCCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
47996639 -TTTCTGTGTTTT-AAAAA
1 TTTTC-GTGTTTTCAAAAA
* * *
47996656 TTTTTTGTATTTTCAAAAC
1 -TTTTCGTGTTTTCAAAAA
47996675 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
47996692 TCCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
47996710 -TTTCGGTGTTTT-GAAAA
1 TTTTC-GTGTTTTCAAAAA
47996727 TTTTCGTGTTTTCAAAAAAA
1 TTTTCGTGTTTTC--AAAAA
* * **
47996747 ATCTCGTG-TTTCGTAAA
1 TTTTCGTGTTTTCAAAAA
**
47996764 TTTTCGT-TTTAAAAAAAA
1 TTTTCGTGTTT-TCAAAAA
**
47996782 TAAT--TG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
47996797 TCTTCATGTTTTAAAAAAA
1 TTTTCGTGTTTT-CAAAAA
* *
47996816 ATTTCCTGTGTTTCAAAAA
1 TTTTCGTGT-TTTCAAAAA
* *
47996835 TCTTCGTGTCTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
47996853 -TTCCAATGTTTTCAAAAA
1 TTTTC-GTGTTTTCAAAAA
*
47996871 TTTTCATGTTTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
** *
47996890 TTCCCGTGTTTT-AAGAA
1 TTTTCGTGTTTTCAAAAA
* *
47996907 TTTTCGTGTTTTTTAAGAA
1 TTTTCGTG-TTTTCAAAAA
*
47996926 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
47996943 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
47996960 TTTTTCGTGTTTTCAAAAA
1 -TTTTCGTGTTTTCAAAAA
47996979 AATAATTGTT
Statistics
Matches: 520, Mismatches: 104, Indels: 99
0.72 0.14 0.14
Matches are distributed among these distances:
15 7 0.01
16 15 0.03
17 204 0.39
18 178 0.34
19 93 0.18
20 23 0.04
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:47996934 original size:36 final size:34
Alignment explanation
Indices: 47996867--47996977 Score: 98
Period size: 36 Copynumber: 3.1 Consensus size: 34
47996857 AATGTTTTCA
* * * **
47996867 AAAATTTTCATGTTTTCAAAAAATTCCCGTGTTTT
1 AAAATTCTCGTGTTTT-AAAAATTTTTCGTGTTTT
* *
47996902 AAGAATTTTCGTGTTTTTTAAGAA-TTTTCGTGTTTCT
1 AA-AATTCTCGTG--TTTTAAAAATTTTTCGTGTTT-T
47996939 AAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTT
1 AAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTT
47996973 CAAAA
1 -AAAA
47996978 AAATAATTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
34 9 0.14
35 17 0.27
36 27 0.42
37 7 0.11
38 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.49
Consensus pattern (34 bp):
AAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTT
Found at i:47998363 original size:2 final size:2
Alignment explanation
Indices: 47998356--47998390 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47998346 ATGATGATAA
47998356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47998391 AAACAAGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48007253 original size:3 final size:3
Alignment explanation
Indices: 48007247--48007289 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
48007237 TTATTTAACC
* * *
48007247 TTA TTA TTA TTA TTA TTA TTG TTA CTA TTA TTAA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
48007290 ATTTTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48007478 original size:16 final size:17
Alignment explanation
Indices: 48007457--48007493 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
48007447 CGCATGTCTG
*
48007457 TATACA-TTTTATAATC
1 TATACATTTTTATAATA
48007473 TATACATTTTTATAATA
1 TATACATTTTTATAATA
48007490 TATA
1 TATA
48007494 TGTACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TATACATTTTTATAATA
Found at i:48007493 original size:24 final size:24
Alignment explanation
Indices: 48007466--48007516 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
48007456 GTATACATTT
*
48007466 TATA-ATCTATACAT-TTTTATAA
1 TATATATCTACACATATTTTATAA
* *
48007488 TATATATGTACATATATTTTATAA
1 TATATATCTACACATATTTTATAA
48007512 TATAT
1 TATAT
48007517 TTTTGTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 13 0.54
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATATCTACACATATTTTATAA
Found at i:48015053 original size:59 final size:60
Alignment explanation
Indices: 48014877--48015059 Score: 182
Period size: 60 Copynumber: 3.0 Consensus size: 60
