Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 29 of 171
Found at i:13330277 original size:18 final size:19
Alignment explanation
Indices: 13330249--13330300 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
13330239 GTGATCAAAA
13330249 TTGAAATTGAAAGTGAAAG
1 TTGAAATTGAAAGTGAAAG
*
13330268 -TGAAAGTGAAAGTG-AAG
1 TTGAAATTGAAAGTGAAAG
13330285 TTGAAATTGAAAGTGA
1 TTGAAATTGAAAGTGA
13330301 TATGAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (19 bp):
TTGAAATTGAAAGTGAAAG
Found at i:13330450 original size:41 final size:40
Alignment explanation
Indices: 13330402--13330502 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
13330392 TCGACCTCGA
** *
13330402 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
13330442 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
13330480 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
13330503 TTTATTGTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:13337184 original size:19 final size:19
Alignment explanation
Indices: 13337146--13337185 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13337136 AAAATGTCAT
* *
13337146 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
13337165 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
13337184 AT
1 AT
13337186 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:13338578 original size:25 final size:25
Alignment explanation
Indices: 13338544--13338593 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13338534 CCCTTCTTAC
13338544 CACTGCACTTTGGGTGGATAAAATT
1 CACTGCACTTTGGGTGGATAAAATT
13338569 CACTGCACTTTGGGTGGATAAAATT
1 CACTGCACTTTGGGTGGATAAAATT
13338594 ATTTGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (25 bp):
CACTGCACTTTGGGTGGATAAAATT
Found at i:13348438 original size:7 final size:7
Alignment explanation
Indices: 13348426--13348459 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
13348416 TATGTATTAG
13348426 AGTAAGC
1 AGTAAGC
13348433 AGTAAGC
1 AGTAAGC
13348440 AGTAAGC
1 AGTAAGC
* *
13348447 AGTTAGT
1 AGTAAGC
13348454 AGTAAG
1 AGTAAG
13348460 GGAATTGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (7 bp):
AGTAAGC
Found at i:13349210 original size:3 final size:3
Alignment explanation
Indices: 13349204--13349253 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
13349194 AATAATGTGG
13349204 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA GAGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA
13349253 A
1 A
13349254 TTGGTTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13361137 original size:22 final size:22
Alignment explanation
Indices: 13361099--13361169 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
13361089 AGCACGTTTC
*
13361099 GTGCTCTCTATTCAGCACTGTGT
1 GTGCT-TCTGTTCAGCACTGTGT
13361122 GTGCTTCTGTTCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
13361144 GTGCTTCTGTTCAGCACTGTGT
1 GTGCTTCTGTTCAGCACTGTGT
13361166 GTGC
1 GTGC
13361170 CTACTGTTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.10, C:0.24, G:0.27, T:0.39
Consensus pattern (22 bp):
GTGCTTCTGTTCAGCACTGTGT
Found at i:13361177 original size:45 final size:47
Alignment explanation
Indices: 13361078--13361186 Score: 129
Period size: 45 Copynumber: 2.4 Consensus size: 47
13361068 ACACTTGCGC
*
13361078 GCCTACTGTAT-AGCAC-GTTTCGTGCTCTCTATTCAGCACTGTGTGT
1 GCCTACTGT-TCAGCACTGTGTCGTGCTCTCTATTCAGCACTGTGTGT
* *
13361124 G-CTTCTGTTCAGCACTGTGT-GTGCT-TCTGTTCAGCACTGTGTGT
1 GCCTACTGTTCAGCACTGTGTCGTGCTCTCTATTCAGCACTGTGTGT
13361168 GCCTACTGTTGCCAGCACT
1 GCCTACTGTT--CAGCACT
13361187 TATGTGCCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
44 20 0.37
45 23 0.43
46 4 0.07
47 7 0.13
ACGTcount: A:0.13, C:0.27, G:0.24, T:0.37
Consensus pattern (47 bp):
GCCTACTGTTCAGCACTGTGTCGTGCTCTCTATTCAGCACTGTGTGT
Found at i:13361201 original size:24 final size:25
Alignment explanation
Indices: 13361111--13361194 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 25
13361101 GCTCTCTATT
* *
13361111 CAGCACTGTGTGTG-CTTCTGTT--
1 CAGCACTGTATGTGCCTACTGTTGC
* *
13361133 CAGCACTGTGTGTG-CTTCTGTT--
1 CAGCACTGTATGTGCCTACTGTTGC
*
13361155 CAGCACTGTGTGTGCCTACTGTTGC
1 CAGCACTGTATGTGCCTACTGTTGC
13361180 CAGCACT-TATGTGCC
1 CAGCACTGTATGTGCC
13361195 CTCTGTTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
22 36 0.63
23 7 0.12
24 7 0.12
25 7 0.12
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.36
Consensus pattern (25 bp):
CAGCACTGTATGTGCCTACTGTTGC
Found at i:13368194 original size:12 final size:12
Alignment explanation
Indices: 13368171--13368205 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13368161 TACTGGATTG
*
13368171 GGATTCGGGTTA
1 GGATTGGGGTTA
*
13368183 GGGTTGGGGTTA
1 GGATTGGGGTTA
13368195 GGATTGGGGTT
1 GGATTGGGGTT
13368206 TGAAGGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.11, C:0.03, G:0.51, T:0.34
Consensus pattern (12 bp):
GGATTGGGGTTA
Found at i:13368712 original size:26 final size:26
Alignment explanation
Indices: 13368681--13368733 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
13368671 ATGAATGTGT
13368681 AATTATTGTAATTATAAAAAATTGTA
1 AATTATTGTAATTATAAAAAATTGTA
13368707 AATTATTGTAATTATAAAAAATTGTA
1 AATTATTGTAATTATAAAAAATTGTA
13368733 A
1 A
13368734 GTTTTTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
AATTATTGTAATTATAAAAAATTGTA
Found at i:13371406 original size:22 final size:22
Alignment explanation
Indices: 13371381--13371435 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
13371371 CAATAAGTTC
13371381 AATCAAATGAATTACAGAAATA
1 AATCAAATGAATTACAGAAATA
*
13371403 AATCAAATGAATTATAGAAATA
1 AATCAAATGAATTACAGAAATA
**
13371425 AAAAAAATGAA
1 AATCAAATGAA
13371436 GGGAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.22
Consensus pattern (22 bp):
AATCAAATGAATTACAGAAATA
Found at i:13372862 original size:23 final size:22
Alignment explanation
Indices: 13372819--13372862 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
13372809 AAGAGATTTC
*
13372819 AAAAACCCTAGCCGTCTGTCAA
1 AAAAACCCTAGCCGTCAGTCAA
13372841 AAAAACACTCTAGCCGT-AGTCA
1 AAAAAC-C-CTAGCCGTCAGTCA
13372863 TCTTGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (22 bp):
AAAAACCCTAGCCGTCAGTCAA
Found at i:13392858 original size:90 final size:90
Alignment explanation
Indices: 13392716--13392897 Score: 346
Period size: 90 Copynumber: 2.0 Consensus size: 90
13392706 ATACTCATAT
*
13392716 CAATTGAGCTAATGCTGAATTGAGACTCCTTTCTAAAAAATCCATATTATTATGGTTTAATATCT
1 CAATTGAGCTAATACTGAATTGAGACTCCTTTCTAAAAAATCCATATTATTATGGTTTAATATCT
13392781 AGTAATAATGGTACAACAAATTTAA
66 AGTAATAATGGTACAACAAATTTAA
*
13392806 CAATTGAGCTAATACTGAATTGAGACTCCTTTCTAAAAAATCCATGTTATTATGGTTTAATATCT
1 CAATTGAGCTAATACTGAATTGAGACTCCTTTCTAAAAAATCCATATTATTATGGTTTAATATCT
13392871 AGTAATAATGGTACAACAAATTTAA
66 AGTAATAATGGTACAACAAATTTAA
13392896 CA
1 CA
13392898 TCAAAATTTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (90 bp):
CAATTGAGCTAATACTGAATTGAGACTCCTTTCTAAAAAATCCATATTATTATGGTTTAATATCT
AGTAATAATGGTACAACAAATTTAA
Found at i:13394296 original size:54 final size:54
Alignment explanation
Indices: 13394170--13394566 Score: 231
Period size: 54 Copynumber: 7.2 Consensus size: 54
13394160 ACGAGAATTT
* * * *
13394170 TAAAAAAAA-ATTGGTGTTGGTCATTACATGGCCGACA-CTCCCTTTTTGTCAGA
1 TAAAAAAAATTTTGGTGTTGGTCATTGCATGGCCGACACCT-ACTTTTTATCAGA
**** * * *
13394223 T-AAATTTTTTTCTGATGTTGGTCA-TGCATTGGCCGACACTAGTATTTTTTATCAGA
1 TAAAAAAAATTT-TGGTGTTGGTCATTGCA-TGGCCGACAC--CTACTTTTTATCAGA
* * * *
13394279 T-AAAAAAA-TTTGGTGTTGGCCATTGCATGGTCGACACCTCCTTTTTGTCAGA
1 TAAAAAAAATTTTGGTGTTGGTCATTGCATGGCCGACACCTACTTTTTATCAGA
* * **
13394331 TAAAAAAAATTTTGGTGTTAGTCATTGCATGGCCGACACCTCCTTTTTTATTTGA
1 TAAAAAAAATTTTGGTGTTGGTCATTGCATGGCCGACACCTAC-TTTTTATCAGA
* *** * * * *
13394386 -AAAAAAATCATTTTTTTGTGTTAACCATTGCATGACTGACACC--CTTTTTTGTCAAA
1 TAAAAAAA--A--TTTTGGTGTTGGTCATTGCATGGCCGACACCTAC-TTTTTATCAGA
** ** * * *
13394442 TAAAAAAAA-TTTGGTGTTTATCATTGCATGGTTGACACCTCCTTTTTTATCTGG
1 TAAAAAAAATTTTGGTGTTGGTCATTGCATGGCCGACACCTAC-TTTTTATCAGA
* *
13394496 TAAAAAATCAATTTTTTTTGTGTTGGTCATTGCATGGCCGACACCCTA-TTTTTGTCAGA
1 TAAAAAA--AA---TTTTGGTGTTGGTCATTGCATGGCCGACA-CCTACTTTTTATCAGA
13394555 TAAAAAAAATTT
1 TAAAAAAAATTT
13394567 AAATTTTTTT
Statistics
Matches: 265, Mismatches: 55, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
52 40 0.15
53 12 0.05
54 95 0.36
55 15 0.06
56 26 0.10
57 10 0.04
58 26 0.10
59 15 0.06
60 23 0.09
61 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (54 bp):
TAAAAAAAATTTTGGTGTTGGTCATTGCATGGCCGACACCTACTTTTTATCAGA
Found at i:13394379 original size:108 final size:107
Alignment explanation
Indices: 13394170--13394566 Score: 329
Period size: 108 Copynumber: 3.6 Consensus size: 107
13394160 ACGAGAATTT
** * * ****
13394170 TAAAAAAAAATTGGTGTTGGTCATTACATGGCCGACACTCCCTTTTTGTCAGAT-AAATTTTTTT
1 TAAAAAAATTTTGGTGTTGGCCATTGCATGGCCGACAC-CCCTTTTTGTCAGATAAAAAAAATTT
* * ** *
13394234 CTGATGTTGGTCA-TGCATTGGCCGACA-CTAGTATTTTTTATCAGA
65 -TGGTGTTAGTCATTGCA-TGGCCGACACCT--CCTTTTTTATCTGA
*
13394279 TAAAAAAA-TTTGGTGTTGGCCATTGCATGGTCGACACCTCCTTTTTGTCAGATAAAAAAAATTT
1 TAAAAAAATTTTGGTGTTGGCCATTGCATGGCCGACACC-CCTTTTTGTCAGATAAAAAAAATTT
*
13394343 TGGTGTTAGTCATTGCATGGCCGACACCTCCTTTTTTATTTGA
65 TGGTGTTAGTCATTGCATGGCCGACACCTCCTTTTTTATCTGA
* * ** * * * *
13394386 AAAAAAATCATTTTTTTGTGTTAACCATTGCATGACTGACACCCTTTTTTGTCAAATAAAAAAAA
1 TAAAAAA--A--TTTTGGTGTTGGCCATTGCATGGCCGACACCCCTTTTTGTCAGATAAAAAAAA
** *
13394451 -TTTGGTGTTTA-TCATTGCATGGTTGACACCTCCTTTTTTATCTGG
62 TTTTGGTG-TTAGTCATTGCATGGCCGACACCTCCTTTTTTATCTGA
* * *
13394496 TAAAAAATCAATTTTTTTTGTGTTGGTCATTGCATGGCCGACACCCTATTTTTGTCAGATAAAAA
1 T-AAAAA--AA---TTTTGGTGTTGGCCATTGCATGGCCGACACCC-CTTTTTGTCAGATAAAAA
13394561 AAATTT
59 AAATTT
13394567 AAATTTTTTT
Statistics
Matches: 237, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
107 17 0.07
108 58 0.24
109 21 0.09
110 37 0.16
111 29 0.12
112 53 0.22
113 20 0.08
114 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (107 bp):
TAAAAAAATTTTGGTGTTGGCCATTGCATGGCCGACACCCCTTTTTGTCAGATAAAAAAAATTTT
GGTGTTAGTCATTGCATGGCCGACACCTCCTTTTTTATCTGA
Found at i:13394466 original size:110 final size:111
Alignment explanation
Indices: 13394298--13394566 Score: 346
Period size: 110 Copynumber: 2.4 Consensus size: 111
13394288 TTGGTGTTGG
* *
13394298 CCATTGCATGGTCGACACCTCCTTTTTGTCAGATAAAAAAAATTTTGGTGTTAGTCATTGCATGG
