Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 150 of 226
Found at i:49226543 original size:50 final size:50
Alignment explanation
Indices: 49226439--49226696 Score: 268
Period size: 50 Copynumber: 5.3 Consensus size: 50
49226429 ATAACTTATT
*
49226439 TATTATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGCTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAAGTTGTG
* * *
49226491 TATTATGAAACTTATGTAAGTTGTGTATTATG-ATGGTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTGTATTATGTA-AGTTATGTAAGTTGTG
* * * *
49226541 TATTATGTAAGTTATGTTAGTTGTGTATTATGAAACTTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTG
* * * * *
49226591 TCTTATGTAAGTGATGT-AGAATATGTATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAG-TTGTGTATTATGTAAGTTATGTAAGTTGTG
*
49226641 TATTATGTAA---AT-T-A----TGTATTATGTAAGTTATGTAATTTGTG
1 TATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTG
*
49226682 TATTATGTAACTTAT
1 TATTATGTAAGTTAT
49226697 TTAATTTATG
Statistics
Matches: 179, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
41 35 0.20
44 2 0.01
46 2 0.01
47 2 0.01
49 3 0.02
50 109 0.61
51 2 0.01
52 24 0.13
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.47
Consensus pattern (50 bp):
TATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTG
Found at i:49226568 original size:75 final size:75
Alignment explanation
Indices: 49226434--49226696 Score: 305
Period size: 75 Copynumber: 3.6 Consensus size: 75
49226424 TAGGAATAAC
* *
49226434 TTATTTATTATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGCTATGTAAGTTGTGTATTATGA
1 TTATGTATTATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAAGTTGTGTATTATGA
49226499 AACTTATGTAAG
64 AACTTATGTAAG
* * *
49226511 TTGTGTATTATG-ATGGTTATGTAAGTTGTGTATTATGTAAGTTATGTTAGTTGTGTATTATGAA
1 TTATGTATTATGTA-AGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGAA
49226575 ACTTATGTAAG
65 ACTTATGTAAG
* * * * *
49226586 TTATGTCTTATGTAAGTGATGT-AGAATATGTATTATGTAAGTTATGTCAGTTGTGTATTATG--
1 TTATGTATTATGTAAGTTATGTAAG-TTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGAA
49226648 ---TA---AA-
65 ACTTATGTAAG
* *
49226652 TTATGTATTATGTAAGTTATGTAATTTGTGTATTATGTAACTTAT
1 TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTAT
49226697 TTAATTTATG
Statistics
Matches: 164, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
66 37 0.23
67 3 0.02
70 2 0.01
74 2 0.01
75 91 0.55
76 3 0.02
77 26 0.16
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (75 bp):
TTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTGTGTATTATGAAA
CTTATGTAAG
Found at i:49226622 original size:41 final size:40
Alignment explanation
Indices: 49226577--49226711 Score: 130
Period size: 41 Copynumber: 3.2 Consensus size: 40
49226567 ATTATGAAAC
49226577 TTATGTAAGTTATGTC-TTATGTAAGTGATGTAGAA-TATGTA
1 TTATGTAAGTTATGTCATTATGT-A-TGATGTA-AATTATGTA
* *
49226618 TTATGTAAGTTATGTCAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTCA-TTATGTATGATGTAAATTATGTA
* * * * *
49226659 TTATGTAAGTTATGTAATTTGTGTATTATGTAACTTATTTAA
1 TTATGTAAGTTATGTCA-TTATGTATGATGTAAATTATGT-A
49226701 TTTATGTAAGT
1 -TTATGTAAGT
49226712 GTGTATTATT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
40 2 0.02
41 64 0.77
42 2 0.02
43 15 0.18
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (40 bp):
TTATGTAAGTTATGTCATTATGTATGATGTAAATTATGTA
Found at i:49226671 original size:25 final size:24
Alignment explanation
Indices: 49226542--49226732 Score: 102
Period size: 25 Copynumber: 7.6 Consensus size: 24
49226532 TAAGTTGTGT
* *
49226542 ATTATGTAAGTTATGTTAGTTGTGT-
1 ATTATGTAATTTATG-TA-TTATGTA
* *
49226567 ATTATGAAACTTATGTAAGTTATGT-
1 ATTATGTAATTTATGT-A-TTATGTA
* * * *
49226592 CTTATGTAAGTGATGTAGAATATGT-
1 ATTATGTAATTTATGT--ATTATGTA
* *
49226617 ATTATGTAAGTTATGTCAGTTGTGT-
1 ATTATGTAATTTATGT-A-TTATGTA
*
49226642 ATTATGTAAATTATGTATTATGTA
1 ATTATGTAATTTATGTATTATGTA
*
49226666 AGTTATGTAATTTGTGTATTATGTA
1 A-TTATGTAATTTATGTATTATGTA
* * *
49226691 ACTTATTTAATTTATGTAAGTGTGTA
1 A-TTATGTAATTTATGT-ATTATGTA
49226717 TTATTATGTAATTTAT
1 --ATTATGTAATTTAT
49226733 AATGTAGGAT
Statistics
Matches: 134, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.04
24 4 0.03
25 105 0.78
26 7 0.05
27 12 0.09
28 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (24 bp):
ATTATGTAATTTATGTATTATGTA
Found at i:49227005 original size:87 final size:87
Alignment explanation
Indices: 49226907--49227299 Score: 443
Period size: 87 Copynumber: 4.5 Consensus size: 87
49226897 CTTAAAAATT
* *
49226907 TAATACTAATAAATTTA-ATATTTAAACAATATTTATAATTATCTAGAAAACTTTTAAATTTTAT
