Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 110 of 199
Found at i:36527059 original size:14 final size:15
Alignment explanation
Indices: 36527035--36527104 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
36527025 TATTATTGAA
36527035 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
36527048 TAATATTTTAATAAT
1 AAATATTTTAATAAT
36527063 AAATATTTATTACA-ATAT
1 AAATA-TT-TTA-ATA-AT
*
36527081 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
36527096 AAATGTTTT
1 AAATATTTT
36527105 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 16 0.36
16 6 0.13
17 5 0.11
18 8 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:36529453 original size:3 final size:3
Alignment explanation
Indices: 36529445--36529481 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
36529435 AAATCTTTCC
36529445 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
36529482 CAAATCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36531993 original size:43 final size:43
Alignment explanation
Indices: 36531915--36532047 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
36531905 AGCATGTTAT
* * * * *
36531915 GGCGTTTGTAGCTAGAAGCGTCGCAAAAGATCATGTTCTTTAGC
1 GGCGTTTGTAG-TAAAAGCGCCACTAAAGAACATGTTCTTTAGC
36531959 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
** ** * *
36532002 GGCGTTT-TTTTCTAAGCGCCTCTAAAGAACATGTTCTTTAGT
1 GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
36532044 GGCG
1 GGCG
36532048 CTTTTTCTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 33 0.42
43 34 0.44
44 11 0.14
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
GGCGTTTGTAGTAAAAGCGCCACTAAAGAACATGTTCTTTAGC
Found at i:36532070 original size:43 final size:42
Alignment explanation
Indices: 36531940--36532072 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 42
36531930 AAGCGTCGCA
* ** **
36531940 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCGCCACT
1 AAAGAACATGTTCTTTAGCGGCGTTT-TTTTCTAAGCGCCACT
*
36531983 AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCTCT
1 AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCACT
* * *
36532025 AAAGAACATGTTCTTTAGTGGCGCTTTTTCTT-TGAGCGCCGCT
1 AAAGAACATGTTCTTTAGCGGCG-TTTTT-TTCTAAGCGCCACT
36532068 AAAGA
1 AAAGA
36532073 TTATATTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 33 0.42
43 44 0.56
44 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
AAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCACT
Found at i:36532447 original size:21 final size:21
Alignment explanation
Indices: 36532423--36532462 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36532413 TTCTTTTGAA
*
36532423 CCTCTGCTTCTCTCCCTGCAG
1 CCTCTGCTTCCCTCCCTGCAG
*
36532444 CCTCTGCTTCCCTCGCTGC
1 CCTCTGCTTCCCTCCCTGC
36532463 CGCATCTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.50, G:0.15, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCCCTGCAG
Found at i:36535825 original size:28 final size:28
Alignment explanation
Indices: 36535785--36535838 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
36535775 ATGTGATAGT
36535785 CATGTGATTTTAGCGAATATAATCTTTA
1 CATGTGATTTTAGCGAATATAATCTTTA
36535813 CATGTGATTTTAGCGAATATAATCTT
1 CATGTGATTTTAGCGAATATAATCTT
36535839 CAATCTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (28 bp):
CATGTGATTTTAGCGAATATAATCTTTA
Found at i:36537963 original size:9 final size:9
Alignment explanation
Indices: 36537937--36538189 Score: 263
Period size: 9 Copynumber: 27.8 Consensus size: 9
36537927 ATTTGCACGG
36537937 GTAAGTTAT
1 GTAAGTTAT
* *
36537946 TTAATTTAT
1 GTAAGTTAT
36537955 GTAAGTTAT
1 GTAAGTTAT
36537964 GTAAGTTAT
1 GTAAGTTAT
* *
36537973 TTAATTTAT
1 GTAAGTTAT
*
36537982 GTAGGTTAT
1 GTAAGTTAT
* *
36537991 GTAAGTCCAC
1 GTAAGT-TAT
* *
36538001 GGAATTTAT
1 GTAAGTTAT
36538010 GTAAGTTAT
1 GTAAGTTAT
36538019 GTAAGTTAT
1 GTAAGTTAT
* *
36538028 TTAATTTAT
1 GTAAGTTAT
36538037 GTAAGTTAT
1 GTAAGTTAT
36538046 GTAAGTTAT
1 GTAAGTTAT
* *
36538055 TTAATTTAT
1 GTAAGTTAT
*
36538064 GTAGGTTAT
1 GTAAGTTAT
36538073 GTAAGTTAT
1 GTAAGTTAT
* *
36538082 TTAATTTAT
1 GTAAGTTAT
*
36538091 GCAAGTTTAT
1 GTAAG-TTAT
36538101 GTAAGTTAT
1 GTAAGTTAT
* *
36538110 TTAATTTAT
1 GTAAGTTAT
*
36538119 GCAAGTTTAT
1 GTAAG-TTAT
36538129 GTAAGTTAT
1 GTAAGTTAT
36538138 GTAAGTTAT
1 GTAAGTTAT
* *
36538147 TTAATTTAT
1 GTAAGTTAT
36538156 GTAAGTTAT
1 GTAAGTTAT
36538165 GTAAGTTAT
1 GTAAGTTAT
* *
36538174 TTAATTTAT
1 GTAAGTTAT
36538183 GTAAGTT
1 GTAAGTT
36538190 TCTATATATG
Statistics
Matches: 193, Mismatches: 48, Indels: 6
0.78 0.19 0.02
Matches are distributed among these distances:
9 172 0.89
10 21 0.11
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:36537975 original size:27 final size:27
Alignment explanation
Indices: 36537937--36538333 Score: 348
Period size: 27 Copynumber: 14.3 Consensus size: 27
36537927 ATTTGCACGG
36537937 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
36537964 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* ***
36537991 GTAAGTCCACGGAATTTATGTAAGTTAT
1 GTAAGT-TATTTAATTTATGTAAGTTAT
36538019 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
36538046 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
36538073 GTAAGTTATTTAATTTATGCAAGTTTAT
1 GTAAGTTATTTAATTTATGTAAG-TTAT
36538101 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTAT
1 GTAAGTTATTTAATTTAT----G--TA----AGTTAT
36538138 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
36538165 GTAAGTTATTTAATTTATGTAAGTTTCTAT
1 GTAAGTTATTTAATTTATGTAAG--T-TAT
* * * *
36538195 ATATGTT-TATATATTGTATGTTAGTTAT
1 GTAAGTTATTTA-ATT-TATGTAAGTTAT
* * * *
36538223 -TATGTTA-TT-ATATAAGTTA-TTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* * *
36538246 GTTA-TTATATAAAGTATTATGTAATTTAT
1 GTAAGTTAT-TTAA-T-TTATGTAAGTTAT
*
36538275 -TATGTTA-TT-A--TATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
36538297 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
36538324 GCAAGCTTAT
1 GTAAG-TTAT
36538334 ATACAAGTTA
Statistics
Matches: 305, Mismatches: 33, Indels: 63
0.76 0.08 0.16
Matches are distributed among these distances:
22 11 0.04
23 13 0.04
24 9 0.03
25 4 0.01
26 2 0.01
27 150 0.49
28 57 0.19
29 12 0.04
30 11 0.04
31 9 0.03
32 1 0.00
33 1 0.00
34 1 0.00
37 22 0.07
38 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (27 bp):
GTAAGTTATTTAATTTATGTAAGTTAT
Found at i:36538226 original size:12 final size:12
Alignment explanation
Indices: 36538226--36538296 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 12
36538216 TAGTTATTAT
*
36538226 GTTATTATATAA
1 GTTATTATGTAA
*
36538238 GTTATTATGTTA
1 GTTATTATGTAA
*
36538250 -TTA-TAT-AAA
1 GTTATTATGTAA
36538259 G-TATTATGTAA
1 GTTATTATGTAA
* *
36538270 TTTATTATGTTA
1 GTTATTATGTAA
36538282 -TTA-TATGTAA
1 GTTATTATGTAA
36538292 GTTAT
1 GTTAT
36538297 GTAAGTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
9 3 0.07
10 12 0.27
11 11 0.24
12 19 0.42
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (12 bp):
GTTATTATGTAA
Found at i:36538242 original size:20 final size:20
Alignment explanation
Indices: 36538217--36538285 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
36538207 ATTGTATGTT
36538217 AGTTATTATGTTATTATATA
1 AGTTATTATGTTATTATATA
36538237 AGTTATTATGTTATTATATAA
1 AGTTATTATGTTATTATAT-A
*
36538258 AG-TATTATGTAATT-TATTA
1 AGTTATTATGTTATTATA-TA
*
36538277 TGTTATTAT
1 AGTTATTAT
36538286 ATGTAAGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.09
20 37 0.84
21 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
AGTTATTATGTTATTATATA
Found at i:36538249 original size:32 final size:31
Alignment explanation
Indices: 36538211--36538306 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 31
36538201 TTATATATTG
*
36538211 TATGTTAGTTATTATGTTATTATATAAGTTAT
1 TATGTTA-TTATTATGTTATTATGTAAGTTAT
* *
36538243 TATGTTATTATATAAAG-TATTATGTAATTTAT
1 TATGTTATTAT-T-ATGTTATTATGTAAGTTAT
*
36538275 TATGTTATTA-TATGTAAGTTATGTAAGTTAT
1 TATGTTATTATTATGTTA-TTATGTAAGTTAT
36538306 T
1 T
36538307 TAATTTATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 17 0.31
32 31 0.57
33 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (31 bp):
TATGTTATTATTATGTTATTATGTAAGTTAT
Found at i:36538291 original size:22 final size:23
Alignment explanation
Indices: 36538263--36538431 Score: 74
Period size: 22 Copynumber: 7.6 Consensus size: 23
36538253 TATAAAGTAT
* *
36538263 TATGTAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAAGTTATTA
36538285 TATGTAAGTTATGTAAGTTATTTAA
1 TATGTAAGTTATGTAAGTTA-TT-A
*
36538310 TTTATGTAAGTTATGCAAGCTTA-TA
1 --TATGTAAGTTATGTAAG-TTATTA
* *
36538335 TA--CAAGTTATGT-A-TTATAA
1 TATGTAAGTTATGTAAGTTATTA
* * *
36538354 CAT-AAAGTATTATGTAATTTA-T-
1 TATGTAAG--TTATGTAAGTTATTA
* * *
36538376 TATGTTATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAAGTTATTA
* *
36538398 TATATAAGTTATGTAAATTA-T-
1 TATGTAAGTTATGTAAGTTATTA
36538419 TATGTAAGTTATG
1 TATGTAAGTTATG
36538432 CAAGCTTAAA
Statistics
Matches: 110, Mismatches: 21, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
18 3 0.03
19 2 0.02
20 9 0.08
21 25 0.23
22 29 0.26
23 15 0.14
24 5 0.05
25 2 0.02
26 1 0.01
27 16 0.15
28 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (23 bp):
TATGTAAGTTATGTAAGTTATTA
Found at i:36538299 original size:9 final size:9
Alignment explanation
Indices: 36538285--36538347 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
36538275 TATGTTATTA
36538285 TATGTAAGT
1 TATGTAAGT
36538294 TATGTAAGT
1 TATGTAAGT
* *
36538303 TATTTAATT
1 TATGTAAGT
36538312 TATGTAAGT
1 TATGTAAGT
*
36538321 TATGCAAGCT
1 TATGTAAG-T
*
36538331 TATATACAAGT
1 TATGT--AAGT
36538342 TATGTA
1 TATGTA
36538348 TTATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.72
10 4 0.09
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:36538377 original size:113 final size:107
Alignment explanation
Indices: 36538260--36538459 Score: 301
Period size: 107 Copynumber: 1.8 Consensus size: 107
36538250 TTATATAAAG
*
36538260 TATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATG
1 TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAA---A-TT-A-TTATGTAAGTTATG
* *
36538325 CAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATT
60 CAAGCTTAAATACAACTTATGTATTATAACATAAAGTATTATGTAATT
*
36538373 TATTATGTTATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
1 TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
*
36538438 TAAATATAACTTATGTATTATA
66 TAAATACAACTTATGTATTATA
36538460 TAAGTTTTGT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 39 0.48