1 CCATTGCATGCT-GACACC-CTTTTTTGTCAGATAAAAAAAA-TTTGGTGTTAGTCATTGCATGG
*
13394363 CCGACACCTCCTTTTTTATTTGAAAAAAAATC-A-TTTTTTTGTGTTAA
63 CCGACACCTCCTTTTTTATCTGAAAAAAAATCAATTTTTTTTGTGTTAA
* *
13394410 CCATTGCATGACTGACACCCTTTTTTGTCAAATAAAAAAAATTTGGTGTTTA-TCATTGCATGGT
1 CCATTGCATG-CTGACACCCTTTTTTGTCAGATAAAAAAAATTTGGTG-TTAGTCATTGCATGGC
* ** **
13394474 TGACACCTCCTTTTTTATCTGGTAAAAAATCAATTTTTTTTGTGTTGG
64 CGACACCTCCTTTTTTATCTGAAAAAAAATCAATTTTTTTTGTGTTAA
* *
13394522 TCATTGCATGGCCGACACCCTATTTTTGTCAGATAAAAAAAATTT
1 CCATTGCAT-GCTGACACCCT-TTTTTGTCAGATAAAAAAAATTT
13394567 AAATTTTTTT
Statistics
Matches: 138, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
110 45 0.33
111 24 0.17
112 45 0.33
113 24 0.17
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (111 bp):
CCATTGCATGCTGACACCCTTTTTTGTCAGATAAAAAAAATTTGGTGTTAGTCATTGCATGGCCG
ACACCTCCTTTTTTATCTGAAAAAAAATCAATTTTTTTTGTGTTAA
Found at i:13394526 original size:60 final size:60
Alignment explanation
Indices: 13394463--13394899 Score: 368
Period size: 60 Copynumber: 7.4 Consensus size: 60
13394453 TGGTGTTTAT
** * * *
13394463 CATTGCATGGTTGACACCTCCTTTTTTATCTGGT-AAAAAATCAATTTTTTTTGTGTTGGT
1 CATTGCATGGCCGACACCACC-TTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
* * * * *
13394523 CATTGCATGGCCGACACC-CTATTTTTGTCAGATAAAAAAAATTTAAATTTTTTTAGTGTTGGC
1 CATTGCATGGCCGACACCAC-CTTTTTATCTGAT-AAAAAAA--TCAATTTTTTTTGTGTTGGC
* * * *
13394586 CA-TGCATTGACCGACA-CACCTATTTATTTGATAAAAAAATCAATTTTTTTGGTGTTGGC
1 CATTGCA-TGGCCGACACCACCTTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
* * *
13394645 CATTGCATGACCGACACCACCTTTCTATCTGATAAAAAATTC-A--TTTTTT-T-TTGG-
1 CATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
* * * * *
13394699 --TTTCATGGCCGACACCACCTTTCTATCTGATAAAAAAATCAAATTTTTTGGTGTTAGC
1 CATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
* * * * ** *
13394757 CATTGCATGGCAGACACCACATTTTTTATATGGT-AAAAAATCAAAATTTTTTATGTTGGC
1 CATTGCATGGCCGACACCAC-CTTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
* * *
13394817 CA-TGCATTGGCCAACACCACCTATTTTATCAGATAAAAAAAT-AA-TTTTTTGGTGTTGGC
1 CATTGCA-TGGCCGACACCACCT-TTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
*
13394876 CA-TGCATTGGCCGACACCAACTTT
1 CATTGCA-TGGCCGACACCACCTTT
13394900 CCTTCCTTTC
Statistics
Matches: 308, Mismatches: 48, Indels: 44
0.77 0.12 0.11
Matches are distributed among these distances:
52 37 0.12
53 1 0.00
55 9 0.03
56 2 0.01
57 8 0.03
58 2 0.01
59 77 0.25
60 102 0.33
61 29 0.09
62 13 0.04
63 28 0.09
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (60 bp):
CATTGCATGGCCGACACCACCTTTTTATCTGATAAAAAAATCAATTTTTTTTGTGTTGGC
Found at i:13394600 original size:63 final size:58
Alignment explanation
Indices: 13394497--13394893 Score: 211
Period size: 59 Copynumber: 6.8 Consensus size: 58
13394487 TTTATCTGGT
* * * *
13394497 AAAAAATCAATTTTTTTTGTGTTGGTCATTGCATGGCCGACACCCTATTT-TTGTCAGATAA
1 AAAAAATAAATTTTTTTAGTGTTGGCCATTGCATGACCGACACCCTATTTATT-T--GAT-A
13394558 AAAAAATTTAAATTTTTTTAGTGTTGGCCA-TGCATTGACCGACACACCTATTTATTTGATA
1 AAAAAA--TAAATTTTTTTAGTGTTGGCCATTGCA-TGACCGACAC-CCTATTTATTTGATA
* * *
13394619 AAAAAATCAATTTTTTTGGTGTTGGCCATTGCATGACCGACACCACCT-TTCTATCTGAT-
1 AAAAAATAAATTTTTTTAGTGTTGGCCATTGCATGACCGACA-C-CCTATT-TATTTGATA
** * * *
13394678 AAAAAATTCA-TTTTTT--T-TTGG---TTTCATGGCCGACACCACCT-TTCTATCTGATA
1 AAAAAATAAATTTTTTTAGTGTTGGCCATTGCATGACCGACA-C-CCTATT-TATTTGATA
* * * * * * *
13394731 AAAAAATCAAA-TTTTTTGGTGTTAGCCATTGCATGGCAGACACCACATTTTTTATATGGT-
1 AAAAAAT-AAATTTTTTTAGTGTTGGCCATTGCATGACCGACACC-C--TATTTATTTGATA
* * * **
13394791 AAAAAATCAAAATTTTTTA-TGTTGGCCA-TGCATTGGCCAACACCACCTATTTTATCAGATA
1 AAAAAAT-AAATTTTTTTAGTGTTGGCCATTGCA-TGACCGACA-C-CCTA-TTTATTTGATA
* *
13394852 AAAAAAT-AA-TTTTTTGGTGTTGGCCA-TGCATTGGCCGACACC
1 AAAAAATAAATTTTTTTAGTGTTGGCCATTGCA-TGACCGACACC
13394894 AACTTTCCTT
Statistics
Matches: 281, Mismatches: 28, Indels: 58
0.77 0.08 0.16
Matches are distributed among these distances:
52 29 0.10
53 7 0.02
54 7 0.02
55 4 0.01
56 2 0.01
57 4 0.01
58 14 0.05
59 70 0.25
60 61 0.22
61 35 0.12
62 10 0.04
63 28 0.10
64 8 0.03
65 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (58 bp):
AAAAAATAAATTTTTTTAGTGTTGGCCATTGCATGACCGACACCCTATTTATTTGATA
Found at i:13394628 original size:122 final size:117
Alignment explanation
Indices: 13394287--13394894 Score: 435
Period size: 112 Copynumber: 5.3 Consensus size: 117
13394277 GATAAAAAAA
* * * **
13394287 TTTGGTGTTGGCCATTGCATGGTCGACACCTCCTTTTTGTCAGAT-AAAAA--AAA-TTTTGGTG
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACATTTTT-TCAGATAAAAAATTAAATTTTTTATG
* * * * *
13394348 TTAGTCATTGCA-TGGCCGACACCTCCTTTTTTATTTGA-AAAAAAATC-ATTTT
65 TTGGCCA-TGCATTGGCCGACACCACC-TATTTATCTGATAAAAAAATCAATTTT
** * * * * **
13394400 TTT-GTGTTAACCATTGCATGACTGACACC-CTTTTTTGTCAAAT-AAAAA--AAA--TTTGGTG
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACATTTTT-TCAGATAAAAAATTAAATTTTTTATG
*** ** * * *
13394458 TTTATCATTGCA-TGGTTGACACCTCCTTTTTTATCTGGT-AAAAAATCAATTTT
65 TTGGCCA-TGCATTGGCCGACACCACC-TATTTATCTGATAAAAAAATCAATTTT
* *
13394511 TTTTGTGTTGGTCATTGCATGGCCGACACC-CTATTTTTGTCAGATAAAAAAAATTTAAATTTTT
1 TTTGGTGTTGGCCATTGCATGGCCGACACCAC-ATTTTT-TCAGAT--AAAAAA-TTAAA-TTTT
* *
13394575 TTAGTGTTGGCCATGCATTGACCGACA-CACCTATTTATTTGATAAAAAAATCAATTTT
60 TTA-TGTTGGCCATGCATTGGCCGACACCACCTATTTATCTGATAAAAAAATCAATTTT
* * * * *
13394633 TTTGGTGTTGGCCATTGCATGACCGACACCACCTTTCTATCTGATAAAAAATT-CATTTTTT-T-
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACATTT-TTTCAGATAAAAAATTAAATTTTTTATG
* * *
13394695 TTGG--TTTCA-TGGCCGACACCACCT-TTCTATCTGATAAAAAAATCAAATTT
65 TTGGCCATGCATTGGCCGACACCACCTATT-TATCTGATAAAAAAATCAATTTT
* * * * *
13394745 TTTGGTGTTAGCCATTGCATGGCAGACACCACATTTTTTATATGGTAAAAAATCAAAATTTTTTA
1 TTTGGTGTTGGCCATTGCATGGCCGACACCACATTTTTT-CA-GATAAAAAAT-TAAATTTTTTA
* *
13394810 TGTTGGCCATGCATTGGCCAACACCACCTATTTTATCAGATAAAAAAAT-AA-TTT
63 TGTTGGCCATGCATTGGCCGACACCACCTA-TTTATCTGATAAAAAAATCAATTTT
13394864 TTTGGTGTTGGCCA-TGCATTGGCCGACACCA
1 TTTGGTGTTGGCCATTGCA-TGGCCGACACCA
13394895 ACTTTCCTTC
Statistics
Matches: 403, Mismatches: 60, Indels: 58
0.77 0.12 0.11
Matches are distributed among these distances:
110 47 0.12
111 40 0.10
112 104 0.26
113 23 0.06
114 4 0.01
115 8 0.02
116 6 0.01
117 10 0.02
118 5 0.01
119 35 0.09
120 22 0.05
121 24 0.06
122 61 0.15
123 14 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (117 bp):
TTTGGTGTTGGCCATTGCATGGCCGACACCACATTTTTTCAGATAAAAAATTAAATTTTTTATGT
TGGCCATGCATTGGCCGACACCACCTATTTATCTGATAAAAAAATCAATTTT
Found at i:13395613 original size:17 final size:17
Alignment explanation
Indices: 13395591--13395624 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13395581 AACGAAACAG
13395591 GGAAAAAAAAAAGGGAA
1 GGAAAAAAAAAAGGGAA
*
13395608 GGAAAAAGAAAAGGGAA
1 GGAAAAAAAAAAGGGAA
13395625 AACTAGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
GGAAAAAAAAAAGGGAA
Found at i:13396403 original size:41 final size:40
Alignment explanation
Indices: 13396357--13396457 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 40
13396347 TAGACCTTGA
**
13396357 GTCGATGAGACACTGGGTGTCATTACTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
13396397 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
13396435 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
13396458 TTTATTGCTT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 10 0.21
38 18 0.38
39 4 0.09
40 4 0.09
41 11 0.23
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:13396450 original size:37 final size:38
Alignment explanation
Indices: 13396381--13396461 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 38
13396371 GGGTGTCATT
** **
13396381 ACTTTACTTCGGATAGATTCGATGAGGTACTGGGTACC
1 ACTTTACTTCGGATAGAGCCGATGAGACACTGGGTACC
* **
13396419 ACTTTACTTCGGCTAG-GCCGATGAGACACTGGGTGTC
1 ACTTTACTTCGGATAGAGCCGATGAGACACTGGGTACC
13396456 ACTTTA
1 ACTTTA
13396462 TTGCTTTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 21 0.58
38 15 0.42
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
ACTTTACTTCGGATAGAGCCGATGAGACACTGGGTACC
Found at i:13399863 original size:23 final size:23
Alignment explanation
Indices: 13399793--13399961 Score: 166
Period size: 23 Copynumber: 7.3 Consensus size: 23
13399783 ACGGAACAAG
* *
13399793 CAGAGAGTAC-CAAAGTACT-AA
1 CAGAGAGCACACAAAGTGCTAAA
* *
13399814 CAGAGAGCACA-TAAGTGCTGGGCAA
1 CAGAGAGCACACAAAGTGCT---AAA
*
13399839 CAGAGAGCACACACAGTGCTAAA
1 CAGAGAGCACACAAAGTGCTAAA
* * *
13399862 CAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAA
*
13399885 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAA
*
13399908 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAA
* *
13399931 CAGAGAGCACGA-GACGTGCTAAA
1 CAGAGAGCAC-ACAAAGTGCTAAA
13399954 CAGAGAGC
1 CAGAGAGC
13399962 GCGCTAGTGT
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
21 15 0.12
23 91 0.72
24 1 0.01
25 13 0.10
26 6 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAA
Found at i:13399889 original size:46 final size:46
Alignment explanation
Indices: 13399839--13399961 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
13399829 TGCTGGGCAA
*
13399839 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * *
13399885 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
13399931 CAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
13399962 GCGCTAGTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 67 0.97
47 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:13399912 original size:69 final size:66
Alignment explanation
Indices: 13399793--13399937 Score: 193
Period size: 69 Copynumber: 2.1 Consensus size: 66
13399783 ACGGAACAAG
* *
13399793 CAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGC
1 CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AACAGAGAGCACACAAAGTGC
13399858 TAAA
63 TAAA
13399862 CAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAAGTG
1 CAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAA-CAGAGAGCACACAAAGTG
*
13399926 CTAAT
62 CTAAA
13399931 CAGAGAG
1 CAGAGAG
13399938 CACGAGACGT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
68 2 0.03
69 38 0.55
70 11 0.16
71 11 0.16
72 7 0.10
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (66 bp):
CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAACAGAGAGCACACAAAGTGCTAA
A
Found at i:13401016 original size:19 final size:18
Alignment explanation