48014867 GTCATAGTCC
48014877 ATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATAT-ATA
1 ATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAATA
* * * * * *
48014936 ATACTACAAAAT-ATAAT-TTAAAATTATTATTATCAAATATAATTTAATAAAA--AT-ATATAA
1 ATAATA-AAATTCTTAATATT-AAA-TATTCTTAT---AT-GAATTTACTAAAATCATAATATAA
48014996 T-
59 TA
*
48014997 TTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATATA
1 ATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA-ATA
48015058 AT
1 AT
48015060 TTAATTTTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 28
0.69 0.10 0.20
Matches are distributed among these distances:
56 11 0.12
57 2 0.02
58 4 0.04
59 17 0.18
60 26 0.27
61 16 0.17
62 6 0.06
63 2 0.02
64 11 0.12
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (60 bp):
ATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAATA
Found at i:48019599 original size:22 final size:22
Alignment explanation
Indices: 48019574--48019634 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
48019564 AGGAGTTGAA
**
48019574 ATTAAATTTTAATTTTTAAAGG
1 ATTAAATTCAAATTTTTAAAGG
48019596 ATTAAA-TCAAATTTTTAAAGG
1 ATTAAATTCAAATTTTTAAAGG
* *
48019617 A-TAAAATCAAAATTTTAA
1 ATTAAATTCAAATTTTTAA
48019635 CATTTTTAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.11
21 25 0.71
22 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (22 bp):
ATTAAATTCAAATTTTTAAAGG
Found at i:48019610 original size:21 final size:21
Alignment explanation
Indices: 48019584--48019634 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
48019574 ATTAAATTTT
*
48019584 AATTTTTAAAGGATTAAATCA
1 AATTTTTAAAGGATAAAATCA
48019605 AATTTTTAAAGGATAAAATCA
1 AATTTTTAAAGGATAAAATCA
*
48019626 AAATTTTAA
1 AATTTTTAA
48019635 CATTTTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (21 bp):
AATTTTTAAAGGATAAAATCA
Found at i:48019613 original size:28 final size:29
Alignment explanation
Indices: 48019557--48019610 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
48019547 TTTAGAATTT
* *
48019557 TTTTTAGAGGAGTTGAAATTAAATTTTAA
1 TTTTTAAAGGAGTTGAAATCAAATTTTAA
48019586 TTTTTAAAGGA-TT-AAATCAAATTTT
1 TTTTTAAAGGAGTTGAAATCAAATTTT
48019611 TAAAGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 2 0.09
29 10 0.43
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (29 bp):
TTTTTAAAGGAGTTGAAATCAAATTTTAA
Found at i:48022221 original size:27 final size:26
Alignment explanation
Indices: 48022121--48022210 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 26
48022111 TCATCTTCTA
48022121 GGGGTATTTCGATCATTCTACCCTATG
1 GGGGTATTTCGATCATT-TACCCTATG
48022148 GGGGTATTTC-AGTCATTTAACCCTATG
1 GGGGTATTTCGA-TCATTT-ACCCTATG
48022175 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGATCA-TTTACCCTATG
*
48022202 AGGGTATTT
1 GGGGTATTT
48022211 TGGTCAGTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
26 2 0.03
27 52 0.90
28 4 0.07
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGGTATTTCGATCATTTACCCTATG
Found at i:48024134 original size:86 final size:86
Alignment explanation
Indices: 48024038--48024208 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 86
48024028 CACATAGTCG
* *
48024038 TGTGGCTCAAGTGAATCCCTAGCATGGTTAGGGCACACAACCATGTGA-TACACTCGTGTGACCT
1 TGTGGCTCAAGTCAATCCCTAGCATGGTTAGGGCACACAACCATGTCACT-CACTCGTGTGACCT
48024102 AAGTCAGTGGCTCACATGGCCA
65 AAGTCAGTGGCTCACATGGCCA
* ** **
48024124 TGTGGCTCAAGTCAATCCCTAGCATGGTTTGGGCACACTGCCATGTCACTCGTTCGTGTGACCTA
1 TGTGGCTCAAGTCAATCCCTAGCATGGTTAGGGCACACAACCATGTCACTCACTCGTGTGACCTA
*
48024189 AGTCAGTGGCTCATATGGCC
66 AGTCAGTGGCTCACATGGCC
48024209 TACCACATAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
86 75 0.99
87 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (86 bp):
TGTGGCTCAAGTCAATCCCTAGCATGGTTAGGGCACACAACCATGTCACTCACTCGTGTGACCTA
AGTCAGTGGCTCACATGGCCA
Found at i:48027331 original size:21 final size:21
Alignment explanation