108 1 0.01
109 2 0.02
110 1 0.01
113 39 0.48
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (107 bp):
TATTATGTAATTTATTATGTTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCT
TAAATACAACTTATGTATTATAACATAAAGTATTATGTAATT
Found at i:36538393 original size:12 final size:12
Alignment explanation
Indices: 36538361--36538396 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
36538351 TAACATAAAG
*
36538361 TATTATGTAATT
1 TATTATGTTATT
36538373 TATTATGTTATT
1 TATTATGTTATT
36538385 TATTATGTTATT
1 TATTATGTTATT
36538397 ATATATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
TATTATGTTATT
Found at i:36538570 original size:61 final size:61
Alignment explanation
Indices: 36538495--36538640 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 61
36538485 TGTATTATGT
* * * ***
36538495 AACTTATGTAGAAAACTTATAAAATTAATAC-ACATAAATTTTATTTCTCCCAAATTTAGAA
1 AACTTATTTAGAAAACTTATAAAATTAATACTA-ATAAATTTTAATACAAACAAATTTAGAA
* ** * *
36538556 CACTTATTTAGAAAACGAAGTAAATTTAATACTAATAAATTTTAATACAAATAAATTTAGAA
1 AACTTATTTAGAAAACTTA-TAAAATTAATACTAATAAATTTTAATACAAACAAATTTAGAA
*
36538618 AATTTATTTAGAAAACTTATAAA
1 AACTTATTTAGAAAACTTATAAA
36538641 TTTAGAAAAC
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
61 19 0.28
62 48 0.71
63 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (61 bp):
AACTTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATACAAACAAATTTAGAA
Found at i:36538601 original size:16 final size:16
Alignment explanation
Indices: 36538576--36538613 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
36538566 GAAAACGAAG
*
36538576 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
36538591 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
36538607 TAAATTT
1 TAAATTT
36538614 AGAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:36538645 original size:17 final size:17
Alignment explanation
Indices: 36538606--36538655 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
36538596 TTTAATACAA
36538606 ATAAATTTAGAAAA-TT
1 ATAAATTTAGAAAACTT
36538622 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
36538636 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
36538653 ATA
1 ATA
36538656 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.33
14 2 0.07
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:36539689 original size:27 final size:29
Alignment explanation
Indices: 36539635--36539689 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
36539625 TAATTATCAC
*
36539635 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
36539665 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
36539690 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:36542131 original size:36 final size:35
Alignment explanation
Indices: 36542091--36542158 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
36542081 AGATTAACTA
* *
36542091 TAAACCCCTAAACCCATAACCCCCAACCTTTAACCC
1 TAAACCCATAAACCCATAA-CCCCAACCCTTAACCC
* *
36542127 TAAACCCATGAACCCTTAACCCCAACCCTTAA
1 TAAACCCATAAACCCATAACCCCAACCCTTAA
36542159 ACCATAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.18
Consensus pattern (35 bp):
TAAACCCATAAACCCATAACCCCAACCCTTAACCC
Found at i:36542132 original size:14 final size:14
Alignment explanation
Indices: 36542096--36542165 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
36542086 AACTATAAAC
36542096 CCCTAAACCCATAA
1 CCCTAAACCCATAA
** **
36542110 CCCCCAACCTTTAA
1 CCCTAAACCCATAA
36542124 CCCTAAACCCATGAA
1 CCCTAAACCCAT-AA
* *
36542139 CCCTTAACCC-CAA
1 CCCTAAACCCATAA
36542152 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
36542166 TCCATAAGCC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
13 7 0.17
14 23 0.56
15 11 0.27
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCATAA
Found at i:36542153 original size:28 final size:28
Alignment explanation
Indices: 36542096--36542165 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
36542086 AACTATAAAC
**
36542096 CCCTAAACCCATAACCCCCAACCTTTAA
1 CCCTAAACCCATAACCCCCAACCTCCAA
**
36542124 CCCTAAACCCATGAACCCTTAACC-CCAA
1 CCCTAAACCCAT-AACCCCCAACCTCCAA
36542152 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
36542166 TCCATAAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.06
28 21 0.58
29 13 0.36
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (28 bp):
CCCTAAACCCATAACCCCCAACCTCCAA
Found at i:36542346 original size:15 final size:15
Alignment explanation
Indices: 36542326--36542388 Score: 69
Period size: 15 Copynumber: 4.4 Consensus size: 15
36542316 ATTAACTATA
*
36542326 AACCCCTAAACCCCT
1 AACCCCTAAACCCTT
* *
36542341 AACCCC--AGCCTTT
1 AACCCCTAAACCCTT
*
36542354 AA-CCCTTAACCCTT
1 AACCCCTAAACCCTT
36542368 AACCCCTAAACCCTT
1 AACCCCTAAACCCTT
36542383 AACCCC
1 AACCCC
36542389 AATCCTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 7 0.18
15 23 0.59
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCCTAAACCCTT
Found at i:36542360 original size:8 final size:7
Alignment explanation
Indices: 36542352--36542387 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
36542342 ACCCCAGCCT
36542352 TTAACCC
1 TTAACCC
36542359 TTAACCC
1 TTAACCC
36542366 TTAACCCC
1 TTAA-CCC
*
36542374 TAAACCC
1 TTAACCC
36542381 TTAACCC
1 TTAACCC
36542388 CAATCCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (7 bp):
TTAACCC
Found at i:36542414 original size:42 final size:42
Alignment explanation
Indices: 36542318--36542418 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
36542308 CATAAAACAT
* * *
36542318 TAACTATAAACCCCTAAACCCCTAACCCCAGCCTTTAACCCT
1 TAACCATAAACCCCTAAACCCCTAACCCCAGCCTTTAAACCA
* * * *
36542360 TAACCCTTAACCCCTAAACCCTTAACCCCAATCC-TTAAACCA
1 TAACCATAAACCCCTAAACCCCTAACCCC-AGCCTTTAAACCA
*
36542402 TATCCATAAACCCCTAA
1 TAACCATAAACCCCTAA
36542419 CCCATATCCC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.22
Consensus pattern (42 bp):
TAACCATAAACCCCTAAACCCCTAACCCCAGCCTTTAAACCA
Found at i:36542472 original size:233 final size:232
Alignment explanation
Indices: 36542041--36542472 Score: 613
Period size: 233 Copynumber: 1.9 Consensus size: 232
36542031 ATAATGCCTA
* *
36542041 AACCCTTAACCCATATCCCCTGAACATATTGAATCATAAAAGATTAACTATAAACCCCTAAACCC
1 AACCCTTAACCCATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCC
* *
36542106 ATAACCCCCAACCTTTAACCCTAAACCCATGAACCCTTAACCCCAACCCTTAAACCATAATCCAT
66 ATAACCCCCAACCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATAATCCAT
* * * * *
36542171 AAGCCTCTAACCCATATCCCTTAAACCTTGAATCGTAGAACATAAATATATAAACTATAAACCCC
131 AAACCCCTAACCCATATCCCTTAAACCGTAAATC-TAGAACAGAAATATATAAACTATAAACCCC
36542236 TAAATCCAAAACTTATAAATCATAAACCCCTAACTCGT
195 TAAATCCAAAACTTATAAATCATAAACCCCTAACTCGT
*
36542274 AACCTTTAACCCATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCC
1 AACCCTTAACCCATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCC
* * * *
36542339 CTAACCCCAGCCTTTAACCCTTAACCCTTAACCCCTAAACCCTTAACCCCAATCCTTAAACCAT-
66 ATAA-CCC--CC---AACCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATA
* * *
36542403 ATCCATAAACCCCTAACCCATATCCCTTAAACCGTAAAT-TA-AA-GGACATATATAAATTATAA
125 ATCCATAAACCCCTAACCCATATCCCTTAAACCGTAAATCTAGAACAGAAATATATAAACTATAA
36542465 A-CCCTAAA
190 ACCCCTAAA
36542473 CCCTGATTCA
Statistics
Matches: 176, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
233 72 0.41
234 19 0.11
235 2 0.01
236 4 0.02
238 35 0.20
239 44 0.25
ACGTcount: A:0.41, C:0.33, G:0.03, T:0.24
Consensus pattern (232 bp):
AACCCTTAACCCATATCCCCTAAACATATTGAATCATAAAACATTAACTATAAACCCCTAAACCC
ATAACCCCCAACCCTTAACCCTAAACCCATAAACCCTTAACCCCAACCCTTAAACCATAATCCAT
AAACCCCTAACCCATATCCCTTAAACCGTAAATCTAGAACAGAAATATATAAACTATAAACCCCT
AAATCCAAAACTTATAAATCATAAACCCCTAACTCGT
Found at i:36543346 original size:114 final size:113
Alignment explanation
Indices: 36543072--36543357 Score: 279
Period size: 114 Copynumber: 2.5 Consensus size: 113
36543062 ATTTTTAGAC
* * * * * *
36543072 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGAAAACGACATCATTTTCTTAACAGTTTTGCGGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGGCAACGTTTTCTTAACAGTCTTGCAGC
* ** *
36543137 ACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCTGAA
65 ACTTATGATAAAGCGCCACTAAAGCTTAACTACTACGGCGTTTTCTCAA
* * * ** * *
36543186 AATCGCCACTAACGTCTCGAAAAGATAAATGAAAAAGGGCAACGTTTTCTTAATAGTCTTGCAGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAATG-AAAACGGCAACGTTTTCTTAACAGTCTTGCAGC
* * ** *
36543251 GCTTATGATAAAGCGCCGCTAATTCTTAACTA-TAGCGGCGTTTT-TCATT
65 ACTTATGATAAAGCGCCACTAAAGCTTAACTACTA-CGGCGTTTTCTCA-A
* * *
36543300 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGGTAGCGTTTTTCTTAACAGT
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGGCAACG-TTTTCTTAACAGT
36543358 TTTTGCGGCA
Statistics
Matches: 136, Mismatches: 31, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
113 6 0.04
114 116 0.85
115 14 0.10
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (113 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAACGGCAACGTTTTCTTAACAGTCTTGCAGCA
CTTATGATAAAGCGCCACTAAAGCTTAACTACTACGGCGTTTTCTCAA
Found at i:36543931 original size:21 final size:21
Alignment explanation
Indices: 36543907--36543954 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36543897 ATTTTCTTGT
*
36543907 TGCCTCTG-TTGCCCTTGCTGC
1 TGCCTCTGCTT-CCCTCGCTGC
*
36543928 TGCCTCTGCTTCCCTCGCTGT
1 TGCCTCTGCTTCCCTCGCTGC
36543949 TGCCTC
1 TGCCTC
36543955 CCCTTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.00, C:0.42, G:0.21, T:0.38
Consensus pattern (21 bp):
TGCCTCTGCTTCCCTCGCTGC
Found at i:36549552 original size:25 final size:25
Alignment explanation
Indices: 36549519--36549572 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
36549509 CGGATGGGAA
36549519 AAAAAACTAAGTTAGGG-ATTTAGGG
1 AAAAAACTAAGTT-GGGTATTTAGGG
*
36549544 AAAAAACTAAGTTGGGTATTTGGGG
1 AAAAAACTAAGTTGGGTATTTAGGG
36549569 AAAA
1 AAAA
36549573 CAATTTGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.44, C:0.04, G:0.28, T:0.24
Consensus pattern (25 bp):
AAAAAACTAAGTTGGGTATTTAGGG
Found at i:36551680 original size:46 final size:46
Alignment explanation
Indices: 36551608--36551701 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
36551598 TTGGATCTTC
*
36551608 ACCCATGTCTTATCGGCTTTTGCATCTATCCTATCACTTTTTTTAT
1 ACCCATGTCTTATCGGCTTTTCCATCTATCCTATCACTTTTTTTAT
36551654 ACCCATGTCTTATCGGCTTTTCCATCTATCCTATCACTTTTTTTAT
1 ACCCATGTCTTATCGGCTTTTCCATCTATCCTATCACTTTTTTTAT
36551700 AC
1 AC
36551702 TCTTCTTCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.18, C:0.28, G:0.07, T:0.47