Indices: 13400977--13401042 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 18
13400967 TCTTCTTACT
*
13400977 CCTTTCTCTTCTATTTGC
1 CCTTTCTCTTCAATTTGC
13400995 CCTTT-TCTTCAATTTGGTC
1 CCTTTCTCTTCAATTT-G-C
*
13401014 CCTCTC-CTTC--TTT--
1 CCTTTCTCTTCAATTTGC
13401027 CCTTTCTCTTCAATTT
1 CCTTTCTCTTCAATTT
13401043 CATACAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.13
14 4 0.10
16 3 0.08
17 12 0.31
18 6 0.15
19 9 0.23
ACGTcount: A:0.08, C:0.33, G:0.05, T:0.55
Consensus pattern (18 bp):
CCTTTCTCTTCAATTTGC
Found at i:13407224 original size:23 final size:23
Alignment explanation
Indices: 13407154--13407322 Score: 157
Period size: 23 Copynumber: 7.3 Consensus size: 23
13407144 ACGGAACAAG
* *
13407154 CAGAGAGTAC-CAAAGTACT-AA
1 CAGAGAGCACACAAAGTGCTAAA
* *
13407175 CAGAGAGCACA-TAAGTGCTGGGCAA
1 CAGAGAGCACACAAAGTGCT---AAA
*
13407200 CAGAGAGCACACACAGTGCTAAA
1 CAGAGAGCACACAAAGTGCTAAA
* * *
13407223 CAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAA
*
13407246 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAA
* *
13407269 CAGAGAGCACACAAAGTGATAAT
1 CAGAGAGCACACAAAGTGCTAAA
* *
13407292 CAGAGAGCACGA-GACGTGCTAAA
1 CAGAGAGCAC-ACAAAGTGCTAAA
13407315 CAGAGAGC
1 CAGAGAGC
13407323 GCGCTAGTGT
Statistics
Matches: 124, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
21 15 0.12
23 89 0.72
24 1 0.01
25 13 0.10
26 6 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAA
Found at i:13407250 original size:46 final size:46
Alignment explanation
Indices: 13407200--13407322 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
13407190 TGCTGGGCAA
*
13407200 CAGAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGT-ACTAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTGA-TAAT
* *
13407246 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGATAAT
1 CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTGATAAT
*
13407292 CAGAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAGAGAGCAC-ACACAGTGCTAAACAGAGAGC
13407323 GCGCTAGTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 66 0.96
47 3 0.04
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (46 bp):
CAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTGATAAT
Found at i:13407273 original size:69 final size:66
Alignment explanation
Indices: 13407154--13407298 Score: 184
Period size: 69 Copynumber: 2.1 Consensus size: 66
13407144 ACGGAACAAG
* * *
13407154 CAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGC
1 CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AACAGAGAGCACACAAAGTGA
13407219 TAAA
63 TAAA
13407223 CAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAAGTG
1 CAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAA-CAGAGAGCACACAAAGTG
*
13407287 ATAAT
62 ATAAA
13407292 CAGAGAG
1 CAGAGAG
13407299 CACGAGACGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
68 2 0.03
69 37 0.54
70 11 0.16
71 11 0.16
72 7 0.10
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.12
Consensus pattern (66 bp):
CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAACAGAGAGCACACAAAGTGATAA
A
Found at i:13410653 original size:18 final size:20
Alignment explanation
Indices: 13410630--13410668 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13410620 AACTATAATT
13410630 ATTTTACATTT-TT-ATCAA
1 ATTTTACATTTATTAATCAA
*
13410648 ATTTTATATTTATTAATCAA
1 ATTTTACATTTATTAATCAA
13410668 A
1 A
13410669 ATAACCTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTACATTTATTAATCAA
Found at i:13410661 original size:80 final size:79
Alignment explanation
Indices: 13410490--13410649 Score: 250
Period size: 79 Copynumber: 2.0 Consensus size: 79
13410480 TGTTGATTTG
* *
13410490 ACAATACATTATTTATCAAATTTAAATTTTAAATTTATTTAAATAAAAAACTATTATTATTTTAC
1 ACAATACATTATTTACCAAATTTAAATTTTAAATTTATTTAAATAAAAAACTATAATTATTTTAC
13410555 AATTTTTATCAAAT
66 AATTTTTATCAAAT
* *
13410569 ACAATACATTATTTACCAATTTTTAATATTTAAATTTATTTAAATCAAAAAAACTATAATTATTT
1 ACAATACATTATTTACCAAATTTAAAT-TTTAAATTTATTTAAAT--AAAAAACTATAATTATTT
13410634 TAC-ATTTTTATCAAAT
63 TACAATTTTTATCAAAT
13410650 TTTATATTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
79 24 0.32
80 17 0.23
81 13 0.18
82 20 0.27
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (79 bp):
ACAATACATTATTTACCAAATTTAAATTTTAAATTTATTTAAATAAAAAACTATAATTATTTTAC
AATTTTTATCAAAT
Found at i:13410789 original size:22 final size:22
Alignment explanation
Indices: 13410735--13410793 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
13410725 ATAACATTGG
*
13410735 ACCACCCAAATTTCAGCTCACC
1 ACCACCCAAATTCCAGCTCACC
** * *
13410757 AAAATCGAAATTCCAGCTCACC
1 ACCACCCAAATTCCAGCTCACC
*
13410779 ACCACCTAAATTCCA
1 ACCACCCAAATTCCA
13410794 TTGTTGACCA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.19
Consensus pattern (22 bp):
ACCACCCAAATTCCAGCTCACC
Found at i:13411491 original size:23 final size:23
Alignment explanation
Indices: 13411422--13411566 Score: 118
Period size: 23 Copynumber: 6.3 Consensus size: 23
13411412 CGGAACAAAT
* *
13411422 AGAGAGTAC-CAAAGTACT-AAC
1 AGAGAGCACACAAAGTGCTAAAC
* *
13411443 AGAGAGCACA-TAAGTGCTGGGCAAC
1 AGAGAGCACACAAAGTGCT---AAAC
*
13411468 AGAGAGCACACACAGTGCTAAAC
1 AGAGAGCACACAAAGTGCTAAAC
* * *
13411491 AGAGAGTACACAAAGTACTAATC
1 AGAGAGCACACAAAGTGCTAAAC
* *
13411514 AAAGAGCACACAAAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAAAC
* *
13411537 AGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCAC-ACAAAGTGCTAAAC
13411560 AGAGAGC
1 AGAGAGC
13411567 GCGCTAGTGT
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
21 14 0.14
23 66 0.66
24 1 0.01
25 13 0.13
26 6 0.06
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AGAGAGCACACAAAGTGCTAAAC
Found at i:13411540 original size:69 final size:66
Alignment explanation
Indices: 13411422--13411565 Score: 175
Period size: 69 Copynumber: 2.1 Consensus size: 66
13411412 CGGAACAAAT
* *
13411422 AGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCAC-ACACAGTGC
1 AGAGAGTACCAAAGTACTAACAAAGAGCACAAAAGTGCT--G-AACAGAGAGCACGACAC-GTGC
13411486 TAAAC
62 TAAAC
*
13411491 AGAGAGTACACAAAGTACTAATCAAAGAGCACACAAAGTGCT-AATCAGAGAGCACGAGACGTGC
1 AGAGAGTAC-CAAAGTACTAA-CAAAGAGCACA-AAAGTGCTGAA-CAGAGAGCACGACACGTGC
13411555 TAAAC
62 TAAAC
13411560 AGAGAG
1 AGAGAG
13411566 CGCGCTAGTG
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
68 2 0.03
69 34 0.51
70 14 0.21
71 10 0.15
72 7 0.10
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (66 bp):
AGAGAGTACCAAAGTACTAACAAAGAGCACAAAAGTGCTGAACAGAGAGCACGACACGTGCTAAA
C
Found at i:13414135 original size:20 final size:20
Alignment explanation
Indices: 13414120--13414160 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
13414110 GAATTTTTAT
*
13414120 AATATTTTTTCTATTTTCGA
1 AATATTTTTTATATTTTCGA
13414140 AATATTTTTTATATTTTCGA
1 AATATTTTTTATATTTTCGA
13414160 A
1 A
13414161 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (20 bp):
AATATTTTTTATATTTTCGA
Found at i:13414201 original size:13 final size:13
Alignment explanation
Indices: 13414183--13414207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13414173 TAAAAATCTG
13414183 ATATTTTTTACAA
1 ATATTTTTTACAA
13414196 ATATTTTTTACA
1 ATATTTTTTACA
13414208 TTTTCGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTACAA
Found at i:13414371 original size:13 final size:13
Alignment explanation
Indices: 13414353--13414377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13414343 TAAAAATCTG
13414353 ATATTTTTTACAA
1 ATATTTTTTACAA
13414366 ATATTTTTTACA
1 ATATTTTTTACA
13414378 TTTTCGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTTTTTACAA
Found at i:13414419 original size:21 final size:20
Alignment explanation
Indices: 13414364--13414419 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
13414354 TATTTTTTAC
13414364 AAATATTTTTTACATTTTCG
1 AAATATTTTTTACATTTTCG
****
13414384 AAATATAAAAATACATTTTCG
1 AAATAT-TTTTTACATTTTCG
13414405 AAATACTTTTTTACA
1 AAATA-TTTTTTACA
13414420 AATTAAAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (20 bp):
AAATATTTTTTACATTTTCG
Found at i:13414442 original size:170 final size:170
Alignment explanation
Indices: 13414104--13414457 Score: 534
Period size: 170 Copynumber: 2.1 Consensus size: 170
13414094 TGTAAGATAT
*
13414104 ATTTTCGAA-TTTTTATAATATTTTTTCTATTTTCGAAATATTTTTTATATTTTCGAATTTTAAA
1 ATTTTCGAATTTTTTATAATATTTTTTCTATTTTAGAAATATTTTTTATATTTTCGAATTTTAAA
*
13414168 AAAAATAAAAATCTGATATTTTTTACAAATATTTTTTACATTTTCGAAATATGAAAAGTAAATTT
66 AAAAATAAAAATCTGATATTTTTTACAAATATTTTTTACATTTTCGAAATATGAAAAATAAATTT
* *
13414233 TTGAAATATTTTTTTACAAATAAAAAATCTAAATTTTTAC
131 TCGAAATACTTTTTTACAAATAAAAAATCTAAATTTTTAC
* **
13414273 ATTTTCAAATTTTTTATAATAATTTTTTCTATTTTAGAAATATTTTTTATA-TTTCGAATTTTTT
1 ATTTTCGAATTTTTTATAAT-ATTTTTTCTATTTTAGAAATATTTTTTATATTTTCGAATTTTAA
* *
13414337 AGAAAATAAAAATCTGATATTTTTTACAAATATTTTTTACATTTTCGAAATAT-AAAAATACATT
65 AAAAAATAAAAATCTGATATTTTTTACAAATATTTTTTACATTTTCGAAATATGAAAAATAAATT
* * * **
13414401 TTCGAAATACTTTTTTACAAATTAAAATTTTGATTTTTTTAC
130 TTCGAAATACTTTTTTACAAATAAAAAATCT-AAATTTTTAC
*
13414443 ATTTTTGAATTTTTT
1 ATTTTCGAATTTTTT
13414458 TAACTAAACT
Statistics
Matches: 166, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
169 43 0.26
170 94 0.57
171 29 0.17
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (170 bp):
ATTTTCGAATTTTTTATAATATTTTTTCTATTTTAGAAATATTTTTTATATTTTCGAATTTTAAA
AAAAATAAAAATCTGATATTTTTTACAAATATTTTTTACATTTTCGAAATATGAAAAATAAATTT
TCGAAATACTTTTTTACAAATAAAAAATCTAAATTTTTAC
Found at i:13415043 original size:24 final size:24
Alignment explanation
Indices: 13415016--13415069 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
13415006 CATGGATGAG
* *
13415016 CCCGATTACGAGCCGGAGGACCAA
1 CCCGATTACCAGCCGGAGCACCAA
* *
13415040 CCCGAGTACCAGTCGGAGCACCAA
1 CCCGATTACCAGCCGGAGCACCAA
13415064 CCCGAT
1 CCCGAT
13415070 CCCCAATATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.37, G:0.26, T:0.09
Consensus pattern (24 bp):
CCCGATTACCAGCCGGAGCACCAA
Found at i:13415532 original size:30 final size:30
Alignment explanation
Indices: 13415493--13415613 Score: 154
Period size: 30 Copynumber: 4.1 Consensus size: 30
13415483 TTTTGATTTT
* * * *
13415493 TTTCATTTATTTTTTTAATTTAATTTGTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
13415523 TTTCGTTTATATTTTAAATTTAATTTCTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
* * * *