1 TAATACTAAT-AATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
49226971 AGGTTATATTAAAACAATATTTA
65 AGGTTATATTAAAACAATATTTA
49226994 TAATACTAATAAATTTA-ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
1 TAATACTAAT-AATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTAT
49227058 AGGTTATATTAAAACAATATTTA
65 AGGTTATATTAAAACAATATTTA
* * * *
49227081 TAATACTAAT-A--TAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAAAT
1 TAATACTAATAATTTAGATATTAAAACAATATTTATAATTATTTAGAAA---ACT--T-TTAAAT
* * * *
49227143 TTAATA-CTAATA-TAGAAACCTTATAAATTTA
60 TTTATAGGTTATATTA-AAA-C--A-ATATTTA
* * *
49227174 GAAAACT--T-ATATAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATA
1 TAATACTAATAATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATA
49227236 GGTTATATTAAAACAATATTTA
66 GGTTATATTAAAACAATATTTA
* *
49227258 TAATACTAAT-A--TAGATATTAAAACAATATTTAGAATTTTTTA
1 TAATACTAATAATTTAGATATTAAAACAATATTTATAATTATTTA
49227300 TAAATTTAAT
Statistics
Matches: 264, Mismatches: 24, Indels: 39
0.81 0.07 0.12
Matches are distributed among these distances:
83 2 0.01
84 70 0.27
85 2 0.01
86 2 0.01
87 108 0.41
88 10 0.04
89 10 0.04
90 13 0.05
91 2 0.01
92 1 0.00
93 44 0.17
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (87 bp):
TAATACTAATAATTTAGATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATA
GGTTATATTAAAACAATATTTA
Found at i:49227034 original size:18 final size:18
Alignment explanation
Indices: 49226974--49227034 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 18
49226964 ATTTTATAGG
49226974 TTAT-ATTAAAACAATAT
1 TTATAATTAAAACAATAT
* *
49226991 TTATAA-TACTAATAA-AT
1 TTATAATTA-AAACAATAT
49227008 TTA-ATATTAAAACAATAT
1 TTATA-ATTAAAACAATAT
49227026 TTATAATTA
1 TTATAATTA
49227035 TTTAGAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
16 1 0.03
17 16 0.47
18 16 0.47
19 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATAATTAAAACAATAT
Found at i:49227142 original size:15 final size:15
Alignment explanation
Indices: 49227122--49227154 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49227112 AGAATTATTT
*
49227122 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
49227137 ATAAATTTAATACTA
1 ATAAATTTAATACTA
49227152 ATA
1 ATA
49227155 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:49227201 original size:177 final size:177
Alignment explanation
Indices: 49227011--49227396 Score: 754
Period size: 177 Copynumber: 2.2 Consensus size: 177
49227001 AATAAATTTA
49227011 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
49227076 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
49227141 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
49227188 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
1 ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
*
49227253 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTTTTTATAAATTTAATAGTAATAA
66 ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
*
49227318 ATTTAATACTAATATAGAAACCTTATAAGTTTAGAAAACTTATATAG
131 ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
49227365 ATATTAAAACAATATTTATAATTATTTAGAAA
1 ATATTAAAACAATATTTATAATTATTTAGAAA
49227397 TGTTATCATT
Statistics
Matches: 207, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 207 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (177 bp):
ATATTAAAACAATATTTATAATTATTTAGAAAACTTTTAAATTTTATAGGTTATATTAAAACAAT
ATTTATAATACTAATATAGATATTAAAACAATATTTAGAATTATTTATAAATTTAATAGTAATAA
ATTTAATACTAATATAGAAACCTTATAAATTTAGAAAACTTATATAG
Found at i:49227226 original size:21 final size:21
Alignment explanation
Indices: 49227169--49227230 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
49227159 AACCTTATAA
*
49227169 ATTTAGAAAACTTATATAGA-T
1 ATTTAGAAAACTTTTATA-ATT
*
49227190 A-TTA-AAACAATATTTATAATT
1 ATTTAGAAA-ACT-TTTATAATT
49227211 ATTTAGAAAACTTTTA-AATT
1 ATTTAGAAAACTTTTATAATT
49227231 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:49227319 original size:15 final size:15
Alignment explanation
Indices: 49227299--49227331 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49227289 AGAATTTTTT
*
49227299 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
49227314 ATAAATTTAATACTA
1 ATAAATTTAATACTA
49227329 ATA
1 ATA
49227332 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:49228746 original size:24 final size:26
Alignment explanation
Indices: 49228718--49228765 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
49228708 CTGGGGGAAT
49228718 AGGAATTGGGG-GGAA-ATGAAATCG
1 AGGAATTGGGGAGGAATATGAAATCG
49228742 AGGAATTGGGGAGGAATATGAAAT
1 AGGAATTGGGGAGGAATATGAAAT