Consensus pattern (46 bp):
ACCCATGTCTTATCGGCTTTTCCATCTATCCTATCACTTTTTTTAT
Found at i:36552096 original size:17 final size:17
Alignment explanation
Indices: 36552074--36552106 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36552064 TGCCATGGAG
36552074 TCTTTCATCCATGGTCT
1 TCTTTCATCCATGGTCT
36552091 TCTTTCATCCATGGTC
1 TCTTTCATCCATGGTC
36552107 GTACACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (17 bp):
TCTTTCATCCATGGTCT
Found at i:36558012 original size:3 final size:3
Alignment explanation
Indices: 36558004--36558063 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
36557994 ATAATCAAAT
* * *
36558004 ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA AT- ATC A-A ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
36558047 ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA AT
36558064 TAAGTGATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:36559691 original size:44 final size:43
Alignment explanation
Indices: 36559649--36559928 Score: 368
Period size: 44 Copynumber: 6.4 Consensus size: 43
36559639 CTGCTCCACT
*
36559649 ACTGCT-T-AGGGAGACAGGA-TCTACAATCTTCAACCTATTCC
1 ACTGCTGTCAGGGAGATAGGACT-TACAATCTTCAACCTATTCC
* *
36559690 ACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTATTCC
1 ACTGCTG-TCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* *
36559734 ACTGTTGTTCAGGGAGATAGGACTTACAATCTTCCACCTATTCC
1 ACTGCTG-TCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
*
36559778 ACTGCTAGTCAGGGAGATAGGACTTGCAATCTTCAACCTATTCC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* * * *
36559822 ACTGCTGGTCAGGGAGAGAGGACTTGCAATCCTCAACATATTCC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
* *
36559866 ACTGCTGGTCAGGGAGATAGGACTTGCAATCTTCAACCTATTGC
1 ACTGCT-GTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
36559910 ACTGCTGGTCAGGGAGATA
1 ACTGCT-GTCAGGGAGATA
36559929 AGGCTTTGTG
Statistics
Matches: 218, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
41 6 0.03
43 1 0.00
44 210 0.96
45 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (43 bp):
ACTGCTGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCC
Found at i:36561219 original size:14 final size:15
Alignment explanation
Indices: 36561200--36561237 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
36561190 TTAGCCTCTC
36561200 CATTTTTCA-TTTTT
1 CATTTTTCATTTTTT
36561214 CATTTTTCATTTTTT
1 CATTTTTCATTTTTT
36561229 CATTTTTCA
1 CATTTTTCA
36561238 CATTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (15 bp):
CATTTTTCATTTTTT
Found at i:36561220 original size:8 final size:7
Alignment explanation
Indices: 36561200--36561237 Score: 67
Period size: 7 Copynumber: 5.3 Consensus size: 7
36561190 TTAGCCTCTC
36561200 CATTTTT
1 CATTTTT
36561207 CATTTTT
1 CATTTTT
36561214 CATTTTT
1 CATTTTT
36561221 CATTTTTT
1 CA-TTTTT
36561229 CATTTTT
1 CATTTTT
36561236 CA
1 CA
36561238 CATTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:36566912 original size:21 final size:21
Alignment explanation
Indices: 36566873--36566942 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
36566863 ATAGGTAAAT
*
36566873 ATAATCAAATATAATAATAGCA
1 ATAAT-AAATATAATAATAACA
*
36566895 ATAATAAATAGTAA-AATAATA
1 ATAATAAATA-TAATAATAACA
*
36566916 ATAATATCAA-ATAATAATAAAA
1 ATAATA--AATATAATAATAACA
36566938 ATAAT
1 ATAAT
36566943 TAAGTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 19 0.46
22 20 0.49
23 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (21 bp):
ATAATAAATATAATAATAACA
Found at i:36566931 original size:27 final size:31
Alignment explanation
Indices: 36566879--36566942 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
36566869 AAATATAATC
*
36566879 AAAT-ATAATAATAGCAATAATAAATAGT-A
1 AAATAATAATAATAGCAATAATAAATAATAA
*
36566908 AAATAATAATAATATC-A-AAT-AATAATAA
1 AAATAATAATAATAGCAATAATAAATAATAA
36566936 AAATAAT
1 AAATAAT
36566943 TAAGTGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 11 0.35
29 5 0.16
30 10 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
AAATAATAATAATAGCAATAATAAATAATAA
Found at i:36575626 original size:17 final size:17
Alignment explanation
Indices: 36575604--36575643 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
36575594 AGGCAAATCA
36575604 TATTATTTTGAA-GGTGT
1 TATTATTTT-AAGGGTGT
36575621 TATTATTTTAAGGGTGT
1 TATTATTTTAAGGGTGT
*
36575638 TTTTAT
1 TATTAT
36575644 CATTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (17 bp):
TATTATTTTAAGGGTGT
Found at i:36576152 original size:26 final size:27
Alignment explanation
Indices: 36576123--36576178 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
36576113 ACGGGCGTAA
36576123 TTTAAAATTTGAATAAGTTT-ATCCT-T
1 TTTAAAATTT-AATAAGTTTCATCCTGT
** *
36576149 TTTATTATTTAATTAGTTTCATCCTGT
1 TTTAAAATTTAATAAGTTTCATCCTGT
36576176 TTT
1 TTT
36576179 TCAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 8 0.32
26 13 0.52
27 4 0.16
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTAATAAGTTTCATCCTGT
Found at i:36576280 original size:22 final size:22
Alignment explanation
Indices: 36576255--36576297 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36576245 ACAGCAGAAC
* *
36576255 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
36576277 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
36576298 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:36576534 original size:82 final size:82
Alignment explanation
Indices: 36576369--36576588 Score: 307
Period size: 82 Copynumber: 2.6 Consensus size: 82
36576359 ACGTCTCTAA
* * * *
36576369 CTTTTGCGGCGCTTACATAAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
1 CTTTAGCGGCGCTT-CA-GAAAAAA-GCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAA
*
36576434 ACGCCGCTAAAGATCATGTT
63 ACACCGCTAAAGATCATGTT
*
36576454 CTTTAGCGGCGCTT-AGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCATTTAGGAAAAAAC
1 CTTTAGCGGCGCTTCAGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA-GAAAAAAC
36576518 ACCGCTAAAGATCATGTT
65 ACCGCTAAAGATCATGTT
* *
36576536 CTTTAGCGGCGCTTCAGAGGAAAACGCCTCTAAAGATCATGTTCTTTAGCGGC
1 CTTTAGCGGCGCTTCAGA--AAAAAGCCGCTAAAGATCATGTTCTTTAGCGGC
36576589 GCTTCGGAGG
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
81 30 0.24
82 45 0.37
83 4 0.03
85 44 0.36
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (82 bp):
CTTTAGCGGCGCTTCAGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAACA
CCGCTAAAGATCATGTT
Found at i:36576574 original size:43 final size:42
Alignment explanation
Indices: 36576389--36576678 Score: 344
Period size: 43 Copynumber: 6.9 Consensus size: 42
36576379 GCTTACATAA
*
36576389 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAG
36576430 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAG
**
36576471 AAAAA-GCCGCTAAAGATCATGTTCTTTAGCGGCATTTAG-G
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAG
*
36576511 AAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTCAGAG
1 -AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAG
* * *
36576555 GAAAACGCCTCTAAAGATCATGTTCTTTAGCGGCGCTTCGGAG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAG
* * * * **
36576598 GAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTTC
1 AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-AG
36576640 AAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
36576679 TTTCACAAAC
Statistics
Matches: 223, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
40 32 0.14
41 52 0.23
42 63 0.28
43 75 0.34
44 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAG
Found at i:36576645 original size:85 final size:81
Alignment explanation
Indices: 36576389--36576677 Score: 343
Period size: 85 Copynumber: 3.5 Consensus size: 81
36576379 GCTTACATAA
* *
36576389 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGAAAAAACGCCGCTAAAGATCATGTT
36576454 CTTTAGCGGCGCTTAG
66 CTTTAGCGGCGCTTAG
* ** *
36576470 AAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCATTTAGGAAAAAACACCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GGAAAAAACGCCGCTAAAGATCATGT
36576535 TCTTTAGCGGCGCTTCAG
65 TCTTTAGCGGCGCTT-AG
* * * *
36576553 AGGAAAACGCCTCTAAAGATCATGTTCTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAA-AGTA
1 A--AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GGA-AAAAACGCCGCTAAAGA-TC
*
36576617 ATGTTCTATAGCGGCGCTT-G
61 ATGTTCTTTAGCGGCGCTTAG
36576637 TTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTT
1 ---AAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTT
36576678 ATTTCACAAA
Statistics
Matches: 180, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
81 34 0.19
82 39 0.22
83 3 0.02
84 3 0.02
85 69 0.38
86 31 0.17
87 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGAAAAAACGCCGCTAAAGATCATGTT
CTTTAGCGGCGCTTAG
Found at i:36577127 original size:12 final size:12
Alignment explanation
Indices: 36577112--36577158 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
36577102 CTTCTATTGA
36577112 TGCTTCTCTCGC
1 TGCTTCTCTCGC
36577124 TGCTTCTCTCGC
1 TGCTTCTCTCGC
**
36577136 TGCGGC-CT--C
1 TGCTTCTCTCGC
36577145 TGCTTCTCTCGC
1 TGCTTCTCTCGC
36577157 TG
1 TG
36577159 TAGCCTTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
9 5 0.18
10 2 0.07
11 2 0.07
12 19 0.68
ACGTcount: A:0.00, C:0.40, G:0.21, T:0.38
Consensus pattern (12 bp):
TGCTTCTCTCGC
Found at i:36577149 original size:21 final size:21
Alignment explanation
Indices: 36577123--36577212 Score: 108
Period size: 21 Copynumber: 4.3 Consensus size: 21
36577113 GCTTCTCTCG
*
36577123 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
36577144 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* **
36577165 TTGCTTCTCTCGCTATAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
36577186 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
36577207 CTGCTT
1 CTGCTT
36577213 TAAGTTGCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.04, C:0.40, G:0.19, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:36582681 original size:9 final size:9
Alignment explanation
Indices: 36582667--36582917 Score: 140
Period size: 9 Copynumber: 29.8 Consensus size: 9
36582657 AAGTTATTTA
36582667 TTATGTAAG
1 TTATGTAAG
*
36582676 TTATGTAAC
1 TTATGTAAG
*
36582685 TTGTGTAAG
1 TTATGTAAG
36582694 TTATGTAAG
1 TTATGTAAG
* *
36582703 CTGTGTAAG
1 TTATGTAAG
*
36582712 TTGTGT-A-
1 TTATGTAAG
* *
36582719 TTATGAAAC
1 TTATGTAAG
36582728 TTATGTAAG
1 TTATGTAAG
*
36582737 TTGTGT-A-
1 TTATGTAAG
36582744 TTATGTAAG
1 TTATGTAAG
*
36582753 TTATGTCAG