13415553 TTTCCTGTATATTTT-ATTTTAATTTATAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
*
13415582 TTTCGTTTATATTTTAAATTTCATTTCTAA
1 TTTCGTTTATATTTTAAATTTAATTTCTAA
13415612 TT
1 TT
13415614 ATTATTTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 25 0.32
30 52 0.68
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTCGTTTATATTTTAAATTTAATTTCTAA
Found at i:13416541 original size:59 final size:58
Alignment explanation
Indices: 13416443--13417129 Score: 444
Period size: 62 Copynumber: 11.7 Consensus size: 58
13416433 AGAAATGAGG
* * ** *
13416443 AAAAGTTGGTGTCGACCAATGC-ATGATCAACACCAAAAAATTAATTTTTTATCTGATA
1 AAAAGGTGGTGTCGGCC-ATGCAATGGCCAACACAAAAAAATTAATTTTTTATCTGATA
*
13416501 AAATAGGTGGTGTCGGCCAATGC-ATGGCCAACACAAAAAAATTTGATTTTTTA-CTAGATAA
1 AAA-AGGTGGTGTCGGCC-ATGCAATGGCCAACACAAAAAAA-TTAATTTTTTATCT-GAT-A
* * * * *
13416562 AAAAAGTGGTGTCGGCCATGCAATGGCTAACACCAAAAAATTTGATTTTTTTATCAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATT-AATTTTTTATCTGATA
* * * *
13416622 AAAAGGTGGTGTCGACCATGCAATGGTCAACACCAAAAAAGTTGAATTTTTTTTATCAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATT-AA--TTTTTTATCTGATA
* * * *
13416684 GAAAGGTGATGTCAGCCATGCAATGGCCAACACAAAAAAAATTTAAATTTTTTTATCAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACAC-AAAAAAA-TT-AA-TTTTTTATCTGATA
* ** * * * * * **
13416746 GAAAGGTGGTGTCAACCATGCAATGACCAATACCAAAATATTTGATTTTTT-TAAAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATTAATTTTTTAT-CTGATA
* * * * * *
13416805 AATAGGTGGTGTTGACCAATAC-ATGGCCAACACCAAAAAATTTGAATTTTTTTTATCTGACAA
1 AAAAGGTGGTGTCGGCC-ATGCAATGGCCAACA-CAAAAAAATT-AA--TTTTTTATCTGA-TA
** * * *
13416868 AAAAGG-GGTGTCAACCATGCAATGGTCAACACAAAAAAAATAATTTTTTATCAGATA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTATCTGATA
* * * *
13416925 GAAAAGAG-GGTGTCGGTCATGCAATGACCAACAC----CAA--AATTTTTTATCTGACA
1 -AAAAG-GTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTATCTGATA
* * *
13416978 AAAAGAG-GGTGTCGGCCATGCAATGGCTAGCACAAAAAAAAATTAATTTTTT-TCAGATAA
1 AAAAG-GTGGTGTCGGCCATGCAATGGCCA--ACACAAAAAAATTAATTTTTTATCTGAT-A
* * * * *
13417038 AAAAGG-GAGTGTCGGCCATGCAATGGTCTACAC---TAAATT-TTTTTTTATCTGACA
1 AAAAGGTG-GTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTATCTGATA
* * *
13417092 AAAAAG-GGTATCGGCCATGCAATGGTCAACATCAAAAA
1 AAAAGGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAA
13417130 TTTTTTTATC
Statistics
Matches: 510, Mismatches: 81, Indels: 77
0.76 0.12 0.12
Matches are distributed among these distances:
52 26 0.05
53 36 0.07
54 17 0.03
55 11 0.02
57 2 0.00
58 25 0.05
59 108 0.21
60 117 0.23
61 35 0.07
62 121 0.24
63 12 0.02
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (58 bp):
AAAAGGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTAATTTTTTATCTGATA
Found at i:13416571 original size:60 final size:59
Alignment explanation
Indices: 13416443--13417191 Score: 391
Period size: 60 Copynumber: 12.7 Consensus size: 59
13416433 AGAAATGAGG
* ** * *
13416443 AAAAGTTGGTGTCGACCAATGC-ATGATCAACACCAAAAAA-TTAATTTTTTATCT-GATAA
1 AAAAG-TGGTGTCGGCC-ATGCAATGGCCAACACAAAAAAATTTGATTTTTTA-CTAGATAA
*
13416502 AATAGGTGGTGTCGGCCAATGC-ATGGCCAACACAAAAAAATTTGATTTTTTACTAGATAAA
1 AA-AAGTGGTGTCGGCC-ATGCAATGGCCAACACAAAAAAATTTGATTTTTTACTAGAT-AA
* *
13416563 AAAAGTGGTGTCGGCCATGCAATGGCTAACACCAAAAAATTTGATTTTTTTA-TCAGATAA
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGA-TTTTTTACT-AGATAA
* * * * * *
13416623 AAAGGTGGTGTCGACCATGCAATGGTCAACACCAAAAAAGTTGAATTTTTTTTA-TCAGATAG
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTG-A--TTTTTTACT-AGATAA
* * * * *
13416685 AAAGGTGATGTCAGCCATGCAATGGCCAACACAAAAAAAATTTAAATTTTTTTA-TCAGATAG
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACAC-AAAAAAATTT-GA-TTTTTTACT-AGATAA
* ** * * * * *
13416747 AAAGGTGGTGTCAACCATGCAATGACCAATACCAAAATATTTGATTTTTTTA-AAGATAA
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGA-TTTTTTACTAGATAA
* * * * * * *
13416806 ATAGGTGGTGTTGACCAATAC-ATGGCCAACACCAAAAAATTTGAATTTTTTTTATCT-GACAA
1 AAAAGTGGTGTCGGCC-ATGCAATGGCCAACACAAAAAAATTTG-A--TTTTTTA-CTAGATAA
* ** * * *
13416868 AAAAGGGGTGTCAACCATGCAATGGTCAACACAAAAAAA-ATAATTTTTTA-TCAGATAGA
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGATTTTTTACT-AGATA-A
* * * * *
13416927 AAAGAG-GGTGTCGGTCATGCAATGACCAACAC--CAAAA-TT--TTTTAT-CT-GACAA
1 AAA-AGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGATTTTTTACTAGATAA
* * * * *
13416979 AAAGAG-GGTGTCGGCCATGCAATGGCTAGCACAAAAAAAAATTAATTTTTTTC-AGATAA
1 AAA-AGTGGTGTCGGCCATGCAATGGCCAACAC-AAAAAAATTTGATTTTTTACTAGATAA
* * * * *
13417038 AAAAGGGAGTGTCGGCCATGCAATGGTCTACAC---TAAATTT--TTTTTTATCT-GACAA
1 AAAAGTG-GTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGATTTTTTA-CTAGATAA
* * *
13417093 AAAAG-GGTATCGGCCATGCAATGGTCAACATC--AAAAATTT--TTTTAT-CTGAGA-AA
1 AAAAGTGGTGTCGGCCATGCAATGGCCAACA-CAAAAAAATTTGATTTTTTACT-AGATAA
* *
13417147 AAATACTGGTGTCGGTCAATGC-ATGGCCAACACCAGAAAAAATTT
1 AAA-AGTGGTGTCGG-CCATGCAATGGCCAACA-CA-AAAAAATTT
13417192 ATCTGACAAA
Statistics
Matches: 562, Mismatches: 84, Indels: 88
0.77 0.11 0.12
Matches are distributed among these distances:
52 29 0.05
53 27 0.05
54 13 0.02
55 34 0.06
56 25 0.04
57 10 0.02
58 17 0.03
59 117 0.21
60 127 0.23
61 36 0.06
62 118 0.21
63 9 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (59 bp):
AAAAGTGGTGTCGGCCATGCAATGGCCAACACAAAAAAATTTGATTTTTTACTAGATAA
Found at i:13416704 original size:62 final size:61
Alignment explanation
Indices: 13416470--13416963 Score: 475
Period size: 60 Copynumber: 8.2 Consensus size: 61
13416460 AATGCATGAT
* *
13416470 CAACACCAAAAAA-TT-AA-TTTTTTATCTGATAAAATAGGTGGTGTCGGCCAATGC-ATGGC
1 CAACACCAAAAAATTTGAATTTTTTTATCAGATAAAA-AGGTGGTGTCAGCC-ATGCAATGGC
* * *
13416529 CAACACAAAAAAATTTG-A-TTTTTTA-CTAGATAAAAAAAGTGGTGTCGGCCATGCAATGGC
1 CAACACCAAAAAATTTGAATTTTTTTATC-AGAT-AAAAAGGTGGTGTCAGCCATGCAATGGC
* *
13416589 TAACACCAAAAAATTTG-ATTTTTTTATCAGATAAAAAGGTGGTGTC-GACCATGCAATGGT
1 CAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGGTGTCAG-CCATGCAATGGC
* * *
13416649 CAACACCAAAAAAGTTGAATTTTTTTTATCAGATAGAAAGGTGATGTCAGCCATGCAATGGC
1 CAACACCAAAAAATTTGAA-TTTTTTTATCAGATAAAAAGGTGGTGTCAGCCATGCAATGGC
* * * * *
13416711 CAACACAAAAAAAATTTAAATTTTTTTATCAGATAGAAAGGTGGTGTCAACCATGCAATGAC
1 CAACAC-CAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGGTGTCAGCCATGCAATGGC
* * * * * *
13416773 CAATACCAAAATATTTG-ATTTTTTTA-AAGATAAATAGGTGGTGT-TGACCAATAC-ATGGC
1 CAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGGTGTCAG-CC-ATGCAATGGC
* * * *
13416832 CAACACCAAAAAATTTGAATTTTTTTTATCTGACAAAAAAGG-GGTGTCAACCATGCAATGGT
1 CAACACCAAAAAATTTGAA-TTTTTTTATCAGA-TAAAAAGGTGGTGTCAGCCATGCAATGGC
** * * *
13416894 CAACA-CAAAAAAAAT-AA-TTTTTTATCAGATAGAAAAGAG-GGTGTCGGTCATGCAATGAC
1 CAACACCAAAAAATTTGAATTTTTTTATCAGATA-AAAAG-GTGGTGTCAGCCATGCAATGGC
13416953 CAACACCAAAA
1 CAACACCAAAA
13416964 TTTTTTATCT
Statistics
Matches: 364, Mismatches: 48, Indels: 45
0.80 0.11 0.10
Matches are distributed among these distances:
57 1 0.00
58 16 0.04
59 75 0.21
60 106 0.29
61 43 0.12
62 106 0.29
63 17 0.05
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (61 bp):
CAACACCAAAAAATTTGAATTTTTTTATCAGATAAAAAGGTGGTGTCAGCCATGCAATGGC
Found at i:13416983 original size:52 final size:51
Alignment explanation
Indices: 13416853--13417238 Score: 229
Period size: 53 Copynumber: 7.0 Consensus size: 51
13416843 AATTTGAATT
** *
13416853 TTTTTTATCTGACAAAAAAGGGGTGTCAACCATGCAATGGTCAACACAAAAAAAATAA
1 TTTTTTATCTGACAAAAAA-GGGTGTCGGCCATGCAATGGCCAACAC-----AAA-AA
* * * * *
13416911 TTTTTTATCAGATAGAAAAGAGGGTGTCGGTCATGCAATGACCAACACCAAAA
1 TTTTTTATCTGACA-AAAA-AGGGTGTCGGCCATGCAATGGCCAACACAAAAA
* *
13416964 TTTTTTATCTGACAAAAAGAGGGTGTCGGCCATGCAATGGCTAGCACAAAAAAAAA
1 TTTTTTATCTGACAAAAA-AGGGTGTCGGCCATGCAATGGC---CA-ACACAAAAA
* * * * * **
13417020 TTAATTTTTTTCAGATAAAAAAGGGAGTGTCGGCCATGCAATGGTCTACACTAAATTT
1 -T--TTTTTATCTGACAAAAAA-GG-GTGTCGGCCATGCAATGGCCAACAC-AAA-AA
* *
13417078 TTTTTTATCTGACAAAAAAGGGTATCGGCCATGCAATGGTCAACATCAAAAA
1 TTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGCCAACA-CAAAAA
* * *
13417130 TTTTTTTATCTGAGAAAAAATACTGGTGTCGGTCAATGC-ATGGCCAACACCAGAAAA
1 -TTTTTTATCTGA-CAAAAA-A-GGGTGTCGG-CCATGCAATGGCCAACA-CA-AAAA
** * *
13417187 -AATTTATCTGACAAAAAAGGGGTATCGACCATTGC-ATGGCCAACACTAAAAA
1 TTTTTTATCTGACAAAAAA-GGGTGTCGGCCA-TGCAATGGCCAACAC-AAAAA
13417239 ACACAAAATT
Statistics
Matches: 261, Mismatches: 45, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
52 32 0.12
53 72 0.28
54 15 0.06
55 27 0.10
56 26 0.10
57 15 0.06
58 13 0.05
59 42 0.16
60 19 0.07
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (51 bp):
TTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGCCAACACAAAAA
Found at i:13417076 original size:111 final size:111
Alignment explanation
Indices: 13416852--13417239 Score: 359
Period size: 111 Copynumber: 3.5 Consensus size: 111
13416842 AAATTTGAAT
**
13416852 TTTTTTTATCTGACAAAAAAGGGGTGTCAACCATGCAATGGTCAACACAAAAAAAATAATTTTTT
1 TTTTTTTATCTGACAAAAAA-GGGTGTCGGCCATGCAATGGTCAACACAAAAAAAATAATTTTTT
* *
13416917 ATCAGATAGAAAAGAGGGTGTCGGTCATGCAATGACCAACACCAAAA
65 ATCAGATAAAAAAGAGGGTGTCGGCCATGCAATGACCAACACCAAAA
*
13416964 -TTTTTTATCTGACAAAAAGAGGGTGTCGGCCATGCAATGG-CTAGCACAAAAAAAAATTAATTT
1 TTTTTTTATCTGACAAAAA-AGGGTGTCGGCCATGCAATGGTC-AACAC-AAAAAAAA-TAATTT
** * * *
13417027 TTT-TCAGATAAAAAAG-GGAGTGTCGGCCATGCAATGGTCTACACTAAATT
62 TTTATCAGATAAAAAAGAGG-GTGTCGGCCATGCAATGACCAACACCAAA-A
*
13417077 TTTTTTTATCTGACAAAAAAGGGTATCGGCCATGCAATGGTCAACATC---AAAAAT--TTTTTT
1 TTTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGTCAACA-CAAAAAAAATAATTTTTT
* * * * * *
13417137 ATCTGAGAAAAAATACTGGTGTCGGTCAATGC-ATGGCCAACACCAGAAA
65 ATCAGATAAAAAAGA-GGGTGTCGG-CCATGCAATGACCAACACCA-AAA
*** * * * *
13417186 -AAATTTATCTGACAAAAAAGGGGTATCGACCATTGC-ATGGCCAACACTAAAAAA
1 TTTTTTTATCTGACAAAAAA-GGGTGTCGGCCA-TGCAATGGTCAACACAAAAAAA
13417240 CACAAAATTT
Statistics
Matches: 231, Mismatches: 26, Indels: 39
0.78 0.09 0.13
Matches are distributed among these distances:
107 6 0.03
108 27 0.12
109 38 0.16
110 17 0.07
111 46 0.20
112 45 0.19
113 32 0.14
114 20 0.09
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (111 bp):
TTTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGTCAACACAAAAAAAATAATTTTTTA
TCAGATAAAAAAGAGGGTGTCGGCCATGCAATGACCAACACCAAAA
Found at i:13417129 original size:113 final size:111
Alignment explanation