49228766 GGGAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.40, C:0.02, G:0.40, T:0.19
Consensus pattern (26 bp):
AGGAATTGGGGAGGAATATGAAATCG
Found at i:49230292 original size:233 final size:239
Alignment explanation
Indices: 49229997--49230439 Score: 655
Period size: 233 Copynumber: 1.9 Consensus size: 239
49229987 GTTTTGGTTC
* *
49229997 AGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACGAAACACTGC
1 AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGC
* * ** * * *
49230062 GTTTTGTTAAGGTACTTTGCGGCGCTTCGGCTAAAGCGCCGCTAATGCTATTCTATAACGGCGTT
66 GTTTTCTTAAGATAAGTTGCGGCGCTTAGGCTAAAGCGCCGCTAAAGATATTCTATAACGGCGTT
* * *
49230127 TTCTAGTAAGCG-C-C-ACTA-A-TATA-ATCAAAATTAAAACTATGCATTTTAGTTAAGATATT
131 TTCTAGTAAGCGTCACTAATATAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATATT
*
49230186 TTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
196 TTGCGGCGCTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
* *
49230230 AGATTTTTTGCGGCGTTTTCCCATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGC
1 AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGC
* * *
49230295 GTTTTCTTAAGATAAGTTGCGGCGCTTAGTCTAAATCGCCGCTAAAGATATTCTTTAACGGCGTT
66 GTTTTCTTAAGATAAGTTGCGGCGCTTAGGCTAAAGCGCCGCTAAAGATATTCTATAACGGCGTT
* *
49230360 TTCTTGTAAGCGTCACTAATATTAGTATACATCAAAATTAAAACTACGCGTTTTAGTAAAGATAT
131 TTCTAGTAAGCGTCACTAATA-TAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATAT
49230425 TTTGCGGCGCTTTAA
195 TTTGCGGCGCTTTAA
49230440 ACAAAACGCC
Statistics
Matches: 183, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
233 127 0.69
234 1 0.01
235 1 0.01
236 3 0.02
238 1 0.01
239 4 0.02
240 46 0.25
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (239 bp):
AGATATTTTGCGGCGTTTTCACATAAGCGCCACTAAATGTAACATAGCTTAAGACCAAACACTGC
GTTTTCTTAAGATAAGTTGCGGCGCTTAGGCTAAAGCGCCGCTAAAGATATTCTATAACGGCGTT
TTCTAGTAAGCGTCACTAATATAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGATATT
TTGCGGCGCTTTAACGTCAGCGCCACTAATTGAAGTATACATCG
Found at i:49232018 original size:23 final size:23
Alignment explanation
Indices: 49231988--49232031 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
49231978 AAATAAATTA
*
49231988 TTTAAAAAATTCATAAAATTGTT
1 TTTAAAAAATACATAAAATTGTT
*
49232011 TTTAAAAAATAGATAAAATTG
1 TTTAAAAAATACATAAAATTG
49232032 GTTCAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTAAAAAATACATAAAATTGTT
Found at i:49232351 original size:9 final size:9
Alignment explanation
Indices: 49232302--49232367 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
49232292 AGGAAGAAGG
49232302 AAAATAGAAA
1 AAAATA-AAA
*
49232312 AAAA-AAGA
1 AAAATAAAA
* *
49232320 AAGATAAAT
1 AAAATAAAA
*
49232329 AATATAAAA
1 AAAATAAAA
49232338 TAAAATAAAA
1 -AAAATAAAA
49232348 AAAATAAAA
1 AAAATAAAA
* *
49232357 GAATTAAAA
1 AAAATAAAA
49232366 AA
1 AA
49232368 TAATTTTTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
8 5 0.11
9 27 0.61
10 12 0.27
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:49233503 original size:22 final size:22
Alignment explanation
Indices: 49233461--49233503 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
49233451 GGCCAGGCCT
*
49233461 ATTTTTTTAATAAACACAAAAA
1 ATTTTTTTAATAAACAAAAAAA
*
49233483 ATTTATTTTAA-AAATAAAAAA
1 ATTT-TTTTAATAAACAAAAAA
49233504 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTTTTAATAAACAAAAAAA
Found at i:49233520 original size:29 final size:30
Alignment explanation
Indices: 49233478--49233546 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
49233468 TAATAAACAC
*
49233478 AAAAAAT-TTATTTTAAAAATA-AAAAATA
1 AAAAAATAATATTTTAAAAATATAAAAATA
49233506 AAAAAATAATATTTTAAAAATATTTTAAAAATA
1 AAAAAATAATATTTTAAAAATA---TAAAAATA
49233539 AAAAAATA
1 AAAAAATA
49233547 TTTATTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 7 0.20
29 13 0.37
33 15 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAAATAATATTTTAAAAATATAAAAATA
Found at i:49233527 original size:11 final size:11
Alignment explanation
Indices: 49233513--49233538 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49233503 ATAAAAAAAT
49233513 AATATTTTAAA
1 AATATTTTAAA
49233524 AATATTTTAAA
1 AATATTTTAAA
49233535 AATA
1 AATA
49233539 AAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATTTTAAA
Found at i:49239145 original size:16 final size:16
Alignment explanation
Indices: 49239110--49239160 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
49239100 TGAATTACCG
*
49239110 ATTACAGTTCTA-TTC
1 ATTACAATTCTATTTC
49239125 TATTACAATTCTATTTC
1 -ATTACAATTCTATTTC
* * *
49239142 ATTATAATCCTATTCC
1 ATTACAATTCTATTTC
49239158 ATT
1 ATT