Indices: 48027269--48027332 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
48027259 AAAAGAGAGG
*
48027269 AAATCAATGTAAAGGG-GG-A
1 AAATCAGTGTAAAGGGAGGAA
* **
48027288 AAATCAGTGTAAAGAGAAAAA
1 AAATCAGTGTAAAGGGAGGAA
48027309 AAATCAGTGTAAAGGGAGGAA
1 AAATCAGTGTAAAGGGAGGAA
48027330 AAA
1 AAA
48027333 GAAATCAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.39
21 22 0.61
ACGTcount: A:0.55, C:0.05, G:0.27, T:0.14
Consensus pattern (21 bp):
AAATCAGTGTAAAGGGAGGAA
Found at i:48028165 original size:24 final size:22
Alignment explanation
Indices: 48028135--48028296 Score: 85
Period size: 24 Copynumber: 7.0 Consensus size: 22
48028125 AGTTTATTGT
48028135 ATATTATTATTTTAGATTTATCA
1 ATATTATTATTTTA-ATTTATCA
* *
48028158 TGTTTTATTATTTGTAATTTATCA
1 -ATATTATTATTT-TAATTTATCA
* *
48028182 ATATTATTATTTTAAATTCATCG
1 ATATTATTATTTT-AATTTATCA
* **
48028205 TTAACATTATTTTAACTTTATC-
1 ATATTATTATTTTAA-TTTATCA
* *
48028227 ATGTATATTTATTTCAAATTTATCA
1 ATAT-TA-TTATTT-TAATTTATCA
* * * *
48028252 TTAATATT-TTTAAATTTATTA
1 ATATTATTATTTTAATTTATCA
* *
48028273 TATACTATTATTTTGGATTTATCA
1 -ATATTATTATTTT-AATTTATCA
48028297 CCTATGATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
21 9 0.09
22 13 0.12
23 38 0.37
24 39 0.38
25 5 0.05
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATTATTATTTTAATTTATCA
Found at i:48028239 original size:47 final size:46
Alignment explanation
Indices: 48028164--48028285 Score: 108
Period size: 47 Copynumber: 2.7 Consensus size: 46
48028154 ATCATGTTTT
* *
48028164 ATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTTGTAATTTATCAATATTATTATTTCAAATTCATCATTAAC
* * *
48028210 ATTATTT-TAACTTTATC-ATGTATATTTATTTCAAATTTATCATTAAT
1 ATTATTTGTAA-TTTATCAATAT-TA-TTATTTCAAATTCATCATTAAC
* * *
48028257 ATT-TTT-AAATTTATTATATACTATTATTT
1 ATTATTTGTAATTTATCA-ATATTATTATTT
48028286 TGGATTTATC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 17 0.27
46 22 0.35
47 23 0.37
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (46 bp):
ATTATTTGTAATTTATCAATATTATTATTTCAAATTCATCATTAAC
Found at i:48028308 original size:69 final size:67
Alignment explanation
Indices: 48028102--48028352 Score: 176
Period size: 70 Copynumber: 3.7 Consensus size: 67
48028092 TATTATCATT
* * * * * *
48028102 AAATTAATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCATGTTTTATT
1 AAATTTATCATTAATATT-TTTAAATTTATTATATACTATTATTTT-GATTTATCATG-TATATT
*
48028167 ATTTG
63 ATTTC
* * * * *
48028172 TAATTTATCAATATTATTATTTTAAATTCATCGT-TA-AC-ATTATTTTAACTTTATCATGTATA
1 AAATTTATCATTAATA-T-TTTTAAATTTAT--TATATACTATTATTTTGA-TTTATCATGTATA
48028234 TTTATTTC
61 -TTATTTC
**
48028242 AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGGATTTATCACCTATGATTA
1 AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTT-GATTTATCATGTAT-ATTA
48028307 -TTC
64 TTTC
* * *
48028310 TAGAA-TTATCATCAAAATTTTTAAA-TT-TTATAT-GTATTATTTT
1 -A-AATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTT
48028353 TCAAATTTAT
Statistics
Matches: 147, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
66 10 0.07
67 8 0.05
68 18 0.12
69 45 0.31
70 52 0.35
71 10 0.07
72 3 0.02
73 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (67 bp):
AAATTTATCATTAATATTTTTAAATTTATTATATACTATTATTTTGATTTATCATGTATATTATT
TC
Found at i:48028351 original size:22 final size:23
Alignment explanation
Indices: 48028326--48028374 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
48028316 TATCATCAAA
*
48028326 ATTTTT-AAATTT-TATATGTATT
1 ATTTTTCAAATTTAT-TATATATT
48028348 ATTTTTCAAATTTATTATATATT
1 ATTTTTCAAATTTATTATATATT
48028371 ATTT
1 ATTT
48028375 ATTGTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 17 0.71
24 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTTTCAAATTTATTATATATT
Found at i:48030871 original size:3 final size:3
Alignment explanation
Indices: 48030863--48030896 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
48030853 ATGCATAAAT
* *