Indices: 13416849--13417129 Score: 363
Period size: 112 Copynumber: 2.5 Consensus size: 111
13416839 AAAAAATTTG
**
13416849 AATTTTTTTTATCTGACAAAAAAGGGGTGTCAACCATGCAATGGTCAACACAAAAAAAATAATTT
1 AATTTTTTTTATCTGACAAAAAA-GGGTGTCGGCCATGCAATGGTCAACACAAAAAAAATAATTT
* *
13416914 TTTATCAGATAGAAAAGAGGGTGTCGGTCATGCAATGACCAACACCA
65 TTTATCAGATAAAAAAGAGGGTGTCGGCCATGCAATGACCAACACCA
* *
13416961 AA-ATTTTTTATCTGACAAAAAGAGGGTGTCGGCCATGCAATGG-CTAGCACAAAAAAAAATTAA
1 AATTTTTTTTATCTGACAAAAA-AGGGTGTCGGCCATGCAATGGTC-AACAC-AAAAAAAA-TAA
** * *
13417024 TTTTTT-TCAGATAAAAAAG-GGAGTGTCGGCCATGCAATGGTCTACACTA
62 TTTTTTATCAGATAAAAAAGAGG-GTGTCGGCCATGCAATGACCAACACCA
*
13417073 AATTTTTTTTTATCTGACAAAAAAGGGTATCGGCCATGCAATGGTCAACATCAAAAA
1 AA-TTTTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGTCAACA-CAAAAA
13417130 TTTTTTTATC
Statistics
Matches: 147, Mismatches: 13, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
110 1 0.01
111 42 0.29
112 47 0.32
113 37 0.25
114 20 0.14
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (111 bp):
AATTTTTTTTATCTGACAAAAAAGGGTGTCGGCCATGCAATGGTCAACACAAAAAAAATAATTTT
TTATCAGATAAAAAAGAGGGTGTCGGCCATGCAATGACCAACACCA
Found at i:13419479 original size:25 final size:24
Alignment explanation
Indices: 13419451--13419501 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
13419441 TATGGTTAAA
13419451 ATTTGGTTTATTTTATAAT-TTTTTT
1 ATTT-GTTTATTTT-TAATATTTTTT
*
13419476 ATTTTTTTATTTTTAATGATTTTTT
1 ATTTGTTTATTTTTAAT-ATTTTTT
13419501 A
1 A
13419502 ATTGAATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 8 0.35
25 11 0.48
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (24 bp):
ATTTGTTTATTTTTAATATTTTTT
Found at i:13420470 original size:36 final size:36
Alignment explanation
Indices: 13420430--13420501 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13420420 CTCGATCAAG
13420430 AATGTTTGTTGCTTAGATTCCATTTCTGGGTTTTTT
1 AATGTTTGTTGCTTAGATTCCATTTCTGGGTTTTTT
13420466 AATGTTTGTTGCTTAGATTCCATTTCTGGGTTTTTT
1 AATGTTTGTTGCTTAGATTCCATTTCTGGGTTTTTT
13420502 TTCTGTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.56
Consensus pattern (36 bp):
AATGTTTGTTGCTTAGATTCCATTTCTGGGTTTTTT
Found at i:13427777 original size:30 final size:30
Alignment explanation
Indices: 13427741--13427800 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13427731 ATTTTAAAAA
*
13427741 AGTATAGTTTAATTTACAACATCTGTTAAT
1 AGTATAGTTTAATTTACAACATCGGTTAAT
13427771 AGTATAGTTTAATTTACAACATCGGTTAAT
1 AGTATAGTTTAATTTACAACATCGGTTAAT
13427801 TGATTTCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
AGTATAGTTTAATTTACAACATCGGTTAAT
Found at i:13433019 original size:18 final size:18
Alignment explanation
Indices: 13432987--13433038 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
13432977 TTGATATGAG
13432987 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
13433003 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
13433021 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
13433039 CAATTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:13442775 original size:3 final size:3
Alignment explanation
Indices: 13442767--13442817 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
13442757 GAACACTAGT
*
13442767 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13442814 TAA T
1 TAA T
13442818 TTACTGAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13451560 original size:26 final size:26
Alignment explanation
Indices: 13451524--13451574 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
13451514 TCAGAAGCTA
* * *
13451524 TAATAGTGGTACCAAGATAACAGAAG
1 TAATAATGGTACAAAGAGAACAGAAG
13451550 TAATAATGGTACAAAGAGAACAGAA
1 TAATAATGGTACAAAGAGAACAGAA
13451575 AAAAACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.18
Consensus pattern (26 bp):
TAATAATGGTACAAAGAGAACAGAAG
Found at i:13453829 original size:71 final size:71
Alignment explanation
Indices: 13453713--13453854 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
13453703 TATCTACTAG
*
13453713 TTAAGATTTATCTTTGATTGCCTGTGGCAAACATTTCATCTATTGATAAAGATATAATTTCATTA
1 TTAAGATTTATCTTTGACTGCCTGTGGCAAACATTTCATCTATTGATAAAGATATAATTTCATTA
13453778 TAAACT
66 TAAACT
13453784 TTAAGATTTATCTTTGACTGCCTGTGGCAAACATTTCATCTATTGATAAAGATATAATTTCATTA
1 TTAAGATTTATCTTTGACTGCCTGTGGCAAACATTTCATCTATTGATAAAGATATAATTTCATTA
13453849 TAAACT
66 TAAACT
13453855 ATAACTGTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (71 bp):
TTAAGATTTATCTTTGACTGCCTGTGGCAAACATTTCATCTATTGATAAAGATATAATTTCATTA
TAAACT
Found at i:13457435 original size:33 final size:32
Alignment explanation
Indices: 13457369--13457435 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
13457359 TCATTAATAA
*
13457369 TTTAATTTTAATATAAATAGTGCAAAATGTAAAT
1 TTTAATTTTAATATAAATAGT--AAAATATAAAT
13457403 TTTAATTTAATAATATAAATAGT-AAATATAAAT
1 TTTAATTT--TAATATAAATAGTAAAATATAAAT
13457436 AAAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 9 0.30
34 8 0.27
36 13 0.43
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (32 bp):
TTTAATTTTAATATAAATAGTAAAATATAAAT
Found at i:13458718 original size:20 final size:20
Alignment explanation
Indices: 13458695--13458739 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13458685 ATTAAAATTA
13458695 TATTAAATCAAATAATATTT
1 TATTAAATCAAATAATATTT
* * *
13458715 TATTAAATTAAATTATTTTT
1 TATTAAATCAAATAATATTT
13458735 TATTA
1 TATTA
13458740 TTCATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTAAATCAAATAATATTT
Found at i:13470226 original size:40 final size:40
Alignment explanation
Indices: 13470180--13470258 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
13470170 TTTTCATGAC
13470180 AGATTAAAAGTAGTATGGTTGTCAACTAGCCAAGGATAAT
1 AGATTAAAAGTAGTATGGTTGTCAACTAGCCAAGGATAAT
13470220 AGATTAAAAGTAGTATGGTTGTCAACTAGCCAAGGATAA
1 AGATTAAAAGTAGTATGGTTGTCAACTAGCCAAGGATAA
13470259 GGCAAACGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (40 bp):
AGATTAAAAGTAGTATGGTTGTCAACTAGCCAAGGATAAT
Found at i:13477342 original size:25 final size:24
Alignment explanation
Indices: 13477304--13477352 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
13477294 AAAATGGGGA
* *
13477304 GAATTAATCGTTATAAGTTTTAATT
1 GAATTAATCATTATAA-ATTTAATT
13477329 GAATTAATCATTATAAATTTAATT
1 GAATTAATCATTATAAATTTAATT
13477353 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (24 bp):
GAATTAATCATTATAAATTTAATT
Found at i:13486599 original size:25 final size:27
Alignment explanation
Indices: 13486571--13486628 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
13486561 AATTTGTGGT
13486571 GGAATGAG-TTTT-TTTATTTATTATA
1 GGAATGAGTTTTTATTTATTTATTATA
13486596 GGAATGAGTTTTTATTTATTTATTATA
1 GGAATGAGTTTTTATTTATTTATTATA
13486623 GGAATG
1 GGAATG
13486629 GGGTTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 8 0.26
26 4 0.13
27 19 0.61
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (27 bp):
GGAATGAGTTTTTATTTATTTATTATA
Found at i:13489400 original size:31 final size:31
Alignment explanation
Indices: 13489341--13489412 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
13489331 TATTGATATT
**
13489341 ATATTAAAAATTAATAAAATTTATAAAAAATG
1 ATATT-AAAATTAATAAAAGCTATAAAAAATG
* *
13489373 CTATTAAAATTAATCAAAAGCTA-AAAAAATT
1 ATATTAAAATTAAT-AAAAGCTATAAAAAATG
13489404 ATATTAAAA
1 ATATTAAAA
13489413 AGAAATCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 24 0.71
32 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (31 bp):
ATATTAAAATTAATAAAAGCTATAAAAAATG
Found at i:13495126 original size:42 final size:42
Alignment explanation
Indices: 13495067--13495154 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
13495057 ACCCATCAAC
* * *
13495067 AAACTAAACCTAAATATAATTTCATTCTTAAAAAACACTTAT
1 AAACTAAACCCAAATATAATTTCATTCCTAAAAAACACTCAT
* *
13495109 AAACTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATAATTTCATTCCTAAAAAACACTCAT
13495151 AAAC
1 AAAC
13495155 AACTCCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (42 bp):
AAACTAAACCCAAATATAATTTCATTCCTAAAAAACACTCAT
Found at i:13498192 original size:60 final size:54
Alignment explanation
Indices: 13498128--13498255 Score: 132
Period size: 59 Copynumber: 2.2 Consensus size: 54
13498118 GACAAAATTG
* * * *
13498128 AATAGTTGGATGACTATTTTGTAATTTTTCATAGTT-AGGTGAGCAAAAAAGAAATTTATT
1 AATAGTTGG-TGAC-ATTTTATAACTTTTCATAATTGA-GTGA-C--AAAA-AAATTTAGT
13498188 AATAGTTCGGTGACATTTTATAACTTTTCATAATTGAGTGACAAAAAAATTTAGT
1 AATAGTT-GGTGACATTTTATAACTTTTCATAATTGAGTGACAAAAAAATTTAGT
13498243 AATAGTTGAGTGA
1 AATAGTTG-GTGA
13498256 TTACTAGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
54 1 0.02
55 19 0.31
56 4 0.07
58 1 0.02
59 22 0.36
60 12 0.20
61 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (54 bp):
AATAGTTGGTGACATTTTATAACTTTTCATAATTGAGTGACAAAAAAATTTAGT
Found at i:13499812 original size:27 final size:28
Alignment explanation
Indices: 13499776--13499839 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
13499766 CGTTTAATCT
*
13499776 GTAACTCCTGA-CTGATAAC-CCTGATTG
1 GTAACGCCTGATC-GATAACGCCTGATTG
13499803 GTAACGCCTGATCGATAACGCCTGATTG
1 GTAACGCCTGATCGATAACGCCTGATTG
* *
13499831 TTAATGCCT
1 GTAACGCCT
13499840 CATCAACGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (28 bp):
GTAACGCCTGATCGATAACGCCTGATTG
Found at i:13499839 original size:14 final size:14
Alignment explanation
Indices: 13499777--13499830 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
13499767 GTTTAATCTG
* *
13499777 TAACTCCTGACTGA
1 TAACGCCTGATTGA
*
13499791 TAAC-CCTGATTGG
1 TAACGCCTGATTGA
*
13499804 TAACGCCTGATCGA
1 TAACGCCTGATTGA
13499818 TAACGCCTGATTG
1 TAACGCCTGATTG
13499831 TTAATGCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
13 11 0.32
14 23 0.68
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (14 bp):
TAACGCCTGATTGA
Found at i:13500057 original size:14 final size:15
Alignment explanation
Indices: 13500021--13500059 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
13500011 AATTTAAATT
13500021 TAATGTTAATTTATCA
1 TAAT-TTAATTTATCA
13500037 TAATTTAATTT-TCA
1 TAATTTAATTTATCA
*
13500051 TACTTTAAT
1 TAATTTAAT
13500060 GAAAACTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 7 0.32
16 4 0.18
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTTAATTTATCA
Found at i:13500531 original size:20 final size:20
Alignment explanation
Indices: 13500506--13500546 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13500496 AAACTCGGGT