1 TTATGTAAG
*
36582762 TTGTGT-A-
1 TTATGTAAG
* *
36582769 TTATGAAAC
1 TTATGTAAG
36582778 TTATGTAAG
1 TTATGTAAG
*
36582787 TTATGT--C
1 TTATGTAAG
36582794 TTATGTAAG
1 TTATGTAAG
* * *
36582803 TGACGTAAA
1 TTATGTAAG
*
36582812 ATATGT-A-
1 TTATGTAAG
36582819 TTATGTAAG
1 TTATGTAAG
*
36582828 TTATGTCAG
1 TTATGTAAG
* *
36582837 GTGTGT-A-
1 TTATGTAAG
*
36582844 TTATGTAAA
1 TTATGTAAG
36582853 TTATGT-A-
1 TTATGTAAG
36582860 TTATGTAAG
1 TTATGTAAG
*
36582869 TTATGTAAT
1 TTATGTAAG
*
36582878 TTGTGT-A-
1 TTATGTAAG
* *
36582885 TTATGTGAC
1 TTATGTAAG
* *
36582894 TTATTTAAT
1 TTATGTAAG
36582903 TTATGTAAG
1 TTATGTAAG
36582912 -TATGTA
1 TTATGTA
36582918 TTATTCACTA
Statistics
Matches: 185, Mismatches: 41, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
7 39 0.21
8 20 0.11
9 126 0.68
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36582734 original size:25 final size:25
Alignment explanation
Indices: 36582656--36582859 Score: 176
Period size: 25 Copynumber: 8.1 Consensus size: 25
36582646 GATTTAGGAA
* * *
36582656 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* * * *
36582681 TAACTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGT-A-TTATGAAAGTTATG
*
36582708 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
*
36582733 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* *
36582758 TCAGTTGTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* * * * *
36582783 TAAGTTATGTCTTATGTAAGTGACG
1 TAAGTTGTGTATTATGAAAGTTATG
** * *
36582808 TAAAATATGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAAGTTATG
* *
36582833 TCAGGTGTGTATTATGTAAA-TTATG
1 TAAGTTGTGTATTATG-AAAGTTATG
36582858 TA
1 TA
36582860 TTATGTAAGT
Statistics
Matches: 143, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
25 118 0.83
26 4 0.03
27 21 0.15
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TAAGTTGTGTATTATGAAAGTTATG
Found at i:36582757 original size:34 final size:35
Alignment explanation
Indices: 36582670--36582757 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 35
36582660 TTATTTATTA
* * *
36582670 TGTAAGTTATGTAACTTGTGTAAGTTATGTAAGCTG
1 TGTAAGTTATGTAA-TTATGAAACTTATGTAAGCTG
* *
36582706 TGTAAGTTGTGT-ATTATGAAACTTATGTAAGTTG
1 TGTAAGTTATGTAATTATGAAACTTATGTAAGCTG
36582740 TGT-A-TTATGTAAGTTATG
1 TGTAAGTTATGTAA-TTATG
36582758 TCAGTTGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 5 0.11
33 2 0.05
34 25 0.57
35 1 0.02
36 11 0.25
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.44
Consensus pattern (35 bp):
TGTAAGTTATGTAATTATGAAACTTATGTAAGCTG
Found at i:36582769 original size:50 final size:50
Alignment explanation
Indices: 36582656--36582859 Score: 210
Period size: 50 Copynumber: 4.0 Consensus size: 50
36582646 GATTTAGGAA
* * * * * * *
36582656 TAAGTTATTTATTATGTAAGTTATGTAACTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGT-A-TTATGTAAGTTATG
36582708 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
* * * * *
36582758 TCAGTTGTGTATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTGACG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
** * * * * * *
36582808 TAAAATATGTATTATGTAAGTTATGTCAGGTGTGTATTATGTAAATTATG
1 TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
36582858 TA
1 TA
36582860 TTATGTAAGT
Statistics
Matches: 127, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
50 96 0.76
51 1 0.01
52 30 0.24
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (50 bp):
TAAGTTGTGTATTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATG
Found at i:36582773 original size:41 final size:41
Alignment explanation
Indices: 36582728--36582916 Score: 155
Period size: 41 Copynumber: 4.8 Consensus size: 41
36582718 ATTATGAAAC
* *
36582728 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
36582769 TTATG--AA--A---CTTATGTAAGTTATGTC--TTATGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* * * *
36582802 GTGACGTAAAATATGTATTATGTAAGTTATGTCAGGTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
36582844 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* * *
36582885 TTATGTGACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
36582917 ATTATTCACT
Statistics
Matches: 117, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 19 0.16
36 2 0.02
38 1 0.01
39 1 0.01
41 68 0.58
42 7 0.06
43 13 0.11
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:36582796 original size:16 final size:16
Alignment explanation
Indices: 36582727--36582803 Score: 68
Period size: 16 Copynumber: 4.7 Consensus size: 16
36582717 TATTATGAAA
*
36582727 CTTATGTAAGTTGTGT
1 CTTATGTAAGTTATGT
*
36582743 ATTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
* *
36582759 CAGTTGTGT-A-TTATGAAA
1 C--TTATGTAAGTTATG--T
36582777 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
36582793 CTTATGTAAGT
1 CTTATGTAAGT
36582804 GACGTAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 35 0.73
17 2 0.04
18 11 0.23
ACGTcount: A:0.27, C:0.05, G:0.21, T:0.47
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:36582872 original size:25 final size:25
Alignment explanation
Indices: 36582844--36582909 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
36582834 CAGGTGTGTA
* *
36582844 TTATGTAAATTATGTATTATGTAAG
1 TTATGTAATTTATGTATTATGTAAC
* *
36582869 TTATGTAATTTGTGTATTATGTGAC
1 TTATGTAATTTATGTATTATGTAAC
*
36582894 TTATTTAATTTATGTA
1 TTATGTAATTTATGTA
36582910 AGTATGTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (25 bp):
TTATGTAATTTATGTATTATGTAAC
Found at i:36583049 original size:24 final size:26
Alignment explanation
Indices: 36583006--36583060 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
36582996 TTATGTACGG
*
36583006 TATGTGTTATTATGTAAGTTATTTAT
1 TATGTGTTATTATGTAAGTTATGTAT
*
36583032 TATGT-TTGTTATGT-AGTTATGTAT
1 TATGTGTTATTATGTAAGTTATGTAT
36583056 TATGT
1 TATGT
36583061 AAGATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 14 0.52
25 8 0.30
26 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (26 bp):
TATGTGTTATTATGTAAGTTATGTAT
Found at i:36583050 original size:94 final size:93
Alignment explanation
Indices: 36582852--36583062 Score: 211
Period size: 94 Copynumber: 2.3 Consensus size: 93
36582842 TATTATGTAA
* *
36582852 ATTATGTA-TTATGTAAGTTATGTAATTTGTGTATTATGTGACTTATTTAATTTATGTAAGTATG
1 ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
*
36582916 TATTATTCACTAATTTATTATGTAGGAT
66 TATTATTCACTAAGTTATTATGTAGGAT
* ** *
36582944 ATTATCTAAGTTATGTAAGTT-T-TTTTTTGGTGTATCATGTAACTTATTTAATTTATGTACGGT
1 ATTATGT-AGTTATGTAAGTTATGTAATTT-GTGTATCATGTAACTTATTTAATTTATGTA-AGT
* * **
36583007 ATGTGTTATT-ATGTAAGTTATTTAT-TATGTTT
63 ATGTATTATTCA-CTAAGTTA-TTATGTA-GGAT
*
36583039 GTTATGTAGTTATGT-A-TTATGTAA
1 ATTATGTAGTTATGTAAGTTATGTAA
36583063 GATATATAAG
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
92 12 0.13
93 33 0.35
94 39 0.41
95 11 0.12
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (93 bp):
ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
TATTATTCACTAAGTTATTATGTAGGAT
Found at i:36583252 original size:15 final size:15
Alignment explanation
Indices: 36583232--36583264 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36583222 TATAAAATTT
*
36583232 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
36583247 ATAAATTTAATACTA
1 ATAAATTTAATACTA
36583262 ATA
1 ATA
36583265 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:36583336 original size:21 final size:21
Alignment explanation
Indices: 36583279--36583340 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
36583269 AACCTTATAA
*
36583279 ATTTAGAAAACTTATATAGA-T
1 ATTTAGAAAACTTTTATA-ATT
*
36583300 A-TTA-AAACAATATTTATAATT
1 ATTTAGAAA-ACT-TTTATAATT
36583321 ATTTAGAAAACTTTTA-AATT
1 ATTTAGAAAACTTTTATAATT
36583341 TTATAGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 12 0.36
22 5 0.15
23 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTTAGAAAACTTTTATAATT
Found at i:36583429 original size:15 final size:15
Alignment explanation
Indices: 36583409--36583441 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36583399 ATAAAATTTT
*
36583409 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
36583424 ATAAATTTAATACTA
1 ATAAATTTAATACTA
36583439 ATA
1 ATA
36583442 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:36583501 original size:177 final size:175
Alignment explanation
Indices: 36583123--36583506 Score: 732
Period size: 177 Copynumber: 2.2 Consensus size: 175
36583113 AATAAATTTA
*
36583123 ATATTAAAACAATATTTATAATTATTTTGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
36583188 ATTTATAATACTAATATAGATATTAAAACATATTTATAAAATTTATAAATTTAATAGTAATAAAT
66 ATTTATAATACTAATATAGATATTAAAACATATTTATAAAATTTATAAATTTAATAGTAATAAAT
36583253 TTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 TTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
36583298 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
36583363 ATTTATAATACTAATATAGATATTAAAACAATATTTATAAAATTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAAC-ATATTTATAAAA-TTTATAAATTTAATAGTAATAA
36583428 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
129 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
*
36583475 ATATTAAAACAATATTTATCATTATTTAGAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAA
36583507 TGTTATCATT
Statistics
Matches: 205, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
175 93 0.45
176 12 0.06
177 100 0.49
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (175 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
ATTTATAATACTAATATAGATATTAAAACATATTTATAAAATTTATAAATTTAATAGTAATAAAT
TTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
Found at i:36585510 original size:23 final size:23
Alignment explanation
Indices: 36585461--36585510 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
36585451 GGGGAATAGG
* *
36585461 AATTGGGGGAAATGAAATCGGGG
1 AATTGGGGGAAACGAAATCGGGA
36585484 AATTGGGGGAATACGAAAT-GGGA
1 AATTGGGGGAA-ACGAAATCGGGA
36585507 AATT
1 AATT
36585511 AGGGAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.38, T:0.20
Consensus pattern (23 bp):
AATTGGGGGAAACGAAATCGGGA
Found at i:36586078 original size:22 final size:22
Alignment explanation
Indices: 36586044--36586096 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
36586034 ATAGGCCCCT
36586044 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
36586065 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
36586087 AACTTTAAAC
1 AACTTTAAAC
36586097 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:36586102 original size:15 final size:14