48030863 ATA ATA ATA ATA CTA ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48030897 CGATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48031927 original size:16 final size:16
Alignment explanation
Indices: 48031906--48031939 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
48031896 CAAAAAGTAC
48031906 AAAATAAA-AATAAAAT
1 AAAATAAAGAA-AAAAT
48031922 AAAATAAAGAAAAAAT
1 AAAATAAAGAAAAAAT
48031938 AA
1 AA
48031940 TGATGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAATAAAGAAAAAAT
Found at i:48032604 original size:44 final size:44
Alignment explanation
Indices: 48032438--48032620 Score: 118
Period size: 44 Copynumber: 4.1 Consensus size: 44
48032428 GGCTCACTTC
* * * * *
48032438 CTTCAACCTACTCCATTGCAACTTCAGGGAGACAAGATTCACCAT
1 CTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATTGA-TAT
* ** * * * * *
48032483 CCTCAGTCTACTCCACTACAACTTTAGGGAGATAAGGCTTG-TAA
1 CTTCAACCGACTCCACTGCAACTTCAGGGAGATAA-GATTGATAT
* * * ***
48032527 CTTTAATCTG-CCCCACTGCAACTTCAAAAAGATAAGATTGATAT
1 CTTCAA-CCGACTCCACTGCAACTTCAGGGAGATAAGATTGATAT
* * *
48032571 CTTCAACCGACTCCACTGCAACTTTAGGGAGATAAGGTTGGTTAT
1 CTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATT-GATAT
48032616 CTTCA
1 CTTCA
48032621 GTCTTGATCT
Statistics
Matches: 99, Mismatches: 34, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
43 6 0.06
44 53 0.54
45 37 0.37
46 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
CTTCAACCGACTCCACTGCAACTTCAGGGAGATAAGATTGATAT
Found at i:48032924 original size:132 final size:132
Alignment explanation
Indices: 48032702--48033326 Score: 888
Period size: 132 Copynumber: 4.8 Consensus size: 132
48032692 AACACCAAGG
* *
48032702 AGATAAGATTCGCTG-CATTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTC
1 AGATAAGATTTGCCGTC-TTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTC
* *
48032766 AACCTACTCCACTGCTGCTCAAGGAGA-AGAGATTGGTGGCTTAAATCTGCTTTCCTACTACCTT
65 AACCTACTCCACTGCTGCTCAGGGAGATA-AGATTGGTGGCTTAAATCTGCTTCCCTACTACCTT
48032830 GGGA
129 GGGA
* ** * * * *
48032834 AGATAGGATTTGTTGCCTTTGATCTGCTCTACTACTGCTTAGGGAGACAGGATCTACAATTTTCA
1 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
*
48032899 ACCTACTCCACTGCTACTCAGGGAGATAAGACTT-GTGGCTTAAATCTGCTTCCCTACTACCTTG
66 ACCTACTCCACTGCTGCTCAGGGAGATAAGA-TTGGTGGCTTAAATCTGCTTCCCTACTACCTTG
48032963 GGA
130 GGA
* * * *
48032966 AGATAAGATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGACAAGATCTACAATCTTCA
1 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
* * * *
48033031 ACCTATTTCACTGCTGCTCAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACTGCTGCTCAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
48033096 GA
131 GA
* **
48033098 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGGTAGGATCTACAATCTTCA
1 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
* *
48033163 ACCTACTCCACTGTTGCTCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT--
66 ACCTACTCCACTGCTGCTCAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
48033226 G-
131 GA
* * * *
48033227 AG--AAGATTCGCCGTCTTCGATCTGCTTCACTACTGCGTAGGGAGACAGAATCTACAATCTTCA
1 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
* *
48033290 ACCTACTCCACTGCTGCTCTGGGAGATAAGACTGGTG
66 ACCTACTCCACTGCTGCTCAGGGAGATAAGATTGGTG
48033327 TCTTTGATCT
Statistics
Matches: 443, Mismatches: 46, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
127 89 0.20
129 2 0.00
130 1 0.00
131 2 0.00
132 345 0.78
133 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
ACCTACTCCACTGCTGCTCAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
GA
Found at i:48033399 original size:45 final size:45
Alignment explanation
Indices: 48033327--48033629 Score: 464
Period size: 45 Copynumber: 6.8 Consensus size: 45
48033317 AAGACTGGTG
* *
48033327 TCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
48033372 TCTTCGATCTACTTCGCTGCCAATACAGGAGGACAAGATCTGCCA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