13500506 CTCTTAGGATGAACAACATC
1 CTCTTAGGATGAACAACATC
13500526 CTCTTAGGATGAACAACATC
1 CTCTTAGGATGAACAACATC
13500546 C
1 C
13500547 CCTTTACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (20 bp):
CTCTTAGGATGAACAACATC
Found at i:13501405 original size:20 final size:20
Alignment explanation
Indices: 13501380--13501458 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
13501370 TATATATTGT
*
13501380 TGTTTTGGTGGTTTTTTTAC
1 TGTTTTGGTGCTTTTTTTAC
* *
13501400 TGTTTTTGTTGCTGTTTTTAC
1 TG-TTTTGGTGCTTTTTTTAC
* *
13501421 TATTTTGATG-TTGTTTTTAC
1 TGTTTTGGTGCTT-TTTTTAC
13501441 TGTTTTGGTGCTTTTTTT
1 TGTTTTGGTGCTTTTTTT
13501459 TATAATTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 29 0.60
21 18 0.38
ACGTcount: A:0.06, C:0.06, G:0.20, T:0.67
Consensus pattern (20 bp):
TGTTTTGGTGCTTTTTTTAC
Found at i:13501519 original size:12 final size:12
Alignment explanation
Indices: 13501498--13501616 Score: 84
Period size: 12 Copynumber: 10.2 Consensus size: 12
13501488 TTTTTTACTG
*
13501498 TTTTGGTGTTAT
1 TTTTGCTGTTAT
*
13501510 TTTTACTGTTAT
1 TTTTGCTGTTAT
* * *
13501522 TCTTGTTGCTAT
1 TTTTGCTGTTAT
13501534 TTTTGCTGTTA-
1 TTTTGCTGTTAT
* *
13501545 TTTT-ATGTTGT
1 TTTTGCTGTTAT
* *
13501556 TGTTGCTATT-T
1 TTTTGCTGTTAT
* *
13501567 TTTTGTTGTT-G
1 TTTTGCTGTTAT
13501578 TTTTGCTGTTAT
1 TTTTGCTGTTAT
* *
13501590 ATTTGCTATTAT
1 TTTTGCTGTTAT
*
13501602 TTTTGTTGTTAT
1 TTTTGCTGTTAT
13501614 TTT
1 TTT
13501617 GGTTGTTTAG
Statistics
Matches: 79, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
10 4 0.05
11 24 0.30
12 51 0.65
ACGTcount: A:0.10, C:0.06, G:0.17, T:0.67
Consensus pattern (12 bp):
TTTTGCTGTTAT
Found at i:13517640 original size:16 final size:16
Alignment explanation
Indices: 13517615--13517645 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13517605 TGGTTTCTTA
13517615 TATTTCTTTTGTTTTT
1 TATTTCTTTTGTTTTT
*
13517631 TATTTGTTTTGTTTT
1 TATTTCTTTTGTTTT
13517646 CTGCTTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.10, T:0.81
Consensus pattern (16 bp):
TATTTCTTTTGTTTTT
Found at i:13522082 original size:118 final size:118
Alignment explanation
Indices: 13521874--13522110 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
13521864 TTAAAACCTA
13521874 TAAATACCAAATATGATAAAAGGGGAGTAAGTTGTCATAGAATACTCAAGAAAACAACTCGAAAA
1 TAAATACCAAATATGATAAAAGGGGAGTAAGTTGTCATAGAATACTCAAGAAAACAACTCGAAAA
* *
13521939 ACACCATTGAAGCGGATTTTGAAGCATATTTCCATCAAGATTGAAGATCTCAT
66 ACACCATTAAAGCAGATTTTGAAGCATATTTCCATCAAGATTGAAGATCTCAT
*
13521992 TAAATACCAAATATGATAAGAGGGGAGTAAGTTGTCATAGAATACTCAAGAAAACAACTCGAAAA
1 TAAATACCAAATATGATAAAAGGGGAGTAAGTTGTCATAGAATACTCAAGAAAACAACTCGAAAA
13522057 ACACCATTAAAGCAGATTTTGAAGCATATTTCCATCAAGATTGAAGATCTCAT
66 ACACCATTAAAGCAGATTTTGAAGCATATTTCCATCAAGATTGAAGATCTCAT
13522110 T
1 T
13522111 TTAATTTCTT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (118 bp):
TAAATACCAAATATGATAAAAGGGGAGTAAGTTGTCATAGAATACTCAAGAAAACAACTCGAAAA
ACACCATTAAAGCAGATTTTGAAGCATATTTCCATCAAGATTGAAGATCTCAT
Found at i:13533009 original size:3 final size:3
Alignment explanation
Indices: 13533001--13533027 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13532991 ATTAAAACAA
13533001 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
13533028 ATTGGGTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13538714 original size:34 final size:34
Alignment explanation
Indices: 13538617--13538716 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
13538607 TGTCAATTTT
* *
13538617 ACATACTAA-TTCTTCAGTTTGAAAACTTAAAAC
1 ACATACTAATTTCTTGAGTTTGAAAACTTACAAC
*
13538650 ACATACTAATTTCTTGAGTTTGAAAACTTACAAT
1 ACATACTAATTTCTTGAGTTTGAAAACTTACAAC
* * *
13538684 ACATATTGATTTCTTGAGCTTGAAAACTTACAA
1 ACATACTAATTTCTTGAGTTTGAAAACTTACAA
13538717 AATGAGTTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 9 0.15
34 51 0.85
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (34 bp):
ACATACTAATTTCTTGAGTTTGAAAACTTACAAC
Found at i:13554244 original size:3 final size:3
Alignment explanation
Indices: 13554238--13554262 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13554228 GTGGTGGTTC
13554238 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
13554263 AGTAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:13556477 original size:1 final size:1
Alignment explanation
Indices: 13556471--13556495 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13556461 CAAATTCCCC
13556471 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
13556496 GCCCCCACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13561733 original size:14 final size:14
Alignment explanation
Indices: 13561711--13561740 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13561701 TGAGATACAC
13561711 AAAAGTAAAAAAAA
1 AAAAGTAAAAAAAA
*
13561725 AAAATTAAAAAAAA
1 AAAAGTAAAAAAAA
13561739 AA
1 AA
13561741 GAGAGCTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAAGTAAAAAAAA
Found at i:13562081 original size:5 final size:5
Alignment explanation
Indices: 13562073--13562099 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13562063 CTAGCCTACG
13562073 TCCCT TCCCT TCCCT TCCCT TCCCT TC
1 TCCCT TCCCT TCCCT TCCCT TCCCT TC
13562100 AACTAACCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
TCCCT
Found at i:13573718 original size:17 final size:17
Alignment explanation
Indices: 13573676--13573718 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
13573666 TATTTAATAA
*
13573676 TATTTTTATCTCAAAAG
1 TATTTTTGTCTCAAAAG
*
13573693 TATTTTTTGTTTCAAAAG
1 TA-TTTTTGTCTCAAAAG
13573711 TATTTTTG
1 TATTTTTG
13573719 AGAAGCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (17 bp):
TATTTTTGTCTCAAAAG
Found at i:13588056 original size:6 final size:6
Alignment explanation
Indices: 13588045--13588070 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13588035 GTGGTAATGT
13588045 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
13588071 CACACCACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:13590206 original size:31 final size:31
Alignment explanation
Indices: 13590147--13590209 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
13590137 ATTTATTTGA
* * *
13590147 ATCAAATTAAACTATGAAGTCAAGTTTAGGT
1 ATCAAATTAAACAATGAAGCCAAATTTAGGT
13590178 ATCAAATTAAACAATG-AGACCAAATTTAGGT
1 ATCAAATTAAACAATGAAG-CCAAATTTAGGT
13590209 A
1 A
13590210 CCTAATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (31 bp):
ATCAAATTAAACAATGAAGCCAAATTTAGGT
Found at i:13600574 original size:60 final size:60
Alignment explanation
Indices: 13600501--13600623 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
13600491 TAGATTGGCG
13600501 GAGAGTTAGAGTAAGAGAGTAGTGCAAAGGTAGTTGGAGAGGTAAGGGAGACGGAGTGCT
1 GAGAGTTAGAGTAAGAGAGTAGTGCAAAGGTAGTTGGAGAGGTAAGGGAGACGGAGTGCT
13600561 GAGAGTTAGAGTAAGAGAGTAGTGCAAAGGTAGTTGGAGAGGTAAGGGAGACGGAGTGCT
1 GAGAGTTAGAGTAAGAGAGTAGTGCAAAGGTAGTTGGAGAGGTAAGGGAGACGGAGTGCT
13600621 GAG
1 GAG
13600624 GATAAATGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.33, C:0.05, G:0.44, T:0.18
Consensus pattern (60 bp):
GAGAGTTAGAGTAAGAGAGTAGTGCAAAGGTAGTTGGAGAGGTAAGGGAGACGGAGTGCT
Found at i:13606744 original size:29 final size:28
Alignment explanation
Indices: 13606700--13606773 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
13606690 AATACCCCCA
* *
13606700 ATATATATTTTTAAAATATTTATTTATTT
1 ATATAT-TTTTTAAAATATTAATGTATTT
13606729 ATATATTTTTTGAAAATATTAATGTATTT
1 ATATATTTTTT-AAAATATTAATGTATTT
* *
13606758 TTTTATTTTTTAAAAT
1 ATATATTTTTTAAAAT
13606774 TAGGATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.25
29 30 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
ATATATTTTTTAAAATATTAATGTATTT
Found at i:13609187 original size:9 final size:10
Alignment explanation
Indices: 13609160--13609195 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
13609150 ACCAACCTTC
13609160 GATCGAATTA
1 GATCGAATTA
13609170 GATCG-ATTA
1 GATCGAATTA
13609179 -ATCGAATTA
1 GATCGAATTA
13609188 GATC-AATT
1 GATCGAATT
13609196 CAACCGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.17
9 12 0.50
10 8 0.33
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (10 bp):
GATCGAATTA
Found at i:13609205 original size:18 final size:18
Alignment explanation
Indices: 13609163--13609202 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13609153 AACCTTCGAT
* *
13609163 CGAATTAGATCGATTAAT
1 CGAATTAGATCAATTAAC
13609181 CGAATTAGATCAATTCAAC
1 CGAATTAGATCAATT-AAC
13609200 CGA
1 CGA
13609203 TTAATTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (18 bp):
CGAATTAGATCAATTAAC
Found at i:13631347 original size:129 final size:129
Alignment explanation
Indices: 13631115--13631606 Score: 822
Period size: 129 Copynumber: 3.8 Consensus size: 129
13631105 CCTGAGAGGT
* *
13631115 CTCTTTTAGGTCAGATGCACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
1 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
* *
13631180 AAGTTGGCTGGCATGCCTCGAACTTAAAGCCGGTTGCATCGTAGGTAATCAGATTCTCTTCACC
66 AAGTTGGCTGGCATGCCTCGAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCTTCACC
*
13631244 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTTCTCCAAATCATCCATTAATGAAGAGG
1 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
* *
13631309 AAGTTGGCTGACATGCCTCAAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCTTCACC
66 AAGTTGGCTGGCATGCCTCGAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCTTCACC
* *
13631373 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTCCACCAAATCATCCATTAATGAAGAGG
1 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
* *
13631438 AAGTTGGCTGGCATGCCTTGAACTTAAAGTCGGCTGCATCGTAGGTAATCGGATTCTCTTCACC
66 AAGTTGGCTGGCATGCCTCGAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCTTCACC
* * *
13631502 CTCTTTTATGTCAGATATACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACTGTAGAGG
1 CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
* * * *
13631567 AAGTTGTCAGGCATGCCTCGAACTTAGAGTTGGCTGCATC
66 AAGTTGGCTGGCATGCCTCGAACTTAAAGTCGGCTGCATC
13631607 ATGAGCGATT
Statistics
Matches: 340, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 340 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (129 bp):
CTCTTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGG
AAGTTGGCTGGCATGCCTCGAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCTTCACC
Found at i:13634793 original size:15 final size:17
Alignment explanation