Alignment explanation
Indices: 36586057--36586133 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
36586047 TTTAACCCGT
36586057 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
36586072 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
36586087 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
36586102 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
36586116 AACCTTACACTCTA
1 AACCTTAAACTTTA
36586130 AACC
1 AACC
36586134 CGTAACCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:36586118 original size:29 final size:30
Alignment explanation
Indices: 36586060--36586138 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
36586050 AACCCGTAAC
* **
36586060 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
36586089 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* *
36586118 CCTTACACTC-TAAACCCGTAA
1 CTTTAAACTCTTAAACCCGTAA
36586139 CCTTACACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 7 0.16
29 28 0.65
30 8 0.19
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:36587180 original size:266 final size:265
Alignment explanation
Indices: 36586699--36587496 Score: 1260
Period size: 259 Copynumber: 3.0 Consensus size: 265
36586689 CTTTTTTACA
* *
36586699 GCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGATGCGTTTTGGTTCA
1 GCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCA
36586764 GATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGA-CAAGACACTGC
66 GATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA-ACACTGC
* * ** *
36586828 GTTTTGTTAAGATACGTTGCGGCGC-TT-GATCCAAAGCGTCGCTAAAGCTATTCTTTAACGGCG
130 GTTTTGTTAAGATACTTTGCGGCGCTTTGGCT-C-AAGCACCGCTAATGCTATTCTTTAACGGCG
36586891 TTTTCTAGTAAGCACCACTAATATAAGTATACATTAAAATTAAAACTACGCGTTTTAGTTAAGAT
193 TTTTCTAGTAAGCACCACTAATATAAGTATACA-TAAAATTAAAACTACGCGTTTTAGTTAAGAT
36586956 ATTTTTGCG
257 ATTTTTGCG
*
36586965 GCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTTTGCTTCA
1 GCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCA
*
36587030 GATATTTTGCGGCGTTTTCCTATACGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGCG
66 GATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGCG
* * *
36587095 TTTTGTTAAGATACTTTGCGGTGCTTTGGCTCAATCACCGCTAATGATATTCTTTAACGGCGTTT
131 TTTTGTTAAGATACTTTGCGGCGCTTTGGCTCAAGCACCGCTAATGCTATTCTTTAACGGCGTTT
36587160 TCTAGTAAGCACCACTAATAT-A--AT-C--AAAATTAAAACTACGCGTTTTAGTTAAGATATTT
196 TCTAGTAAGCACCACTAATATAAGTATACATAAAATTAAAACTACGCGTTTTAGTTAAGATATTT
36587219 TTGCG
261 TTGCG
* *
36587224 GCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAATGGTGCGTTTTGGTTCA
1 GCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCA
* **
36587289 GATTTTTTATGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGCG
66 GATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGCG
*
36587354 TTTTGTTAAGATA-TGTTGCAGCGCTTTGGCTCAAGCACCGCTAAAT-CTATTCTTTAACGGCGT
131 TTTTGTTAAGATACT-TTGCGGCGCTTTGGCTCAAGCACCGCT-AATGCTATTCTTTAACGGCGT
* *
36587417 TTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTAAAGATA
194 TTTCTAGTAAGCACCACTAATATAAGTATACAT-AAAATTAAAACTACGCGTTTTAGTTAAGATA
36587482 -TTTTGCG
258 TTTTTGCG
36587489 GCGCTTTC
1 GCG-TTTC
36587497 TACGAAACGC
Statistics
Matches: 493, Mismatches: 26, Indels: 26
0.90 0.05 0.05
Matches are distributed among these distances:
258 1 0.00
259 237 0.48
260 4 0.01
262 3 0.01
263 3 0.01
265 11 0.02
266 226 0.46
267 6 0.01
268 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (265 bp):
GCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTTTGGTTCA
GATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGCG
TTTTGTTAAGATACTTTGCGGCGCTTTGGCTCAAGCACCGCTAATGCTATTCTTTAACGGCGTTT
TCTAGTAAGCACCACTAATATAAGTATACATAAAATTAAAACTACGCGTTTTAGTTAAGATATTT
TTGCG
Found at i:36587693 original size:113 final size:114
Alignment explanation
Indices: 36587544--36587791 Score: 302
Period size: 113 Copynumber: 2.2 Consensus size: 114
36587534 ATCACAAAGT
* * * * ** *
36587544 GCCACTAAATCTAGGATACATCAATACCAAAAACGATGTGTTTTGGTTAAGATATTTTGCGGCGC
1 GCCACTAATTCTAGGATACATCAACACCAAAAACGATGCGTTTTGGTTAAGAGAAATTACGGCGC
* *
36587609 -ATATCGCAAAACGCCGCTAAGACGCTTTTGCGGCGT-TTTTTGAGAAGC
66 GATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTT-AGAAGC
* * *
36587657 GCCACTAATTCTAGGATACATCAACACTAAAAACGATGCGTTTTTGTTAGGAGAAATTACGGCGC
1 GCCACTAATTCTAGGATACATCAACACCAAAAACGATGCGTTTTGGTTAAGAGAAATTACGGCGC
* * * * *
36587722 GTTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTTGAAGC
66 GATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTAGAAGC
* *
36587771 GCCACTAATTCTTGCATACAT
1 GCCACTAATTCTAGGATACAT
36587792 AAAGACGAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
113 55 0.48
114 54 0.47
115 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (114 bp):
GCCACTAATTCTAGGATACATCAACACCAAAAACGATGCGTTTTGGTTAAGAGAAATTACGGCGC
GATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTAGAAGC
Found at i:36589226 original size:20 final size:21
Alignment explanation
Indices: 36589203--36589256 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
36589193 TTATTGATAA
36589203 ATATTATATATTA-TAAATAT
1 ATATTATATATTATTAAATAT
* * *
36589223 ATATTAAATTATTATTACATGT
1 ATATTATA-TATTATTAAATAT
36589245 ATTATTATATAT
1 A-TATTATATAT
36589257 CAACATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 9 0.33
23 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTATATATTATTAAATAT
Found at i:36590747 original size:21 final size:22
Alignment explanation
Indices: 36590723--36590767 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
36590713 TTTGTTACTG
*
36590723 TTTTGTTGTT-GTTTGCTACCA
1 TTTTGATGTTAGTTTGCTACCA
*
36590744 TTTTGATGTTATTTTGCTACCA
1 TTTTGATGTTAGTTTGCTACCA
36590766 TT
1 TT
36590768 CTGCTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (22 bp):
TTTTGATGTTAGTTTGCTACCA
Found at i:36590777 original size:22 final size:22
Alignment explanation
Indices: 36590734--36590777 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36590724 TTTGTTGTTG
* *
36590734 TTTGCTACCATTTTGATGTTAT
1 TTTGCTACCATTCTGATATTAT
*
36590756 TTTGCTACCATTCTGCTATTAT
1 TTTGCTACCATTCTGATATTAT
36590778 ATTAATACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTGCTACCATTCTGATATTAT
Found at i:36590997 original size:17 final size:19
Alignment explanation
Indices: 36590975--36591014 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36590965 TCGATGTATT
36590975 ATATTTTT-T-TAAAAAAA
1 ATATTTTTATATAAAAAAA
*
36590992 ATATTTTTATATAAAAATA
1 ATATTTTTATATAAAAAAA
36591011 ATAT
1 ATAT
36591015 AACAAGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTTTTATATAAAAAAA
Found at i:36591505 original size:24 final size:21
Alignment explanation
Indices: 36591463--36591515 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
36591453 TAATTAGCAC
*
36591463 AAATATATTTTTAAAATTATA
1 AAATATATTTTTAAAATTAAA
36591484 AAATATATTATTTAATAGATTAAA
1 AAATATATT-TTTAA-A-ATTAAA
*
36591508 AAAAATAT
1 AAATATAT
36591516 AAAATCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 1 0.04
24 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATATTTTTAAAATTAAA
Found at i:36591879 original size:3 final size:3
Alignment explanation
Indices: 36591871--36591931 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
36591861 TCTTGTAAAT
36591871 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
36591919 TTC TTC TTC TTC T
1 TTC TTC TTC TTC T
36591932 CTTTTGGCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:36594595 original size:13 final size:13
Alignment explanation
Indices: 36594577--36594611 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
36594567 TAAGTTATTA
36594577 TATATTAATATAT
1 TATATTAATATAT
* *
36594590 TATATTCATATTT
1 TATATTAATATAT
36594603 TATATTAAT
1 TATATTAAT
36594612 CTGTGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTAATATAT
Found at i:36596897 original size:40 final size:41
Alignment explanation
Indices: 36596851--36596938 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
36596841 ATTTTATCTA
* *
36596851 AATTTTTGTAAATATTTTGTAGTGTGAATTATAAGTTTTAT
1 AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
* * * *
36596892 -ATTTTTGTGAATCTTTTGTATTATTAATTATAAGTCTTAT
1 AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
36596932 AATTTTT
1 AATTTTT
36596939 TTTTCCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 34 0.85
41 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (41 bp):
AATTTTTGTAAATATTTTGTAGTATGAATTATAAGTCTTAT
Found at i:36597013 original size:36 final size:34
Alignment explanation
Indices: 36596922--36597053 Score: 113
Period size: 34 Copynumber: 3.8 Consensus size: 34
36596912 TTATTAATTA
* * **
36596922 TAAGTCTTATAATTTTTTTTTCCATTTTTTAGTTT
1 TAAGTCTTATTATTTTTGTTT-CATTTTAGAGTTT
****
36596957 TAAGTCTTATTAGCAGTGTTTC-TGCTGTTAGAGTTT
1 TAAGTCTTATTATTTTTGTTTCAT--T-TTAGAGTTT
**
36596993 TAAGTCTTATTATTTTTGTTTCATTTTTTAGTTT
1 TAAGTCTTATTATTTTTGTTTCATTTTAGAGTTT
* *
36597027 TAAGCCTTATCATTTTTGTTTCATTTT
1 TAAGTCTTATTATTTTTGTTTCATTTT
36597054 GGTGAATATT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
33 1 0.01
34 33 0.43
35 17 0.22
36 25 0.32
37 1 0.01
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.60
Consensus pattern (34 bp):
TAAGTCTTATTATTTTTGTTTCATTTTAGAGTTT
Found at i:36597036 original size:34 final size:34
Alignment explanation
Indices: 36596988--36597053 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
36596978 CTGCTGTTAG
* *
36596988 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
36597022 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
1 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
36597054 GGTGAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (34 bp):
AGTTTTAAGCCTTATCATTTTTGTTTCATTTTTT
Found at i:36600589 original size:19 final size:20
Alignment explanation
Indices: 36600565--36600605 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36600555 AAATTTAGGC
36600565 AAATATT-AA-ATGAAAATTG
1 AAATATTCAATATG-AAATTG
36600584 AAATATTCAATATGAAATTG
1 AAATATTCAATATGAAATTG
36600604 AA
1 AA
36600606 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 10 0.50
21 3 0.15
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATGAAATTG
Found at i:36602870 original size:20 final size:21
Alignment explanation
Indices: 36602845--36602884 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
36602835 TTTTCAATGA
36602845 ATTTTTATTTATA-AAATTAG
1 ATTTTTATTTATATAAATTAG
*