48033417 TCTTTGATCTAC-TCACTGCCAATACAAGAAGACAAGATCGGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
48033461 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* **
48033506 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
48033551 TCTTCGATCTACTTCGCTGTCAATACAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
48033596 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
48033630 TATATATATT
Statistics
Matches: 231, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 38 0.16
45 193 0.84
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:48033695 original size:135 final size:133
Alignment explanation
Indices: 48033327--48033651 Score: 339
Period size: 134 Copynumber: 2.4 Consensus size: 133
48033317 AAGACTGGTG
* * * * ** ** * *
48033327 TCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGC
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATATATTATCTTTAACCTACTTCACTGC
* *** ***
48033392 CAATACAGGAGGACAAGATCTGCCATCTTTGATCTACTCACTGCCAATACAAGAAGACAAGATCG
66 C-ATACAGGAAGACAAGATCTATTATCACCGATCTACTCACTGCCAATACAAGAAGACAAGATCG
48033457 GCTA
130 GCTA
* * * * *
48033461 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCTGC
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATATATTATCTTTAACCTACTTCACTGC
** * *
48033526 CAATACAGGAAGACAAGATCTATTATCTTCGATCTACTTCGCTGTCAATACAAGAAGACAAGATC
66 C-ATACAGGAAGACAAGATCTATTATCACCGATCTAC-TCACTGCCAATACAAGAAGACAAGATC
*
48033591 TGCTA
129 GGCTA
* * *
48033596 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACTATATATATT-T-TTTAACCTACT
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATATATTATCTTTAACCTACT
48033652 CTACTACTGC
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
133 9 0.05
134 93 0.55
135 68 0.40
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (133 bp):
TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATATATTATCTTTAACCTACTTCACTGC
CATACAGGAAGACAAGATCTATTATCACCGATCTACTCACTGCCAATACAAGAAGACAAGATCGG
CTA
Found at i:48034958 original size:13 final size:13
Alignment explanation
Indices: 48034924--48034963 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
48034914 GGCCTCTCCA
*
48034924 TTTTCTTTTTTCT
1 TTTTCTTTTTTAT
48034937 TTTTC---TTTAT
1 TTTTCTTTTTTAT
48034947 TTTTCTTTTTTAT
1 TTTTCTTTTTTAT
48034960 TTTT
1 TTTT
48034964 TTAAACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.39
13 14 0.61
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTTTAT
Found at i:48039324 original size:13 final size:14
Alignment explanation
Indices: 48039308--48039338 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
48039298 TGTTTTGTTT
48039308 TTTTCTGTTTTTC-
1 TTTTCTGTTTTTCG
48039321 TTTTCTGTTTTTCG
1 TTTTCTGTTTTTCG
48039335 TTTT
1 TTTT
48039339 TTTTATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTTCTGTTTTTCG
Found at i:48040252 original size:12 final size:13
Alignment explanation
Indices: 48040208--48040257 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
48040198 ATATATTCTT
* *
48040208 TATATTTTAAAATG
1 TATATTTT-ATATA
*
48040222 TATATTTTATATG
1 TATATTTTATATA
48040235 TATATTTT-TATA
1 TATATTTTATATA
48040247 TATATTTTATA
1 TATATTTTATA
48040258 ATTCACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 11 0.33
13 14 0.42
14 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
TATATTTTATATA
Found at i:48040298 original size:25 final size:26
Alignment explanation
Indices: 48040243--48040302 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
48040233 TGTATATTTT
*
48040243 TATATATATTTTATAATTCACATATA
1 TATACATATTTTATAATTCACATATA
* * * *
48040269 CATACATATTTT-TAATTTATATCTA
1 TATACATATTTTATAATTCACATATA
48040294 TATACATAT
1 TATACATAT
48040303 ATATCTCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (26 bp):
TATACATATTTTATAATTCACATATA
Found at i:48041641 original size:13 final size:13
Alignment explanation
Indices: 48041623--48041657 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
48041613 GTTTAGCAAT