Indices: 13634762--13634794 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
13634752 AAATATAATC
13634762 TTATTTTGTATTGATTT
1 TTATTTTGTATTGATTT
13634779 TTATTTT-TA-TGATTT
1 TTATTTTGTATTGATTT
13634794 T
1 T
13634795 AAAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTATTTTGTATTGATTT
Found at i:13638914 original size:21 final size:20
Alignment explanation
Indices: 13638856--13638915 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
13638846 TTTTATAATT
*
13638856 TATAAAAATTTAATTTAATAA
1 TATAAAAATTT-ATTTAAAAA
*
13638877 TGATAAAATATCT-TTTAAAAA
1 T-ATAAAA-ATTTATTTAAAAA
13638898 TATAAAAATTTGATTTAA
1 TATAAAAATTT-ATTTAA
13638916 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 3 0.09
20 6 0.19
21 14 0.44
22 6 0.19
23 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (20 bp):
TATAAAAATTTATTTAAAAA
Found at i:13643066 original size:16 final size:16
Alignment explanation
Indices: 13643045--13643097 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
13643035 TTACATTCAA
*
13643045 AATTATGTTAACAAAT
1 AATTATATTAACAAAT
* * *
13643061 AATTATTTTGACAAAA
1 AATTATATTAACAAAT
13643077 AATTATATTAACAAAT
1 AATTATATTAACAAAT
13643093 AATTA
1 AATTA
13643098 CTTAACTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (16 bp):
AATTATATTAACAAAT
Found at i:13643113 original size:32 final size:32
Alignment explanation
Indices: 13643043--13643103 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
13643033 TATTACATTC
* * *
13643043 AAAATTATGTTAACAAATAATTATTTTGACAA
1 AAAATTATATTAACAAATAATTATCTTAACAA
13643075 AAAATTATATTAACAAATAATTA-CTTAAC
1 AAAATTATATTAACAAATAATTATCTTAAC
13643104 TAACTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.36
Consensus pattern (32 bp):
AAAATTATATTAACAAATAATTATCTTAACAA
Found at i:13643416 original size:16 final size:17
Alignment explanation
Indices: 13643385--13643419 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13643375 TTTTGTTTTG
13643385 TATTTTCTTATGGAAAA
1 TATTTTCTTATGGAAAA
*
13643402 TATTTT-TTATTGAAAA
1 TATTTTCTTATGGAAAA
13643418 TA
1 TA
13643420 AAGTGTCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
TATTTTCTTATGGAAAA
Found at i:13651349 original size:44 final size:43
Alignment explanation
Indices: 13651281--13651365 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 43
13651271 AAATCACTTT
* * * * *
13651281 ACTTTGGCTTGCACTTGGATTATCCGTCACTTTGGCTTGCACCA
1 ACTTTAGCTTGCACTTAGACTATCCGCCAC-CTGGCTTGCACCA
*
13651325 ACTTTAGCTTGCATTTAGACTATCCGCCACCTGGCTTGCAC
1 ACTTTAGCTTGCACTTAGACTATCCGCCACCTGGCTTGCAC
13651366 TTTTTTGCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 10 0.29
44 25 0.71
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (43 bp):
ACTTTAGCTTGCACTTAGACTATCCGCCACCTGGCTTGCACCA
Found at i:13653586 original size:18 final size:18
Alignment explanation
Indices: 13653552--13653586 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13653542 AATGAAATTA
*
13653552 TTATTATATAATTTTATT
1 TTATTATATAATATTATT
*
13653570 TTATTATATTATATTAT
1 TTATTATATAATATTAT
13653587 ATAATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTATATAATATTATT
Found at i:13669318 original size:6 final size:7
Alignment explanation
Indices: 13669306--13669351 Score: 50
Period size: 6 Copynumber: 7.4 Consensus size: 7
13669296 TGAATTTTGG
13669306 GAAGAGA
1 GAAGAGA
13669313 -AAGAGA
1 GAAGAGA
13669319 GAAGA-A
1 GAAGAGA
13669325 GAAGA-A
1 GAAGAGA
13669331 GAAGA-A
1 GAAGAGA
13669337 GAAGA-A
1 GAAGAGA
13669343 GAAGA-A
1 GAAGAGA
13669349 GAA
1 GAA
13669352 ATGTGAGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (7 bp):
GAAGAGA
Found at i:13669326 original size:3 final size:3
Alignment explanation
Indices: 13669313--13669351 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
13669303 TGGGAAGAGA
13669313 AAG AGAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
13669352 ATGTGAGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13671263 original size:2 final size:2
Alignment explanation
Indices: 13671256--13671294 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13671246 CTCTGCCCCA
13671256 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13671295 GCGTCGGCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13677632 original size:6 final size:6
Alignment explanation
Indices: 13677621--13677763 Score: 54
Period size: 6 Copynumber: 24.3 Consensus size: 6
13677611 TGGTCGTGGG
* * * *
13677621 GGAGGT GGAGGT ---GGT GGCGGT GGCGGT -GAGGGT GGAGGA GGAGGA
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGA-GGT GGAGGT GGAGGT
* * * *
13677666 GGAGGT GGTGGT GGCGGGTAT GGATGG- GGATGG- GGAGGG GGAGGGG
1 GGAGGT GGAGGT GG-AGG--T GGA-GGT GGA-GGT GGAGGT GGA-GGT
* * *
13677712 GGAGGG GGAGGG GGAGG- GGA-G- GG-GGA GGAGGT GGAGGT GGAGGT
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT
13677756 GGAGGT GG
1 GGAGGT GG
13677764 GGGATGGGGT
Statistics
Matches: 116, Mismatches: 7, Indels: 28
0.77 0.05 0.19
Matches are distributed among these distances:
3 3 0.03
4 4 0.03
5 8 0.07
6 86 0.74
7 10 0.09
9 5 0.04
ACGTcount: A:0.15, C:0.02, G:0.71, T:0.12
Consensus pattern (6 bp):
GGAGGT
Found at i:13677703 original size:42 final size:41
Alignment explanation
Indices: 13677657--13677824 Score: 123
Period size: 42 Copynumber: 4.1 Consensus size: 41
13677647 TGAGGGTGGA
*
13677657 GGAGGAGGAGGAGGTGGTGGTGGCGGGTATGGATGGGGATGG
1 GGAGGAGGAGGAGGTGGAGGTGG-GGGTATGGATGGGGATGG
* * *
13677699 GGAGGGGGAGG-GG-GGAGG-GGGAGG--GGGA-GGGGAGGG
1 GGAGGAGGAGGAGGTGGAGGTGGG-GGTATGGATGGGGATGG
* * ** *
13677735 GGAGGAGGTGGAGGTGGAGGTGGAGGTGGGGGATGGGGTTGG
1 GGAGGAGGAGGAGGTGGAGGTGGGGGT-ATGGATGGGGATGG
* * * ** *
13677777 GGAGGAGGAGGAGGAGGTGGTGGTTGGTATAAATGGGGATGT
1 GGAGGAGGAGGAGGTGGAGGTGG-GGGTATGGATGGGGATGG
13677819 GGAGGA
1 GGAGGA
13677825 AGAAAAGCAG
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
36 16 0.16
37 5 0.05
38 8 0.08
39 6 0.06
40 4 0.04
41 6 0.06
42 50 0.51
43 3 0.03
ACGTcount: A:0.18, C:0.01, G:0.67, T:0.14
Consensus pattern (41 bp):
GGAGGAGGAGGAGGTGGAGGTGGGGGTATGGATGGGGATGG
Found at i:13677715 original size:13 final size:13
Alignment explanation
Indices: 13677697--13677736 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
13677687 GGATGGGGAT
13677697 GGGGAGGGGGAGG
1 GGGGAGGGGGAGG
13677710 GGGGAGGGGGA-G
1 GGGGAGGGGGAGG
13677722 GGGGA-GGGGAGG
1 GGGGAGGGGGAGG
13677734 GGG
1 GGG
13677737 AGGAGGTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 11 0.42
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (13 bp):
GGGGAGGGGGAGG
Found at i:13677719 original size:19 final size:17
Alignment explanation
Indices: 13677691--13677739 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 17
13677681 GGGTATGGAT
*
13677691 GGGGATGGGGAGGGGGA
1 GGGGAGGGGGAGGGGGA
13677708 GGGGGGAGGGGGAGGGGGA
1 --GGGGAGGGGGAGGGGGA
13677727 GGGGAGGGGGAGG
1 GGGGAGGGGGAGG
13677740 AGGTGGAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 13 0.45
19 16 0.55
ACGTcount: A:0.16, C:0.00, G:0.82, T:0.02
Consensus pattern (17 bp):
GGGGAGGGGGAGGGGGA
Found at i:13677767 original size:36 final size:37
Alignment explanation
Indices: 13677616--13677796 Score: 113
Period size: 36 Copynumber: 4.9 Consensus size: 37
13677606 GGTGTTGGTC
* * * *
13677616 GTGGGGGAGGTGGAGGTGGTGGCGGTGGCGGT-GAGG
1 GTGGGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGAGG
* * * * *
13677652 GTGGAGGAGGAGGAGGAGGTGGTGGTGGCGG-GTATGG
1 GTGGGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGA-GG
* * * * *
13677689 AT-GGGGATGGGGAGGGGGAGG-GG-GGAGGGGGAGG
1 GTGGGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGAGG
*
13677723 GGGAGGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGA-G
1 GTG-GGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGAGG
* * *
13677760 GTGGGGGATGGGGTTGGGGAGGAGGAGGAGGAGGTGG
1 GTGGGGGA-GGGG--GAGGAGGTGGAGGTGGAGGTGG
13677797 TGGTTGGTAT
Statistics
Matches: 112, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
34 6 0.05
35 4 0.04
36 63 0.56
37 12 0.11
38 8 0.07
39 19 0.17
ACGTcount: A:0.15, C:0.02, G:0.71, T:0.12
Consensus pattern (37 bp):
GTGGGGGAGGGGGAGGAGGTGGAGGTGGAGGTGGAGG
Found at i:13682041 original size:12 final size:12
Alignment explanation
Indices: 13682024--13682080 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
13682014 ATAACATCCA
13682024 AACAACAAAAAC
1 AACAACAAAAAC
* *
13682036 AACAACCAAAAT
1 AACAACAAAAAC
* *
13682048 AGCAGC-AAAAC
1 AACAACAAAAAC
*
13682059 AACAACAAAAAT
1 AACAACAAAAAC
*
13682071 AACAGCAAAA
1 AACAACAAAA
13682081 GCAGCACCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.68, C:0.23, G:0.05, T:0.04
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:13682061 original size:23 final size:23
Alignment explanation
Indices: 13682031--13682095 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
13682021 CCAAACAACA
13682031 AAAACAACAACCAAAATAGCAGC
1 AAAACAACAACCAAAATAGCAGC
* *
13682054 AAAACAACAACAAAAATAACAGC
1 AAAACAACAACCAAAATAGCAGC
*
13682077 AAAAGCAGC-ACCAAAATAG
1 AAAA-CAACAACCAAAATAG
13682096 TAAAAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 33 0.92
24 3 0.08
ACGTcount: A:0.63, C:0.23, G:0.09, T:0.05
Consensus pattern (23 bp):
AAAACAACAACCAAAATAGCAGC
Found at i:13682092 original size:35 final size:35
Alignment explanation
Indices: 13682024--13682092 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
13682014 ATAACATCCA
* *
13682024 AACAACAAAAACAACAACCAAAATAGCAGCAAAAC
1 AACAACAAAAACAACAACCAAAACAGCACCAAAAC
* *
13682059 AACAACAAAAATAAC-AGCAAAAGCAGCACCAAAA
1 AACAACAAAAACAACAACCAAAA-CAGCACCAAAA
13682093 TAGTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.65, C:0.25, G:0.07, T:0.03
Consensus pattern (35 bp):
AACAACAAAAACAACAACCAAAACAGCACCAAAAC
Found at i:13682924 original size:22 final size:20
Alignment explanation
Indices: 13682899--13682949 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
13682889 AATATTATGA
*
13682899 AATAAATATATTTATAAGAATT
1 AATAAATATAATTA-AA-AATT
*
13682921 AATAAATTTAATTAAAAATT
1 AATAAATATAATTAAAAATT
13682941 AATATAATA
1 AATA-AATA
13682950 GGAAACTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AATAAATATAATTAAAAATT
Found at i:13687767 original size:31 final size:31
Alignment explanation
Indices: 13687731--13687791 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
13687721 TTTTTTAAAT
13687731 GTATATGA-TTAAATCAAAATTAAAATTTTAA
1 GTATAT-ATTTAAATCAAAATTAAAATTTTAA