49239161 TTCCCAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTACAATTCTATTTC
Found at i:49247256 original size:17 final size:17
Alignment explanation
Indices: 49247228--49247262 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49247218 TAATTTTACT
49247228 ATAATGACAAAAGACTGA
1 ATAATGACAAAAGA-TGA
49247246 ATAAT-ACAAAAGATGA
1 ATAATGACAAAAGATGA
49247262 A
1 A
49247263 CACAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (17 bp):
ATAATGACAAAAGATGA
Found at i:49247438 original size:24 final size:24
Alignment explanation
Indices: 49247411--49247462 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49247401 TTTGTAAGTG
*
49247411 AAATAAATTATACAAATAAATGCT
1 AAATAAATTATACAAATAAATACT
* *
49247435 AAATATATTATACTAATAAATACT
1 AAATAAATTATACAAATAAATACT
49247459 AAAT
1 AAAT
49247463 CTTCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACAAATAAATACT
Found at i:49253057 original size:20 final size:20
Alignment explanation
Indices: 49253032--49253080 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
49253022 TGAACCATTA
*
49253032 ATATCGATACCAAAGAAATT
1 ATATCGATACCAAAGAAAAT
*
49253052 ATATCGATACCAAATAAAAT
1 ATATCGATACCAAAGAAAAT
*
49253072 GTATCGATA
1 ATATCGATA
49253081 TCGTATCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (20 bp):
ATATCGATACCAAAGAAAAT
Found at i:49259892 original size:21 final size:21
Alignment explanation
Indices: 49259845--49259892 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
49259835 CTGAAAAAGT
* *
49259845 TAGTTAAAAGGAGTTAGTTAG
1 TAGTTAAAAGGAATTAGTTAA
*
49259866 TTGTTAAACA-GAATTAGTTAA
1 TAGTTAAA-AGGAATTAGTTAA
49259887 TAGTTA
1 TAGTTA
49259893 GCTATTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
TAGTTAAAAGGAATTAGTTAA
Found at i:49267542 original size:19 final size:17
Alignment explanation
Indices: 49267518--49267554 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
49267508 GAGGTGCAAA
49267518 TCAATTATTATTCTAGTCT
1 TCAATTATT-TTCTA-TCT
49267537 TCAATTATTTTCTATCT
1 TCAATTATTTTCTATCT
49267554 T
1 T
49267555 AAAACTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (17 bp):
TCAATTATTTTCTATCT
Found at i:49271647 original size:21 final size:21
Alignment explanation
Indices: 49271622--49271661 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49271612 TACCTTTCTA
* *
49271622 AAGTTAAATGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
49271643 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
49271662 CGTTGTTTTG
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:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:49278639 original size:35 final size:35
Alignment explanation
Indices: 49278600--49278669 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
49278590 TAAGCATCAC
49278600 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
1 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
49278635 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
1 TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
49278670 AATTAACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (35 bp):
TTAAGATATTTAAAACGACGCAATCCAATGCTGAA
Found at i:49287027 original size:15 final size:15
Alignment explanation
Indices: 49287007--49287043 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
49286997 CCTTTAACCA
49287007 AGGTTTTGCCCCATT
1 AGGTTTTGCCCCATT
49287022 AGGTTTTGCCCCATT
1 AGGTTTTGCCCCATT
49287037 AGGTTTT
1 AGGTTTT
49287044 CCTGGTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (15 bp):
AGGTTTTGCCCCATT
Found at i:49289857 original size:18 final size:18
Alignment explanation
Indices: 49289788--49289862 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
49289778 ATAATAGTTC
* *
49289788 TATTTTTAAATAAATAAAA
1 TATTTTTAAATATAT-AAT
*
49289807 TATTTTTAACTA-ATAAT
1 TATTTTTAAATATATAAT
* **
49289824 TGTAAATTAAAT-TATAAT
1 TAT-TTTTAAATATATAAT
49289842 TATTTTTAAATATATAAT
1 TATTTTTAAATATATAAT
49289860 TAT
1 TAT
49289863 CACAACTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 10 0.23
18 23 0.52
19 11 0.25
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATTTTTAAATATATAAT
Found at i:49294582 original size:19 final size:18
Alignment explanation
Indices: 49294558--49294595 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49294548 ATATCTCTCA
49294558 GGCAAAGTAGAGTGATAAT
1 GGCAAA-TAGAGTGATAAT
*
49294577 GGCAAATGGAGTGATAAT
1 GGCAAATAGAGTGATAAT
49294595 G
1 G
49294596 CCCGGCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.21
Consensus pattern (18 bp):
GGCAAATAGAGTGATAAT
Found at i:49298487 original size:113 final size:112
Alignment explanation
Indices: 49298334--49298993 Score: 585