36602865 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
36602885 AATAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAG
Found at i:36607846 original size:28 final size:28
Alignment explanation
Indices: 36607801--36607863 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
36607791 TTATCAAGAT
36607801 CAGTAAGGGTATCCGCCAAAAGAATGAC
1 CAGTAAGGGTATCCGCCAAAAGAATGAC
* * * *
36607829 CAGTAAGGGTGTCTGCCAAAAGTATGAT
1 CAGTAAGGGTATCCGCCAAAAGAATGAC
36607857 CAGTAAG
1 CAGTAAG
36607864 TGATATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (28 bp):
CAGTAAGGGTATCCGCCAAAAGAATGAC
Found at i:36611007 original size:14 final size:14
Alignment explanation
Indices: 36610988--36611015 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36610978 GTTTAAAGAT
36610988 GATTAAAAACTAAG
1 GATTAAAAACTAAG
36611002 GATTAAAAACTAAG
1 GATTAAAAACTAAG
36611016 TAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
GATTAAAAACTAAG
Found at i:36613773 original size:70 final size:71
Alignment explanation
Indices: 36613638--36613777 Score: 241
Period size: 70 Copynumber: 2.0 Consensus size: 71
36613628 AATACTCGTG
36613638 AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
1 AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
36613703 TATGAA
66 TATGAA
36613709 AATATTGTAATATT-TGATAAAGTG-AA-TTTTTATATGAAATTATTATTATTTTCATTATTATT
1 AATATTGTAATATTAT-ATAAAGTGAAATTTTTTATATGAAATTATTATT-TTTTCATTATTATT
36613771 TATATGA
64 TATATGA
36613778 TTTTTTTATT
Statistics
Matches: 67, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
69 21 0.31
70 24 0.36
71 22 0.33
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (71 bp):
AATATTGTAATATTATATAAAGTGAAATTTTTTATATGAAATTATTATTTTTTCATTATTATTTA
TATGAA
Found at i:36613850 original size:89 final size:90
Alignment explanation
Indices: 36613696--36614040 Score: 597
Period size: 90 Copynumber: 3.9 Consensus size: 90
36613686 TTTTTCATTA
* * *
36613696 TTATTTATATGAAAATATTGTAATATTTGATAAAG-T-GAATTTTTATATGAAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
36613759 TTCATTATTATTTATATGA-TTTTT
66 TTCATTATTATTTATATGATTTTTT
*
36613783 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGCAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
36613848 TTCATTATTATTTATATGATTTTTT
66 TTCATTATTATTTATATGATTTTTT
**
36613873 TTATTTTTATGAAAATAAAATAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
36613938 TTCATTATTATTTATATGATTTTTT
66 TTCATTATTATTTATATGATTTTTT
* *
36613963 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTTTTATTTTT
1 TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
36614028 TTCATTATTATTT
66 TTCATTATTATTT
36614041 TTTATATAAA
Statistics
Matches: 244, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
87 33 0.14
88 1 0.00
89 44 0.18
90 166 0.68
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (90 bp):
TTATTTTTATGAAAATAATGTAATATTTGATAAAGTTAAAATTTTTATATGAAATTATTATTATT
TTCATTATTATTTATATGATTTTTT
Found at i:36615451 original size:41 final size:41
Alignment explanation
Indices: 36615414--36615589 Score: 212
Period size: 41 Copynumber: 4.3 Consensus size: 41
36615404 ACCGGCAATT
* * *
36615414 AGCCTGCTAGACGTAAAGTCCAAAATATTTCAACGGCATTA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
* *
36615455 AGCCTGCTTGACGTAAA-TCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
* * * *
36615495 AGCCTGCTAGACATAAAGTTTC-AAATATTTCATCGACATCA
1 AGCCTGCTAGACGTAAAG-TCCGAAATATTTCACCGGCATCA
* * * *
36615536 AGCTTGCTAAACCTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
36615577 AGCCTGCTAGACG
1 AGCCTGCTAGACG
36615590 AGTCTGAATT
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
40 35 0.32
41 75 0.68
42 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCATCA
Found at i:36615512 original size:81 final size:82
Alignment explanation
Indices: 36615414--36615588 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 82
36615404 ACCGGCAATT
* * * ** *
36615414 AGCCTGCTAGACGTAAAG-TCCAAAATATTTCAACGGCATTAAGCCTGCTTGACGTAAA-TCTGA
1 AGCCTGCTAGACATAAAGTTCC-AAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGA
36615477 AATATTTCACCGGCATCA
65 AATATTTCACCGGCATCA
* * *
36615495 AGCCTGCTAGACATAAAGTTTCAAATATTTCATCGACATCAAGCTTGCTAAACCTAAAGTCTGAA
1 AGCCTGCTAGACATAAAGTTCCAAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGAA
36615560 ATATTTCACCGGCATCA
66 ATATTTCACCGGCATCA
36615577 AGCCTGCTAGAC
1 AGCCTGCTAGAC
36615589 GAGTCTGAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
81 46 0.55
82 37 0.45
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (82 bp):
AGCCTGCTAGACATAAAGTTCCAAATATTTCAACGACATCAAGCCTGCTAAACCTAAAGTCTGAA
ATATTTCACCGGCATCA
Found at i:36615977 original size:76 final size:75
Alignment explanation
Indices: 36615867--36616010 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 75
36615857 CATATACAAT
* * * *
36615867 TTCAATACAAGATCTTATACATGTACATATATACATATTCAAATCTAACAAATATATATATTAAT
1 TTCAAAACAAGAACTTATACATGTA-ATATATACATAATCAAATCTAACAAATATATATATAAAT
36615932 ATATACTTATA
65 ATATACTTATA
* * * * *
36615943 TTCAAAACAAGAACTTATACCTGT-ATACTCATACATAATCGAATTTAACATATATATGTATAAA
1 TTCAAAACAAGAACTTATACATGTAATA-T-ATACATAATCAAATCTAACAAATATATATATAAA
36616007 TATA
64 TATA
36616011 ATTTCCTACT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
74 3 0.05
75 1 0.02
76 53 0.93
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (75 bp):
TTCAAAACAAGAACTTATACATGTAATATATACATAATCAAATCTAACAAATATATATATAAATA
TATACTTATA
Found at i:36618898 original size:41 final size:41
Alignment explanation
Indices: 36618843--36618981 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
36618833 TATATGATTG
*
36618843 GCACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
36618884 GCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
36618925 GCACTAAGTGTGCGAAACCAAATAATTATGTT-AATAACGG
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
36618965 GAACTAAGTGTGCGAAA
1 GCACTAAGTGTGCGAAA
36618982 TCGAGATCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 23 0.25
41 68 0.75
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Found at i:36624036 original size:41 final size:41
Alignment explanation
Indices: 36623989--36624127 Score: 217
Period size: 41 Copynumber: 3.4 Consensus size: 41
36623979 TATATGATTG
* *
36623989 GCACTAAGTGTACGAAATTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
36624030 GCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
36624071 GCACTAAGTGTGCGAAACCAAATAATTATGTT-AATAACGG
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
36624111 GCACTAAGTGTGCGAAA
1 GCACTAAGTGTGCGAAA
36624128 TCGAGATCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 24 0.26
41 67 0.74
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Found at i:36629223 original size:31 final size:30
Alignment explanation
Indices: 36629180--36629237 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
36629170 TCAAAGGTAG
*
36629180 TTCTTTTCTCTTTTCTGGCATTTCATTTCAT
1 TTCTTTTCTCTTTTCTCG-ATTTCATTTCAT
* *
36629211 TTCTTTTTTCTTTTTTCGATTTCATTT
1 TTCTTTTCTCTTTTCTCGATTTCATTT
36629238 TGTTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (30 bp):
TTCTTTTCTCTTTTCTCGATTTCATTTCAT
Found at i:36629998 original size:17 final size:18
Alignment explanation
Indices: 36629978--36630011 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36629968 TGTTATTTGT
36629978 TTGTTAATCTGT-TATTA
1 TTGTTAATCTGTATATTA
*
36629995 TTGTTTATCTGTATATT
1 TTGTTAATCTGTATATT
36630012 TATTTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
TTGTTAATCTGTATATTA
Found at i:36635245 original size:16 final size:16
Alignment explanation
Indices: 36635221--36635261 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
36635211 AATATTTTTC
36635221 AAAAA-AAAATGAAT-G
1 AAAAAGAAAATG-ATGG
*
36635236 AAAATGAAAATGATGG
1 AAAAAGAAAATGATGG
36635252 AAAAAGAAAA
1 AAAAAGAAAA
36635262 GAAAAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (16 bp):
AAAAAGAAAATGATGG
Found at i:36637189 original size:24 final size:24
Alignment explanation
Indices: 36637154--36637209 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
36637144 GTCCCAAAAG
36637154 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
*
36637178 TATAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
36637202 TACAGTGG
1 TACAGTGG
36637210 GGGCAATCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:36637643 original size:45 final size:45
Alignment explanation
Indices: 36637539--36638666 Score: 504
Period size: 44 Copynumber: 24.8 Consensus size: 45
36637529 AGATGATGAA
* *
36637539 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * *
36637583 TCTTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGAGAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * *
36637628 TCTTATCCCCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGATAG-CAAG
* * * ** **
36637673 TCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * *
36637717 TCTTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * *
36637761 TCTTATCTCCCTGAAATTACAGTGGAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * * * * *
36637806 TCTTATCCCCCTGAAGTTGCAATGGGGTAGACTGAATG-TGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGATAGCAAG
* * ** *
36637851 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * *
36637895 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * *
36637939 TCTTATC-CTCATGAAGTTACAGTGGAGAAGACTAAAGATAGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGATAGC-AAG
* * * * ** **
36637984 TCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * *
36638028 TCTTATCTCCCTAAAGTTGCAATGGAACGGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * *
36638072 TCTTATCTCTCTAAAGTTACAGTGGAGCAGACTAAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGC-AAG
* * * * * **
36638117 TCTTATTTCTCTAAAGTTGCAGTGGAACAGATTTAAGCTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AT--AGCA-AG
* * * * * *
36638167 ATCTTATCTCTCTGAATTTGCAGTAGAGAAGA-T---CATATCAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * * * * *
36638208 ACATTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAGATACCAA-
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* *
36638253 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGC-AAG
* * * * *
36638297 TCCTATCTCCCTGAAGTTGCAGAGAAGCGGATTAAAACGAT-G-AAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAA-GATAGCAAG
* * * *
36638342 TC-TATAC-CTCTGAAGTTGCAGTAGGTTG--GATTAAATCTACCATAACAAG
1 TCTTAT-CTCCCTGAAGTTGCAGT-GG-AGCAGATT-AA---A-GATAGCAAG
* * *