48041623 TGGGCTAGGTATC
1 TGGGCTAGGTATC
* *
48041636 TGGGCTAAGTATT
1 TGGGCTAGGTATC
48041649 TGGGCTAGG
1 TGGGCTAGG
48041658 ATAACTTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.40, T:0.31
Consensus pattern (13 bp):
TGGGCTAGGTATC
Found at i:48044246 original size:19 final size:19
Alignment explanation
Indices: 48044222--48044296 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
48044212 AATCTTCAAG
48044222 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48044241 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48044260 GATATGCTATCTTAGATAT
1 GATATGCAATCTTAGATAT
48044279 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
48044297 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 38 0.73
21 14 0.27
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48049689 original size:44 final size:44
Alignment explanation
Indices: 48049623--48049834 Score: 241
Period size: 44 Copynumber: 4.8 Consensus size: 44
48049613 CGAAGATACT
* ** *
48049623 AGTCCTATCTCCCTAGAAAGCAGTGGAATAGGTTGAGGATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
*
48049667 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG-TA
* * * *
48049712 ACT-CTA-CTCCCTGGGCAGCAGTGGAATAGATTAAAGATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* **
48049754 GGTCCTATCTCCCTGGTCAGCAGTAAAATAGGTTGAAGATTGTGA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-A
* * * *
48049799 A-TTCTATCTCCCTAGTCAGCAGTGGATTAGATTGAA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
48049835 AAATTACAGA
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.01
43 34 0.24
44 100 0.71
45 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
Found at i:48049760 original size:87 final size:88
Alignment explanation
Indices: 48049627--48049831 Score: 286
Period size: 87 Copynumber: 2.3 Consensus size: 88
48049617 GATACTAGTC
** * * * *
48049627 CTATCTCCCTAGAAAGCAGTGGAATAGGTTGAGGATTGTAAGTCCTATCTCCCTGGTCAGCAGTG
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTA
*
48049692 GAATAGGTTGAAGATTGAGAACT
66 AAATAGGTTGAAGATTGAGAACT
* *
48049715 CTA-CTCCCTGGGCAGCAGTGGAATAGATTAAAGATTGTAGGTCCTATCTCCCTGGTCAGCAGTA
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTA
* *
48049779 AAATAGGTTGAAGATTGTGAATT
66 AAATAGGTTGAAGATTGAGAACT
* *
48049802 CTATCTCCCTAGTCAGCAGTGGATTAGATT
1 CTATCTCCCTAGGCAGCAGTGGAATAGATT
48049832 GAAAAATTAC
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 76 0.75
88 26 0.25
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (88 bp):
CTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTA
AAATAGGTTGAAGATTGAGAACT
Found at i:48050219 original size:216 final size:216
Alignment explanation
Indices: 48049932--48050412 Score: 736
Period size: 216 Copynumber: 2.2 Consensus size: 216
48049922 AAAAAAATTT
* * *
48049932 ACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAG--GAAGATGGCGGATTTTACCTCCCTGAGGC
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATGAAGATGGCGGATTTTACCTCCCTAAGGC
48049995 TACAGTGGAGTAGATTGAAGCCACTAATCCTATCTT-CCTGAGGTTGCAGTGGAGCGAATTAAAA
66 TACAGTGGAGTAGATTGAAGCCACTAATCCTAT-TTCCCTGAGGTTGCAGTGGAGCGAATTAAAA
* * *
48050059 TAACAGATCTTATCTCTCTGGAGTTGCAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTGAAGT
130 TAACAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAAGT
* *
48050124 TGCAGCGGAGCAGACCGAAGAA
195 TGCAGCAGAGCAAACCGAAGAA
* * *
48050146 ACAGATCTTATCTCCCTAAACAGTAGTGGAACAGATGAAGATGGTGGATTTTACCTCCCTAAGGT
1 ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATGAAGATGGCGGATTTTACCTCCCTAAGGC
* *
48050211 TACAGTGGAGTAGATTGAAGCCAGTAATCCTATTTCCCTGAGGTTGCAGTGGAGCGGATTAAAAT
66 TACAGTGGAGTAGATTGAAGCCACTAATCCTATTTCCCTGAGGTTGCAGTGGAGCGAATTAAAAT
* * * *
48050276 AATAGATCTTATCTCTTTGAAGTTGTAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGGTT
131 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAAGTT
48050341 GCAGCAGAGCAAACCGAAGAA
196 GCAGCAGAGCAAACCGAAGAA
* *