Period size: 113 Copynumber: 5.8 Consensus size: 112
49298324 AAATCACAAG
* * * *
49298334 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACAAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-AGA-AAACGCCGC
* *
49298399 TAATGCATAGTATTAGCGGCGCTTAGTAG-AAGCGCCGCAAAAGATGTTA
63 TAATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
*
49298448 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGC-T-T-AAGAAAACGCCGC
* * * * * * * *
49298513 TAATGTATAGTATTAGCGACGCTGAGCGTTAAACGCCACAAAACATATTA
63 TAATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
* * * * *
49298563 ACCAAAACGCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTAAGGAAAACGCCACT
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAA-GAAAACGCCGCT
* * * * * * * *
49298628 AAAGCATAGTAATAGCAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTA
64 AATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
* * *
49298677 ACCAAAACGCGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA--AGAAAACGCCGCT
* * * * *
49298742 AA-ACTACAGTAGTAGCGGCG-TTTGTGGAAAGCGCCGC-AAAG-TATCCTA
64 AATGC-ATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATAT--TA
* * * ** * *
49298790 ACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCGCTTATTTCAAAATGCTGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA--AGAAAACGCCGCT
* * * * * *
49298855 AATGCTTACTATTTGCGACGCTTTGTGGTAAGCGCTGCCAAAAGATATTA
64 AATGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCG-CAAAAGATATTA
* * * * * * **
49298905 ACGAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGCACACAGGAAAACGCCGC
1 ACCAAAACGCAGAGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTA-A-GAAAACGCCGC
49298970 TGAA-GCATAGTATTAGCGGCGCTT
63 T-AATGCATAGTATTAGCGGCGCTT
49298994 TTCCCGAAAT
Statistics
Matches: 439, Mismatches: 88, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
111 2 0.00
112 3 0.01
113 149 0.34
114 145 0.33
115 50 0.11
116 85 0.19
117 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTAAGAAAACGCCGCTAA
TGCATAGTATTAGCGGCGCTTAGTGGTAAGCGCCGCAAAAGATATTA
Found at i:49299586 original size:81 final size:79
Alignment explanation
Indices: 49299432--49299598 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 79
49299422 TTCGGTGTCA
* * * *
49299432 GGTTAGGCTTTAGGGTTTATATTAATTAGTGTGTTTTAATTTTTATAAAATATGGTTTAAGGGTT
1 GGTTAGGATTTAGGGTTTATATTAATTAATATGTTTTAATTTTTATAAAATAAGGTTT-AGGGTT
* *
49299497 ACGGGTTAGGGATTTG
65 ACGAGTTAGGG-TTGG
* *
49299513 GGTTAGGATTTAGGGTTT-TGATTAATTAATATTTTTTAATTTATGTATTAAATAAGGTTT-GGG
1 GGTTAGGATTTAGGGTTTAT-ATTAATTAATATGTTTTAATTT-T-TATAAAATAAGGTTTAGGG
49299576 TTA-GTAGTTAGGGTTGG
63 TTACG-AGTTAGGGTTGG
49299593 GGTTAG
1 GGTTAG
49299599 TGGTTTGGGT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
80 11 0.15
81 49 0.66
82 1 0.01
83 13 0.18
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (79 bp):
GGTTAGGATTTAGGGTTTATATTAATTAATATGTTTTAATTTTTATAAAATAAGGTTTAGGGTTA
CGAGTTAGGGTTGG
Found at i:49299595 original size:19 final size:19
Alignment explanation
Indices: 49299568--49299609 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49299558 TATTAAATAA
*
49299568 GGTTTGGGTTAGTAGTTAG
1 GGTTGGGGTTAGTAGTTAG
* *
49299587 GGTTGGGGTTAGTGGTTTG
1 GGTTGGGGTTAGTAGTTAG
49299606 GGTT
1 GGTT
49299610 AAGGGTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.48, T:0.43
Consensus pattern (19 bp):
GGTTGGGGTTAGTAGTTAG
Found at i:49300014 original size:15 final size:15
Alignment explanation
Indices: 49299996--49300037 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
49299986 TGGTTTTGAC
*
49299996 TTTTAGTGTTTGGGG
1 TTTTAGGGTTTGGGG
*
49300011 TTTTGGGGTTTGGGG
1 TTTTAGGGTTTGGGG
*
49300026 -TTTGGGGTTTGG
1 TTTTAGGGTTTGG
49300038 TTTTTGAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (15 bp):
TTTTAGGGTTTGGGG
Found at i:49300017 original size:8 final size:7
Alignment explanation
Indices: 49300003--49300037 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
49299993 GACTTTTAGT
49300003 GTTTGGG
1 GTTTGGG
49300010 GTTTTGGG
1 G-TTTGGG
49300018 GTTTGGG
1 GTTTGGG
49300025 GTTTGGG
1 GTTTGGG
49300032 GTTTGG
1 GTTTGG
49300038 TTTTTGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (7 bp):
GTTTGGG
Found at i:49300043 original size:14 final size:14
Alignment explanation
Indices: 49300003--49300049 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
49299993 GACTTTTAGT
49300003 GTTTGGGGTTTTGGG
1 GTTT-GGGTTTTGGG
*
49300018 GTTTGGGGTTTGGG
1 GTTTGGGTTTTGGG
* *
49300032 GTTTGGTTTTTGAG
1 GTTTGGGTTTTGGG
49300046 GTTT
1 GTTT
49300050 AAGGTTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (14 bp):