36638391 TCTTCTCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGC-AAG
* * * * * *
36638436 TCTTATTTCCCTGGCA-TTGCGGTGGAACAGATTAAAGCTGAAAACAACG
1 TCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAA---GATAGCAA-G
* * * * *
36638485 AATCTTATTTCCCTGACGTTGCAGTGTAACATATTAAAGCTACAAATTATGGC-AG
1 --TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG------A-TA--GCAAG
* * * * ** *
36638540 ATCTTATCTTCCTGAAGTTGCAGTGTAGCAGATTGACGCCA-CCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
* * * *
36638585 -CTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGTGAA-
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAG-CAAG
* ** *
36638630 TCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
36638667 TTGAAGGCAG
Statistics
Matches: 820, Mismatches: 195, Indels: 137
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.00
41 22 0.03
42 2 0.00
43 13 0.02
44 358 0.44
45 267 0.33
46 19 0.02
47 9 0.01
48 7 0.01
49 11 0.01
50 21 0.03
51 54 0.07
54 32 0.04
55 2 0.00
56 1 0.00
57 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAG
Found at i:36637840 original size:178 final size:178
Alignment explanation
Indices: 36637537--36638108 Score: 690
Period size: 178 Copynumber: 3.2 Consensus size: 178
36637527 GAAGATGATG
* *
36637537 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCATGAAGTTA
* * *
36637602 CAGTAGAGCAGACTGAAGAGAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGACAGACTGAA-GA
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAATGGGACAGACTGAATG-
** * *
36637666 TGGTGAATCTTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCAAT
130 TGGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCAAC
* * * *
36637715 AATCTTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAATTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCATGAAGTTA
**
36637780 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAATGGGGTAGACTGAATGT
66 CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAATGGGACAGACTGAATGT
* *
36637845 GGCAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAC
131 GGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCAAC
*
36637893 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATC-CTCATGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTC-CATGAAGTT
* * * *** * * *
36637957 ACAGTGGAGAAGACTAAAGATAGCGAA-TCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAA-
65 ACAGTGGAGCAGACTGAAGAAAGC-AAGTCTTATCCCCCTGAAGTTGCAATGGGACAGACTGAAT
* * * * * **
36638020 --GCCAATAATCTTATCTCCCTAAAGTTGCAATGGAACGGATTAAAG-TTAC
129 GTGGC-A-AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCAAC
* * * * *
36638069 AAGTCTTATCTCTCTAAAGTTACAGTGGAGCAGACTAAAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG
36638109 ATAGCGAATC
Statistics
Matches: 343, Mismatches: 45, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
175 2 0.01
176 5 0.01
177 67 0.20
178 266 0.78
179 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (178 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCATGAAGTTA
CAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAATGGGACAGACTGAATGT
GGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCAAC
Found at i:36638002 original size:133 final size:132
Alignment explanation
Indices: 36637715--36638154 Score: 499
Period size: 133 Copynumber: 3.3 Consensus size: 132
36637705 TAAAGCCAAT
* * * * ** *
36637715 AATCTTATCTTCCTGAAGTTGTAGTGGAGCGGATTAAAG-TTACAAGTCTTATCTCCCTGAAATT
1 AATCTTATCTTCCTAAAGTTGCAGTGGAACAGATTAAAGCCAACAA-TCTTATCTCCCTGAAGTT
* * * * ** * * * * * *
36637779 ACAGTGGAGCAGACTGAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAATGGGGTAGACTGAATG
65 GCAGTGGAGCGGATTAAAGTTA-CAAGTCTTAT-CCTCTGAAGTTACAGTGGAGAAGACT-AAAG
* *
36637844 -TGGCA
127 ATAGCG
* *
36637849 AATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAACAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTTCCTAAAGTTGCAGTGGAACAGATTAAAGCCAACAATCTTATCTCCCTGAAGTTG
36637914 CAGTGGAGCGGATTAAAGTTACAAGTCTTATCCTCATGAAGTTACAGTGGAGAAGACTAAAGATA
66 CAGTGGAGCGGATTAAAGTTACAAGTCTTATCCTC-TGAAGTTACAGTGGAGAAGACTAAAGATA
36637979 GCG
130 GCG
* * * * *
36637982 AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCAATAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTTCCTAAAGTTGCAGTGGAACAGATTAAAGCCAACAATCTTATCTCCCTGAAGTTG
* * * *
36638047 CAATGGAACGGATTAAAGTTACAAGTCTTATCTCTCTAAAGTTACAGTGGAGCAGACTAAAGATA
66 CAGTGGAGCGGATTAAAGTTACAAGTCTTATC-CTCTGAAGTTACAGTGGAGAAGACTAAAGATA
36638112 GCG
130 GCG
*
36638115 AATCTTAT-TTCTCTAAAGTTGCAGTGGAACAGATTTAAGC
1 AATCTTATCTTC-CTAAAGTTGCAGTGGAACAGATTAAAGC
36638155 TATAAATTAC
Statistics
Matches: 267, Mismatches: 34, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
132 9 0.03
133 183 0.69
134 71 0.27
135 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (132 bp):
AATCTTATCTTCCTAAAGTTGCAGTGGAACAGATTAAAGCCAACAATCTTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAGTTACAAGTCTTATCCTCTGAAGTTACAGTGGAGAAGACTAAAGATAG
CG
Found at i:36638633 original size:194 final size:194
Alignment explanation
Indices: 36638396--36638819 Score: 629
Period size: 194 Copynumber: 2.2 Consensus size: 194
36638386 ACAAGTCTTC
* *
36638396 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGGCATTGCGGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGCGAATCTTATTTCCCTGGCATTGCAGTGG
*
36638461 AACAGATTAAAGCTGAAAACAACGAATCTTATTTCCCT-GACGTTGCAGTGTAACATATTAAAGC
66 AACAGATTAAAGCTGAAAACAACGAATCTTATTTCCCTAG-CGTTGCAGTGGAACATATTAAAGC
* * * *
36638525 TACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGTAGCAGATTGACGCCACC-AGCTTT
130 TACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAATC-CT
36638589 A
194 A
* *
36638590 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGTGAATCTTATTTCCCTGGCGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGCGAATCTTATTTCCCTGGCATTGCAGTGG
* ** * *
36638655 AACAGATTAAAGTTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATATATTAAAGCT
66 AACAGATTAAAGCTGAAAACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAACATATTAAAGCT
* *
36638720 ACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATTGAAGCGACCAATCCTA
131 ACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAATCCTA
* * * *
36638784 TCTCCCTAAAGTTGTAGTGGAGCGGA-TTAAAACAGC
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGC
36638820 AATTCCTATA
Statistics
Matches: 207, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
193 8 0.04
194 196 0.95
195 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (194 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAACAGCGAATCTTATTTCCCTGGCATTGCAGTGG
AACAGATTAAAGCTGAAAACAACGAATCTTATTTCCCTAGCGTTGCAGTGGAACATATTAAAGCT
ACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAATCCTA
Found at i:36641646 original size:20 final size:18
Alignment explanation
Indices: 36641621--36641663 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
36641611 ACAAAATTAT
36641621 AAAATTCATAATATTGTATA
1 AAAATTCA-AA-ATTGTATA
* *
36641641 AAAATTGAAAATTTTATA
1 AAAATTCAAAATTGTATA
36641659 AAAAT
1 AAAAT
36641664 GAAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAATTCAAAATTGTATA
Found at i:36642079 original size:13 final size:13
Alignment explanation
Indices: 36642061--36642102 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
36642051 TTTTTTTTCT
*
36642061 AATTTTAATTTTA
1 AATTTTAAATTTA
36642074 AATTTTAAATTT-
1 AATTTTAAATTTA
* *
36642086 AATATTAAATTAA
1 AATTTTAAATTTA
36642099 AATT
1 AATT
36642103 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:36642104 original size:17 final size:17
Alignment explanation
Indices: 36642078--36642116 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
36642068 ATTTTAAATT
* *
36642078 TTAAATTTAATATTAAA
1 TTAAAATTAAAATTAAA
36642095 TTAAAATTAAAATTAAA
1 TTAAAATTAAAATTAAA
36642112 -TAAAA
1 TTAAAA
36642117 CAAGTTGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATTAAAATTAAA
Found at i:36645151 original size:21 final size:22
Alignment explanation
Indices: 36645109--36645156 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
36645099 AAAATTATAT
*
36645109 CAAATAAATTTGTATTTTTAAA
1 CAAATAAATTTGTATTTATAAA
36645131 CAAA-AAATTTAGT-TTTATAAA
1 CAAATAAATTT-GTATTTATAAA
*
36645152 TAAAT
1 CAAAT
36645157 TACTTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
CAAATAAATTTGTATTTATAAA
Found at i:36659145 original size:55 final size:56
Alignment explanation
Indices: 36659009--36659145 Score: 163
Period size: 56 Copynumber: 2.4 Consensus size: 56
36658999 GATCTAACAT
* *
36659009 TATGTAAAATTATTAAGCCAAAAAATTTTTCTTAATGGTTAGTAAAATTTATCAAA
1 TATGTAAAATTATTAAGCCAAAAAATTTGTCTTAATGGTTAGTAAAATGTATCAAA
* * * * *
36659065 TAATCTCAAATTATTAAGTCC-AAAAA-TTGTGTTAATGGTTATTAAAGTGT-TCAAAA
1 T-ATGTAAAATTATTAAG-CCAAAAAATTTGTCTTAATGGTTAGTAAAATGTATC-AAA
36659121 TATGTAAAATTATTAAGCCAAAAAA
1 TATGTAAAATTATTAAGCCAAAAAA
36659146 ATTTTAAGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
54 2 0.03
55 21 0.31
56 24 0.35
57 19 0.28
58 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCAAAAAATTTGTCTTAATGGTTAGTAAAATGTATCAAA
Found at i:36659262 original size:57 final size:57
Alignment explanation
Indices: 36659148--36659922 Score: 1437
Period size: 57 Copynumber: 13.6 Consensus size: 57
36659138 CCAAAAAAAT
* *
36659148 TTTAAGTTA-GTTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTTAA
* *
36659205 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTAAATTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659262 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659319 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659376 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGG-TTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
*
36659432 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGGTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659489 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
* *
36659546 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTAAATTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659603 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
*
36659660 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGGTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659717 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659774 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
* *
36659831 TTTAGGTTAGGTTTGGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
36659888 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
36659923 GTTTTTATTT