* *
13687762 GTATATATTTGAATCACAATTAAAATTTTA
1 GTATATATTTAAATCAAAATTAAAATTTTA
13687792 TGTGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (31 bp):
GTATATATTTAAATCAAAATTAAAATTTTAA
Found at i:13687769 original size:33 final size:31
Alignment explanation
Indices: 13687723--13687791 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
13687713 TATTTATTTT
*
13687723 TTTTAAATGTATATGATTAAATCAAAATTAAAA
1 TTTTAAATATATAT--TTAAATCAAAATTAAAA
* * *
13687756 TTTTAAGTATATATTTGAATCACAATTAAAA
1 TTTTAAATATATATTTAAATCAAAATTAAAA
13687787 TTTTA
1 TTTTA
13687792 TGTGTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 20 0.62
33 12 0.38
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (31 bp):
TTTTAAATATATATTTAAATCAAAATTAAAA
Found at i:13687831 original size:29 final size:30
Alignment explanation
Indices: 13687779--13687835 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
13687769 TTTGAATCAC
* *
13687779 AATTAAAATTTTATGTGTATAATTACACTG
1 AATTAAAATTTTATATGTACAATTACACTG
13687809 AATTAAAA-TTTATATGTACAATTACAC
1 AATTAAAATTTTATATGTACAATTACAC
13687836 GTTAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTAAAATTTTATATGTACAATTACACTG
Found at i:13687848 original size:31 final size:29
Alignment explanation
Indices: 13687783--13687848 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
13687773 AATCACAATT
* * * *
13687783 AAAATTTTATGTGTATAATTACACTGAATT
1 AAAA-TTTATATGTACAATTACACTAAATC
13687813 AAAATTTATATGTACAATTACACGTTAAATC
1 AAAATTTATATGTACAATTACAC--TAAATC
13687844 AAAAT
1 AAAAT
13687849 CAATTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 17 0.57
30 4 0.13
31 9 0.30
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (29 bp):
AAAATTTATATGTACAATTACACTAAATC
Found at i:13693097 original size:14 final size:14
Alignment explanation
Indices: 13693078--13693107 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13693068 CTTAAGCTCT
*
13693078 AAAAGATAAATCTA
1 AAAAGATAAATATA
13693092 AAAAGATAAATATA
1 AAAAGATAAATATA
13693106 AA
1 AA
13693108 TTAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:13694584 original size:31 final size:30
Alignment explanation
Indices: 13694544--13694755 Score: 137
Period size: 31 Copynumber: 6.9 Consensus size: 30
13694534 AAGGAAAAAT
* **
13694544 GGGGGTAAAATTAAAATTTTGGAAAGTTTTA
1 GGGGTTAAAA-TAAAATTTTAAAAAGTTTTA
* * * *
13694575 GGGGTTAAAATGTAACTTTCTAGAAAGTTTGA
1 GGGGTTAAAAT-AAAATTT-TAAAAAGTTTTA
** *
13694607 -GGGTTAAAATATATTTTTTAAAAAG-TTTC
1 GGGGTTAAAATA-AAATTTTAAAAAGTTTTA
* **
13694636 GGGGTTAAAATAAAATTTTTAAAAAGATCGA
1 GGGGTTAAAATAAAA-TTTTAAAAAGTTTTA
* * *
13694667 -GGGTCAAAAATGAAATTTTAGAAAG-TTTA
1 GGGGT-TAAAATAAAATTTTAAAAAGTTTTA
13694696 GGGGTTAAAAAATAAAATTTTAAAAA-TTTTA
1 GGGGTT--AAAATAAAATTTTAAAAAGTTTTA
* * *
13694727 GGAGTTAAAAATGAATTTTTAAAAAGTTT
1 GGGGTT-AAAATAAAATTTTAAAAAGTTT
13694756 GAGGTTAAAT
Statistics
Matches: 142, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
29 5 0.04
30 62 0.44
31 65 0.46
32 10 0.07
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.35
Consensus pattern (30 bp):
GGGGTTAAAATAAAATTTTAAAAAGTTTTA
Found at i:13694634 original size:30 final size:31
Alignment explanation
Indices: 13694549--13694777 Score: 167
Period size: 30 Copynumber: 7.6 Consensus size: 31
13694539 AAAATGGGGG
* ** *
13694549 TAAAAT-TAAAATTTTGGAAAGTTTTAGGGGT
1 TAAAATATAAATTTTTAAAAAGTTTGA-GGGT
* * * *
13694580 TAAAATGTAACTTTCTAGAAAGTTTGAGGGT
1 TAAAATATAAATTTTTAAAAAGTTTGAGGGT
*
13694611 TAAAATAT-ATTTTTTAAAAAGTTTCG-GGGT
1 TAAAATATAAATTTTTAAAAAGTTT-GAGGGT
* *
13694641 TAAAATA-AAATTTTTAAAAAGATCGAGGGT
1 TAAAATATAAATTTTTAAAAAGTTTGAGGGT
* *
13694671 CAAAA-ATGAAA-TTTTAGAAAGTTT-AGGGGT
1 TAAAATAT-AAATTTTTAAAAAGTTTGA-GGGT
* * *
13694701 TAAAAAATAAAATTTTAAAAA-TTTTAGGAGT
1 TAAAATATAAATTTTTAAAAAGTTTGAGG-GT
*
13694732 TAAAA-ATGAATTTTTAAAAAGTTTGA-GGT
1 TAAAATATAAATTTTTAAAAAGTTTGAGGGT
*
13694761 T-AAATAT-AATTTCTAAA
1 TAAAATATAAATTTTTAAA
13694778 TAAAATAGGG
Statistics
Matches: 163, Mismatches: 22, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
28 12 0.07
29 8 0.05
30 85 0.52
31 43 0.26
32 15 0.09
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (31 bp):
TAAAATATAAATTTTTAAAAAGTTTGAGGGT
Found at i:13698108 original size:16 final size:16
Alignment explanation
Indices: 13698079--13698111 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13698069 AATTTTATGC
13698079 ATAATACCACCAAAAA
1 ATAATACCACCAAAAA
13698095 ATAACTACCA-CAAAAA
1 ATAA-TACCACCAAAAA
13698111 A
1 A
13698112 AATGCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (16 bp):
ATAATACCACCAAAAA
Found at i:13698112 original size:17 final size:16
Alignment explanation
Indices: 13698079--13698112 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13698069 AATTTTATGC
*
13698079 ATAATACCACCAAAAA
1 ATAATACCACAAAAAA
13698095 ATAACTACCACAAAAAA
1 ATAA-TACCACAAAAAA
13698112 A
1 A
13698113 ATGCATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (16 bp):
ATAATACCACAAAAAA
Found at i:13704086 original size:57 final size:57
Alignment explanation
Indices: 13704027--13704220 Score: 212
Period size: 57 Copynumber: 3.4 Consensus size: 57
13704017 AATACGAATA
* * * *
13704027 AAAAATA-TTTTTTGGGTGTTTACCACCCAATGGCCTACATCAAC-TTTCCCAAATTT
1 AAAAATATTTTTTTGGGTGTTTGCCACCAAATGACTTACATC-ACTTTTCCCAAATTT
* * * **
13704083 AAAAATATTTTTCTTGAGTGTTTGCCACCTAATAACTTACATCACTTTTCTAAAATTT
1 AAAAATATTTTT-TTGGGTGTTTGCCACCAAATGACTTACATCACTTTTCCCAAATTT
* * * * *
13704141 AAAAATATTTTTTTTGGTGTTTGCTACCAAATGACTTACACCACTTTTTCCATATTT
1 AAAAATATTTTTTTGGGTGTTTGCCACCAAATGACTTACATCACTTTTCCCAAATTT
* *
13704198 AAAAATATTTGTTTCGGTGTTTG
1 AAAAATATTTTTTTGGGTGTTTG
13704221 TCATCCAATA
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
56 7 0.06
57 62 0.54
58 46 0.40
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (57 bp):
AAAAATATTTTTTTGGGTGTTTGCCACCAAATGACTTACATCACTTTTCCCAAATTT
Found at i:13704238 original size:57 final size:56
Alignment explanation
Indices: 13704027--13704247 Score: 139
Period size: 57 Copynumber: 3.9 Consensus size: 56
13704017 AATACGAATA
* * * * * * * *
13704027 AAAAATATTT-TTTGGGTGTTTACCACCCAATGGCCTACATCA-ACTTTCCCAAATTT
1 AAAAATATTTGTTTCGGTGTTTGCTACCAAAT-ACCTACACCACA-TTTTCCATATTT
* * * * * * *
13704083 AAAAATATTT-TTCTTGAGTGTTTGCCACCTAATAACTTACATCAC-TTTTCTAAAATTT
1 AAAAATATTTGTT-TCG-GTGTTTGCTACCAAAT-ACCTACACCACATTTTC-CATATTT
* * * *
13704141 AAAAATATTTTTTTTGGTGTTTGCTACCAAATGACTTACACCACTTTTTCCATATTT
1 AAAAATATTTGTTTCGGTGTTTGCTACCAAAT-ACCTACACCACATTTTCCATATTT
13704198 AAAAATATTTGTTTCGGTGTTTG-TCATCC-AATATCCTACACCACATTTTC
1 AAAAATATTTGTTTCGGTGTTTGCT-A-CCAAATA-CCTACACCACATTTTC
13704248 AAAATTTTAA
Statistics
Matches: 138, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 14 0.10
57 74 0.54
58 48 0.35
59 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (56 bp):
AAAAATATTTGTTTCGGTGTTTGCTACCAAATACCTACACCACATTTTCCATATTT
Found at i:13704247 original size:115 final size:114
Alignment explanation
Indices: 13704027--13704260 Score: 253
Period size: 115 Copynumber: 2.0 Consensus size: 114
13704017 AATACGAATA
* *
13704027 AAAAATATTTTTTGGGTGTTTACCACCCAATGGCCTACATCAACTTTCCCAAATTTAAAAATATT
1 AAAAATATTTTTTGGGTGTTTACCACCAAATGACCTACATCAACTTTCCCAAATTTAAAAATATT
* * *
13704092 TTTCTTGAGTGTTTGCCACCTAATAACTTACATCACTTTTCTAAAA-TTT
66 TTTCTCGAGTGTTTGCCACCTAATAACCTACACCACTTTTC-AAAATTTT
* * * * * * *
13704141 AAAAATATTTTTTTTGGTGTTTGCTACCAAATGACTTACA-CCACTTTTTCCATATTTAAAAATA
1 AAAAATA-TTTTTTGGGTGTTTACCACCAAATGACCTACATCAAC-TTTCCCAAATTTAAAAATA
* *
13704205 TTTGTT-TCG-GTGTTTGTCATCC-AATATCCTACACCACATTTTCAAAATTTT
64 TTT-TTCTCGAGTGTTTGCCA-CCTAATAACCTACACCAC-TTTTCAAAATTTT
13704256 AAAAA
1 AAAAA
13704261 AATAATTAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
114 35 0.35
115 63 0.63
116 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.41
Consensus pattern (114 bp):
AAAAATATTTTTTGGGTGTTTACCACCAAATGACCTACATCAACTTTCCCAAATTTAAAAATATT
TTTCTCGAGTGTTTGCCACCTAATAACCTACACCACTTTTCAAAATTTT
Found at i:13704285 original size:27 final size:25
Alignment explanation
Indices: 13704254--13704326 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 25
13704244 TTTCAAAATT
13704254 TTAAAAAAATAATTAAATTTTAAATAA
1 TTAAAAAAATAATTAAATTTT--ATAA
*
13704281 TT-AAAACATAATTTAAAAATTTTATAA
1 TTAAAAAAATAA-TT--AAATTTTATAA
13704308 TTAAATTAAAATAATTAAA
1 TTAAA--AAAATAATTAAA
13704327 AAATAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
26 8 0.21
27 13 0.34
28 2 0.05
29 9 0.24
30 6 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
TTAAAAAAATAATTAAATTTTATAA
Found at i:13704326 original size:41 final size:42
Alignment explanation
Indices: 13704262--13704359 Score: 141
Period size: 41 Copynumber: 2.4 Consensus size: 42
13704252 TTTTAAAAAA
* *
13704262 ATAATTAAATTTTAAATAATTAAAACATAATTTAAA-AATTTT
1 ATAATTAAA-TTAAAATAATTAAAAAATAATTTAAATAATTTT
13704304 ATAATTAAATTAAAATAATTAAAAAATAATTTAAATAATTTT
1 ATAATTAAATTAAAATAATTAAAAAATAATTTAAATAATTTT
13704346 -T--TTAAATTAAAATA
1 ATAATTAAATTAAAATA
13704360 TTACAATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
39 13 0.25
41 25 0.47
42 15 0.28
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (42 bp):
ATAATTAAATTAAAATAATTAAAAAATAATTTAAATAATTTT
Found at i:13704329 original size:30 final size:29
Alignment explanation
Indices: 13704268--13704343 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 29
13704258 AAAAATAATT
*
13704268 AAATTTTAAATAATTAAAACATAATTTAA
1 AAATTTTAAATAATTAAAACATAATTAAA
13704297 AAATTTTATAATTAAATT-AAA-ATAATTAAA
1 AAATTTTA-AA-T-AATTAAAACATAATTAAA
13704327 AAATAATTTAAATAATT
1 AAAT--TTTAAATAATT
13704344 TTTTTAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 12 0.29
30 15 0.37
31 6 0.15
32 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATTTTAAATAATTAAAACATAATTAAA
Found at i:13704338 original size:21 final size:21
Alignment explanation
Indices: 13704269--13704343 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 21
13704259 AAAATAATTA
* *
13704269 AATTTTAAATAATTAAAACAT
1 AATTTAAAATAATTAAAAAAT
* * * *
13704290 AATTTAAAA-ATTTTATAATT
1 AATTTAAAATAATTAAAAAAT
*
13704310 AAATTAAAATAATTAAAAAAT
1 AATTTAAAATAATTAAAAAAT
13704331 AATTT-AAATAATT
1 AATTTAAAATAATT
13704344 TTTTTAAATT
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
20 22 0.54
21 19 0.46
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTAAAATAATTAAAAAAT
Done.