GTTTGGGTTTTGGG
Found at i:49300829 original size:44 final size:44
Alignment explanation
Indices: 49300762--49300848 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
49300752 AGCGACTGCA
* * *
49300762 TTTTGACTTACAGTTAGTGGCGCTTAGTTTAAAACGCCGCAAAG
1 TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAAG
* * *
49300806 TTTTGACTTATAGTTTGTAGCGCTTTGCTTAAAACACCGCAAA
1 TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAA
49300849 AATGTTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (44 bp):
TTTTGACTTACAGTTAGTAGCGCTTAGCTTAAAACACCGCAAAG
Found at i:49302320 original size:16 final size:16
Alignment explanation
Indices: 49302299--49302334 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
49302289 GTATTTATAA
*
49302299 TTATCGATTTTCAATT
1 TTATCGATTTACAATT
49302315 TTATCGATTTACAATT
1 TTATCGATTTACAATT
49302331 TTAT
1 TTAT
49302335 TTCAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:49302770 original size:13 final size:13
Alignment explanation
Indices: 49302727--49302763 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
49302717 TTACTAAAAT
*
49302727 TTACTTTAATATA
1 TTACTTAAATATA
*
49302740 TTACTTGAATATA
1 TTACTTAAATATA
49302753 TTACTTAAATA
1 TTACTTAAATA
49302764 ATTTACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:49303580 original size:21 final size:21
Alignment explanation
Indices: 49303556--49303602 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
49303546 CTACAACTTA
*
49303556 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
49303577 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
49303598 AAGCA
1 AAGCA
49303603 AAGCAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:49303991 original size:42 final size:42
Alignment explanation
Indices: 49303922--49304167 Score: 402
Period size: 42 Copynumber: 5.8 Consensus size: 42
49303912 ATTTTTGTAT
* **
49303922 AAAAGCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
49303964 AAAAACGCCGCTAAAGACCATGCTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
49304006 AATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
49304049 AAAAACGCCCCGAAAGACCATGTTCTTTAGCGGCGCTTAGTA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
49304091 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
49304133 ATAAACGCCGCTAAAGACCATGTTCTTTAGAGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
49304168 TTTCTTTCTA
Statistics
Matches: 190, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 149 0.78
43 41 0.22
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:49304022 original size:85 final size:84
Alignment explanation
Indices: 49303922--49304167 Score: 402
Period size: 85 Copynumber: 2.9 Consensus size: 84
49303912 ATTTTTGTAT
* ** *
49303922 AAAAGCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGC
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
49303987 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGCTTAGAA
* *
49304006 AATAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCGAAAGACCATG
1 AA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATG
*
49304071 TTCTTTAGCGGCGCTTAGTA
65 TTCTTTAGCGGCGCTTAGAA
*
49304091 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAATAAACGCCGCTAAAGACCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
*
49304156 TCTTTAGAGGCG
66 TCTTTAGCGGCG
49304168 TTTCTTTCTA
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
84 73 0.49
85 77 0.51
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
TCTTTAGCGGCGCTTAGAA
Found at i:49304566 original size:17 final size:17
Alignment explanation
Indices: 49304538--49304572 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49304528 TAATTTTACT
49304538 ATAATGACAAAAGACTGA
1 ATAATGACAAAAGA-TGA
49304556 ATAAT-ACAAAAGATGA
1 ATAATGACAAAAGATGA
49304572 A
1 A
49304573 GACAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (17 bp):
ATAATGACAAAAGATGA
Found at i:49310733 original size:50 final size:50
Alignment explanation
Indices: 49310679--49310860 Score: 158
Period size: 50 Copynumber: 3.6 Consensus size: 50
49310669 ACACTGTCAG
* **
49310679 GGAAGTAAGATTTGCTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
1 GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
** ** * *
49310729 GGAAGCAAGATTCACCATTGT-GACTTCAATCTTTTCCATTG-CAT-CATC-T
1 GGAAGCAAGATTCACTGTTGTAG-CTTCAATCTTTTGAACTGTAATGC--CGT
* * * *
49310778 AGGAAGTAAGATTCACTGCTGTAGCTTCAATCTTTTGAACTGTAATGTCGG
1 -GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
*
49310829 GGAAGCAAGATTCACCGTTGT-GACTTCAATCT
1 GGAAGCAAGATTCACTGTTGTAG-CTTCAATCT
49310861 ATTCCACTGC