Statistics
Matches: 699, Mismatches: 17, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
56 56 0.08
57 615 0.88
58 28 0.04
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (57 bp):
TTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAA
Found at i:36659892 original size:18 final size:18
Alignment explanation
Indices: 36659871--36659929 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 18
36659861 TTAGGTTAGA
36659871 TTAGGGTTTTTAGTTAAT
1 TTAGGGTTTTTAGTTAAT
*
36659889 TTA-GG---TTAGGT--T
1 TTAGGGTTTTTAGTTAAT
*
36659901 -TAGGGTTTTTAATTAAT
1 TTAGGGTTTTTAGTTAAT
36659918 TTAGGGTTTTTA
1 TTAGGGTTTTTA
36659930 TTTTATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
11 2 0.06
12 3 0.10
14 5 0.16
15 4 0.13
17 3 0.10
18 14 0.45
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (18 bp):
TTAGGGTTTTTAGTTAAT
Found at i:36660001 original size:26 final size:25
Alignment explanation
Indices: 36659970--36660018 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
36659960 CTTAAAAAAT
36659970 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
36659996 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
36660019 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:36660160 original size:24 final size:24
Alignment explanation
Indices: 36660132--36660184 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
36660122 GACGGTTCTT
*
36660132 CTTCCTCTGGTGCTGATTGTGGTC
1 CTTCCTCCGGTGCTGATTGTGGTC
* * *
36660156 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGCTGATTGTGGTC
36660180 CTTCC
1 CTTCC
36660185 GGTTCGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.02, C:0.26, G:0.30, T:0.42
Consensus pattern (24 bp):
CTTCCTCCGGTGCTGATTGTGGTC
Found at i:36660483 original size:18 final size:18
Alignment explanation
Indices: 36660439--36660484 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
36660429 TATTCGGAAA
* *
36660439 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
36660457 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
36660475 AGGAAACATA
1 AGGATACATA
36660485 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:36661139 original size:7 final size:7
Alignment explanation
Indices: 36661129--36661153 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36661119 TTATATACAT
36661129 AATACTA
1 AATACTA
36661136 AATACTA
1 AATACTA
36661143 AATACTA
1 AATACTA
36661150 AATA
1 AATA
36661154 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:36662267 original size:30 final size:29
Alignment explanation
Indices: 36662233--36662296 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
36662223 GCCATTGATG
36662233 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAA-TTAAAATTATTTTAA
*
36662263 AAAATATAAAAAAATTATAATTATTTTAA
1 AAAATATAAAAAAATTAAAATTATTTTAA
36662292 AAAAT
1 AAAAT
36662297 GGATTTGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATATAAAAAAATTAAAATTATTTTAA
Found at i:36662327 original size:22 final size:22
Alignment explanation
Indices: 36662301--36662353 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
36662291 AAAAATGGAT
36662301 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
36662323 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
36662345 TTGAGAGAA
1 TTGAGAGAA
36662354 CTAGAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:36669933 original size:24 final size:23
Alignment explanation
Indices: 36669888--36669935 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
36669878 GTAAGTTAAA
*
36669888 ATTTTGGTAAATGATGTATATAT
1 ATTTTGATAAATGATGTATATAT
* *
36669911 ATTTTGATATAATTATGTTTATAT
1 ATTTTGATA-AATGATGTATATAT
36669935 A
1 A
36669936 AGTAAATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (23 bp):
ATTTTGATAAATGATGTATATAT
Found at i:36680386 original size:68 final size:68
Alignment explanation
Indices: 36680269--36680459 Score: 247
Period size: 68 Copynumber: 2.8 Consensus size: 68
36680259 CGACTTAATT
* **
36680269 TGTTTCCATAGCCGAGCTATGGTCTTACGTAATGTAACCCAATGTTTATTGTCCTAGCAGACTCC
1 TGTTACCATAGCCGAGCTATGGTCTTACACAATGTAACCCAATGTTTATTGTCCTAGCAGACTCC
36680334 ATA
66 ATA
* * * * * * * *
36680337 TGTTGCTATAGCCGAACTATGGTCTTATACAATGTAACCCTATGCTTATTGTCTTGGCAGACTCC
1 TGTTACCATAGCCGAGCTATGGTCTTACACAATGTAACCCAATGTTTATTGTCCTAGCAGACTCC
36680402 ATA
66 ATA
** * *
36680405 TGTTACCATAGTAGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTTTCCT
1 TGTTACCATAGCCGAGCTATGGTCTTACACAATGTAACCCAATGTTTATTGTCCT
36680460 GGAGGACTCT
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 103 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (68 bp):
TGTTACCATAGCCGAGCTATGGTCTTACACAATGTAACCCAATGTTTATTGTCCTAGCAGACTCC
ATA
Found at i:36685081 original size:19 final size:19
Alignment explanation
Indices: 36685050--36685098 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
36685040 AAAAATATAA
* *
36685050 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTAAAAAAT
36685070 ATTTTGAATTTTAAAAAAT
1 ATTTTGAATTTTAAAAAAT
*
36685089 GTTTTGAATT
1 ATTTTGAATT
36685099 ATTGTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAAAT
Found at i:36689601 original size:10 final size:10
Alignment explanation
Indices: 36689586--36689639 Score: 83
Period size: 10 Copynumber: 5.4 Consensus size: 10
36689576 TTCTCAGTGA
36689586 AAAAAATTAT
1 AAAAAATTAT
36689596 AAAAAATTAT
1 AAAAAATTAT
36689606 AAAAAA-TAT
1 AAAAAATTAT
*
36689615 ATAAAATTAT
1 AAAAAATTAT
36689625 AAAAAATATAT
1 AAAAAAT-TAT
36689636 AAAA
1 AAAA
36689640 TTTTCAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.20
10 25 0.62
11 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:36689649 original size:19 final size:19
Alignment explanation
Indices: 36689586--36689641 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
36689576 TTCTCAGTGA
*
36689586 AAAAAATTATAAAAAATTAT
1 AAAAAA-TATATAAAATTAT
36689606 AAAAAATATATAAAATTAT
1 AAAAAATATATAAAATTAT
36689625 AAAAAATATATAAAATT
1 AAAAAATATATAAAATT
36689642 TTCAAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 29 0.83
20 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAATATATAAAATTAT
Found at i:36694663 original size:50 final size:52
Alignment explanation
Indices: 36694547--36694671 Score: 155
Period size: 50 Copynumber: 2.4 Consensus size: 52
36694537 TTTTTCTAAC
* * * *
36694547 TCTTACATGATATGGTCTTCTGCCTATATGATTCCATAACCCACCAGTTACGG
1 TCTTACACGATATGGTCTTCTTCCTACATGA-TCCATAACCCACCAATTACGG
* * *
36694600 TCTTACACAATATGGTCTTCTTCCTACATG-T-CATAGCCCACCAATTATGG
1 TCTTACACGATATGGTCTTCTTCCTACATGATCCATAACCCACCAATTACGG
*
36694650 TCTTACACGATATGGTATTCTT
1 TCTTACACGATATGGTCTTCTT
36694672 TCAATGCCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 36 0.57
51 1 0.02
53 26 0.41
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (52 bp):
TCTTACACGATATGGTCTTCTTCCTACATGATCCATAACCCACCAATTACGG
Found at i:36696067 original size:14 final size:14
Alignment explanation
Indices: 36696048--36696075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36696038 TACACTCTAA
36696048 AATTTTGAGAATTT
1 AATTTTGAGAATTT
36696062 AATTTTGAGAATTT
1 AATTTTGAGAATTT
36696076 GCAGTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
AATTTTGAGAATTT
Found at i:36708647 original size:16 final size:15
Alignment explanation
Indices: 36708614--36708655 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
36708604 AGATGATAAT
36708614 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
36708630 TATTCATTATAATATA
1 TATTAATTATAAT-TA
36708646 TATTAATTAT
1 TATTAATTAT
36708656 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:36724305 original size:25 final size:25
Alignment explanation
Indices: 36724255--36724306 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
36724245 TATAACGGGT
*
36724255 AGCTCCGAAGAGCCATCAATCGGGA
1 AGCTCCGAAGAGCCATCAATCAGGA
* *
36724280 AGCTCCGGATAGCCAT-ATATCAGGA
1 AGCTCCGAAGAGCCATCA-ATCAGGA
36724305 AG
1 AG
36724307 TTCAAGCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.15
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATCAATCAGGA
Found at i:36728530 original size:19 final size:17
Alignment explanation
Indices: 36728507--36728565 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
36728497 TAAAAATGAA
36728507 AAAAAATATTAATAAATT
1 AAAAAATATTAA-AAATT
36728525 CCAAAAACAT-TTAAAAATT
1 --AAAAA-ATATTAAAAATT
36728544 AAAAAATTATTAAAAATAT
1 AAAAAA-TATTAAAAAT-T
36728563 AAA
1 AAA
36728566 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 8 0.23
19 9 0.26
20 9 0.26
21 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATATTAAAAATT
Found at i:36740605 original size:3 final size:3
Alignment explanation
Indices: 36740597--36740626 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36740587 TAATCTTAAT
36740597 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
36740627 TGAGGGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:36747460 original size:13 final size:13
Alignment explanation
Indices: 36747442--36747466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36747432 CTTCTGGTTT
36747442 AACTTCTAAAATC
1 AACTTCTAAAATC
36747455 AACTTCTAAAAT
1 AACTTCTAAAAT
36747467 TGTGTCTTGT
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AACTTCTAAAATC
Found at i:36748964 original size:41 final size:41
Alignment explanation
Indices: 36748911--36749061 Score: 162
Period size: 41 Copynumber: 3.7 Consensus size: 41
36748901 CATAATTTAA
36748911 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
* * * *
36748953 CATATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
** ** * *
36748994 CCGATCACCGGCACTTAGCCTGCTAGATTTATAGTCTGAA-A
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCT-AATT
* *
36749035 AAT-TCACCGGCATTTAGCCTGCTAGGC
1 CATATCACCGGCACTTAGCCTGCTAGGC
36749062 GCTTAGCCTG
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 21 0.23
41 64 0.71
42 5 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATT
Found at i:36756710 original size:40 final size:41
Alignment explanation
Indices: 36756650--36756757 Score: 155
Period size: 40 Copynumber: 2.6 Consensus size: 41
36756640 CATAATTTAA
*
36756650 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCT-ATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
36756691 CATATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
**
36756732 CCGATCACCGGCACTTAGCCTGCTAG
1 CATATCACCGGCACTTAGCCTGCTAG
36756758 ATTTATAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 30 0.50
41 30 0.50
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Done.