48050362 ACAGATCTTATCTCCCTAAGA-AATAGTGGAGCAGATCGAAGATGGCAGATT
1 ACAGATCTTATCTCCCTAA-ACAGTAGTGGAGCAGAT-GAAGATGGCGGATT
48050413 GAAGCCAATA
Statistics
Matches: 241, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
214 31 0.13
215 2 0.01
216 195 0.81
217 13 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (216 bp):
ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATGAAGATGGCGGATTTTACCTCCCTAAGGC
TACAGTGGAGTAGATTGAAGCCACTAATCCTATTTCCCTGAGGTTGCAGTGGAGCGAATTAAAAT
AACAGATCTTATCTCTCTGAAGTTGCAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAAGTT
GCAGCAGAGCAAACCGAAGAA
Found at i:48051083 original size:21 final size:19
Alignment explanation
Indices: 48051037--48051111 Score: 132
Period size: 19 Copynumber: 3.8 Consensus size: 19
48051027 AATCTTCAAG
48051037 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48051056 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48051075 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
48051096 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48051112 AGATAATCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 35 0.65
21 19 0.35
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48051348 original size:23 final size:23
Alignment explanation
Indices: 48051322--48051380 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
48051312 TTATTCTTAT
48051322 TTTGTTGATTTGTGTATAATTTC
1 TTTGTTGATTTGTGTATAATTTC
48051345 TTTGTTGATTTGTGTATAATTTC
1 TTTGTTGATTTGTGTATAATTTC
48051368 TTTGTTGATTTGT
1 TTTGTTGATTTGT
48051381 ACATTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.03, G:0.19, T:0.63
Consensus pattern (23 bp):
TTTGTTGATTTGTGTATAATTTC
Found at i:48053447 original size:40 final size:38
Alignment explanation
Indices: 48053331--48053445 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 38
48053321 GCTTGGACAA
* * *
48053331 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCATTACGT
1 AAAACGCCGCTAAAAATC-AGCATTAGCGGCG-TTTTCCT
* * *
48053371 AAAACGCCGTTAAAGATTGAGCATTAGCGGCGTTTTCCT
1 AAAACGCCGCTAAA-AATCAGCATTAGCGGCGTTTTCCT
*
48053410 AAAAGCGCCGCTAAAAATCAGCATTAGTGGCGTTTT
1 AAAA-CGCCGCTAAAAATCAGCATTAGCGGCGTTTT
48053446 TCTAGAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 26 0.41
40 35 0.56
41 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (38 bp):
AAAACGCCGCTAAAAATCAGCATTAGCGGCGTTTTCCT
Found at i:48053560 original size:41 final size:41
Alignment explanation
Indices: 48053503--48053817 Score: 379
Period size: 41 Copynumber: 7.7 Consensus size: 41
48053493 ACCTTCGAGG
*
48053503 CTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTAGAA-AAGCGCCGCTGATGCTCAGAT
* *
48053544 CTTTAGCCGCATTTTT-GAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTAG-AAAAGCGCCGCTGATGCTCAGAT
*
48053585 CTTTAGCGGCGTTTTT-GAAATAGCGTCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTAGAAA-AGCGCCGCTGATGCTCAGAT
*
48053626 CTTTAACGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
*
48053667 CTTTAGCGGCATTTTTAGAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
* * * * **
48053708 CTGTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
* * * ** * *
48053749 ATTTGGCGGCGTTTTTCGGGAAGCGCCGCTAATGCTCAG-G
1 CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
*
48053789 CTTTAGCTGCGTTTTT-GAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTAG-AAAAGCGCCGC
48053818 AAAAACATTT
Statistics
Matches: 241, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 26 0.11
41 208 0.86
42 6 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGAT
Found at i:48053722 original size:123 final size:122
Alignment explanation
Indices: 48053502--48053817 Score: 422
Period size: 123 Copynumber: 2.6 Consensus size: 122
48053492 TACCTTCGAG
48053502 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGATCTTTAGCCGCATTTTTGAAAAAG
1 GCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCAGATCTTTAGCCGCATTTTTGAAAAAG
* * *
48053567 CGCCGCTGATGCTCAGATCTTTAGCGGCGTTTTT-GAAATAGCGTCGCTGATGCTCAGA