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
48 1 0.01
49 5 0.05
50 92 0.91
51 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (50 bp):
GGAAGCAAGATTCACTGTTGTAGCTTCAATCTTTTGAACTGTAATGCCGT
Found at i:49310783 original size:100 final size:100
Alignment explanation
Indices: 49310615--49310896 Score: 363
Period size: 100 Copynumber: 2.8 Consensus size: 100
49310605 TAATCTGCTT
* * * * * * * *
49310615 AACTGTGATGTCGGGGAAGCAAGATTCGCCATTGT-AGCTTCAATTTGTTCCCCTACA-C-TGTC
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGA-CTTCAATCTATTCCACTGCATCATCT-
*
49310677 AGGGAAGTAAGATTTGCTGTTGTAGCTTCAATCTTTTG
64 A-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
* * *
49310715 AACTGTAATGCCGTGGAAGCAAGATTCACCATTGTGACTTCAATCTTTTCCATTGCATCATCTAG
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
* *
49310780 GAAGTAAGATTCACTGCTGTAGCTTCAATCTTTTG
66 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
* * *
49310815 AACTGTAATGTCGGGGAAGCAAGATTCACCGTTGTGACTTCAATCTATTCCACTGCATCGTCTAG
1 AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
49310880 GAAGTAAGATTCGCTGT
66 GAAGTAAGATTCGCTGT
49310897 CTTCGATCTG
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
100 153 0.97
101 3 0.02
102 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
AACTGTAATGCCGGGGAAGCAAGATTCACCATTGTGACTTCAATCTATTCCACTGCATCATCTAG
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTG
Found at i:49310883 original size:50 final size:50
Alignment explanation
Indices: 49310729--49310891 Score: 177
Period size: 50 Copynumber: 3.3 Consensus size: 50
49310719 GTAATGCCGT
* * *
49310729 GGAAGCAAGATTCACCATTGTGACTTCAATCTTTTCCATTGCATCATCTA
1 GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
* * * ** * **
49310779 GGAAGTAAGATTCACTGCTGT-AGCTTCAATCTTTTGAACTGTAAT-GTCGG
1 GGAAGCAAGATTCACCGTTGTGA-CTTCAATCTTTTCCACTG-CATCGTCTA
*
49310829 GGAAGCAAGATTCACCGTTGTGACTTCAATCTATTCCACTGCATCGTCTA
1 GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
*
49310879 GGAAGTAAGATTC
1 GGAAGCAAGATTC
49310892 GCTGTCTTCG
Statistics
Matches: 88, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
49 3 0.03
50 82 0.93
51 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCACCGTTGTGACTTCAATCTTTTCCACTGCATCGTCTA
Found at i:49310956 original size:44 final size:44
Alignment explanation
Indices: 49310908--49311001 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
49310898 TTCGATCTGT
* ** *
49310908 TCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTAC
1 TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
** * *
49310952 TCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTAT
1 TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
49310996 TCCACT
1 TCCACT
49311002 GCTGTCCAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (44 bp):
TCCACTACTACTTAAGGAGATAAGATCTACAATCTTCAACCTAC
Found at i:49311016 original size:44 final size:44
Alignment explanation
Indices: 49310923--49311017 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
49310913 TACTACTTAG
** * **
49310923 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGTTTAA
1 GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
* * *
49310967 GGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCC-A
1 GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
49311010 GAGAGATA
1 G-GAGATA
49311018 GGGTTTGTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (44 bp):
GGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGTCCAA
Found at i:49311137 original size:44 final size:44
Alignment explanation
Indices: 49311081--49311179 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
49311071 CTTCGATCTG
* * * *
49311081 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
* *
49311125 CTCTACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
*
49311169 TTCCACTGCTG
1 CTCCACTGCTG
49311180 TCCAGAGAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:49311174 original size:174 final size:175
Alignment explanation
Indices: 49310879--49311322 Score: 721
Period size: 174 Copynumber: 2.5 Consensus size: 175
49310869 GCATCGTCTA
* * *
49310879 GGAAG-TAAGATTCGCTGTCTTCGATCTGTTCCACTACTACTTAGGGAGATAAGATCTGTAATTT
1 GGAAGATAAGATTCGCAGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
* * * *
49310943 TCAACCTACTCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
*
49311008 CAGAGAGATAGGGTTTGTGGCTTAAATCTACTTCCCTACTCCT-G
131 CAGAGAGATAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTGG
* *
49311052 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GGAAGATAAGATTCGCAGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