65 CGCCGCTGATGCTCAGATCTGTAGCGGCGTTTTTGGAAA-AGCGCCGCTAATGCTCAGA
* * * *
48053625 TCTTTAACGGCGTTTTTAGAAAAGCGCCGCTGATGCTCAGATCTTTAGCGGCATTTTT-AGAAAA
1 GCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCAGATCTTTAGCCGCATTTTTGA-AAAA
* *
48053689 GCGCCGCTGATGCTCAGATCTGTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGG
64 GCGCCGCTGATGCTCAGATCTGTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGA
* * ** * * *
48053748 GATTTGGCGGCGTTTTTCGGGAAGCGCCGCTAATGCTCAG-GCTTTAGCTGCGTTTTTGAAAAAG
1 GCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCAGATCTTTAGCCGCATTTTTGAAAAAG
48053812 CGCCGC
65 CGCCGC
48053818 AAAAACATTT
Statistics
Matches: 169, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
122 26 0.15
123 136 0.80
124 7 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (122 bp):
GCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCAGATCTTTAGCCGCATTTTTGAAAAAGC
GCCGCTGATGCTCAGATCTGTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGA
Found at i:48054257 original size:14 final size:15
Alignment explanation
Indices: 48054224--48054257 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
48054214 TAAGGTTTAT
48054224 AGATTATGGAATTAG
1 AGATTATGGAATTAG
*
48054239 GGATTATGG-ATTAG
1 AGATTATGGAATTAG
48054253 AGATT
1 AGATT
48054258 TTGATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:48054482 original size:89 final size:86
Alignment explanation
Indices: 48054343--48054611 Score: 343
Period size: 89 Copynumber: 3.1 Consensus size: 86
48054333 ATTCGGCGTC
*
48054343 AGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAATGTTTAGGG
*
48054408 GTTAGGGGTTAGGGATTTAGGGTC
65 GTTA-GGGTT-GGGATTTAGGGTA
*
48054432 GGGTTAGGGTTTAGGATTTAGATTAATTAGTGCTTTTTAATTTATATATTAAATAATGTTTAGGG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTG-TTTTTAATTTATATATTAAATAATGTTTAGGG
* *
48054497 GTTA--G-T--GATTCAGGCTA
65 GTTAGGGTTGGGATTTAGGGTA
48054514 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTCTAATTTATATATTAAATAA-GATTTAGG
1 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTT-TAATTTATATATTAAATAATG-TTTAGG
* *
48054578 GGTTTGTGGTTTGGGATTTGGGGTTA
64 GGTTAG-GG-TTGGGATTTAGGG-TA
48054604 AGAGTTAG
1 AG-GTTAG
48054612 AGATTTAAGG
Statistics
Matches: 158, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
81 5 0.03
82 68 0.43
85 2 0.01
86 1 0.01
87 1 0.01
89 71 0.45
90 5 0.03
91 5 0.03
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.43
Consensus pattern (86 bp):
AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAATGTTTAGGGG
TTAGGGTTGGGATTTAGGGTA
Found at i:48054497 original size:82 final size:82
Alignment explanation
Indices: 48054409--48054581 Score: 269
Period size: 82 Copynumber: 2.1 Consensus size: 82
48054399 TGTTTAGGGG
* * **
48054409 TTAGGGGTTAGGGATTTAGGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGCTTTT-TAAT
1 TTAGGGGTTAGGGATTCAGGCTAAGGTTAGGGTTTAGGATTTAGATTAATTAGTG-TTTTCTAAT
48054473 TTATATATTAAATAATG-T
65 TTATATATTAAATAA-GAT
*
48054491 TTAGGGGTTAGTGATTCAGGCTAAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTCTAATT
1 TTAGGGGTTAGGGATTCAGGCTAAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTCTAATT
48054556 TATATATTAAATAAGAT
66 TATATATTAAATAAGAT
48054573 TTAGGGGTT
1 TTAGGGGTT
48054582 TGTGGTTTGG
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
81 5 0.06
82 79 0.94
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (82 bp):
TTAGGGGTTAGGGATTCAGGCTAAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTCTAATT
TATATATTAAATAAGAT
Found at i:48055026 original size:17 final size:16
Alignment explanation
Indices: 48054993--48055026 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48054983 ATATTAGATT
*
48054993 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
48055009 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
48055026 T
1 T
48055027 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Done.