*
49311117 TCAACCTACTCTACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
*
49311182 CAGAGAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTGG
131 CAGAGAGATAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTGG
* * * *
49311227 GGAAGATAAGATTCGAAGTCCTCGATTTGTTCCACTATTGCTTAGGGAGATAAGATCTGCAATTT
1 GGAAGATAAGATTCGCAGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
*
49311292 TCAACCTACTCCACTGCTGCTCAGAGAGATA
66 TCAACCTACTCCACTGCTGCTCAGGGAGATA
49311323 GAGTTTGTGG
Statistics
Matches: 250, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 5 0.02
174 156 0.62
175 89 0.36
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (175 bp):
GGAAGATAAGATTCGCAGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTC
CAGAGAGATAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTGG
Found at i:49311190 original size:44 final size:44
Alignment explanation
Indices: 49311081--49311191 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
49311071 CTTCGATCTG
* * * * *
49311081 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTGCTGCTCAGAGAGATAAGATCTACAATCTTCAACCTA
* * *
49311125 CTCTACTGCTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTGCTGCTCAGAGAGATAAGATCTACAATCTTCAACCTA
*
49311169 TTCCACTGCTG-TCCAGAGAGATA
1 CTCCACTGCTGCT-CAGAGAGATA
49311192 GGATTTGTGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGAGAGATAAGATCTACAATCTTCAACCTA
Found at i:49311305 original size:44 final size:44
Alignment explanation
Indices: 49311257--49311646 Score: 148
Period size: 44 Copynumber: 9.0 Consensus size: 44
49311247 CTCGATTTGT
* *
49311257 TCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * * *** * *
49311301 TCCACTGCTGCTCAGAGAGAT-AGAGTTTG-TGGCTTAAATCTAC
1 TCCACTACTGCTTAGGGAGATAAGA-TCTGCAATCTTCAACCTAC
* ** * * *
49311344 TTCC-CTACT-CCTAGGGAAGATAAGAT-TCGCCGTCTTCGATCTGC
1 -TCCACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTCAACCTAC
* *
49311388 TCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * * *
49311432 TCCACTGCTGCTCAGGGAGATAAGA-CT--AGTCTTTAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * * *** * * *
49311473 TCCA--A-TGCTATCAAAGGAGATAGGATTTG-TGGCTTAAATCTGC
1 TCCACTACTGCT-T--AGGGAGATAAGATCTGCAATCTTCAACCTAC
* * ** * *
49311516 TTCC-CTACT-CTTGGGGAAGATAAGAT-TCCCCGTCTTCGATCC-GC
1 -TCCACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTC-AACCTAC
* * *
49311560 TCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
* * *
49311604 TCCACTGA-TGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA
1 TCCACT-ACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTA
49311647 TCTCACTGTT
Statistics
Matches: 254, Mismatches: 65, Indels: 54
0.68 0.17 0.14
Matches are distributed among these distances:
38 4 0.02
41 24 0.09
42 9 0.04
43 48 0.19
44 148 0.58
45 20 0.08
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTAC
Found at i:49311310 original size:131 final size:131
Alignment explanation
Indices: 49311133--49311453 Score: 475
Period size: 131 Copynumber: 2.5 Consensus size: 131
49311123 TACTCTACTG
* * * * *
49311133 CTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTG-TCCAGAGAGATAG-GAT
1 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCT-CAGAGAGATAGAG-T
* * * *
49311196 TTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGAAGTCCTCGATTTGTTCCA
64 TTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGAAGTCCTCGATCTGCTCCA
49311261 CTA
129 CTA
*
49311264 TTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTT
1 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTT
** *
49311329 GTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
66 GTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGAAGTCCTCGATCTGCTCCACT
49311394 A
131 A
* *
49311395 CTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATA
1 CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATA
49311454 AGACTAGTCT
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
131 170 0.99
132 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
CTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAGAGTTT
GTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGAAGTCCTCGATCTGCTCCACT
A
Found at i:49311388 original size:175 final size:174
Alignment explanation
Indices: 49311081--49311758 Score: 600
Period size: 175 Copynumber: 3.9 Consensus size: 174
49311071 CTTCGATCTG
* * *
49311081 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCTACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
***** * * * * * * * * *
49311146 TAAGG-TCTACAATCTTCAACCTA-TTCCACTGCTGTCC-AGAG-AGATAGGATTTG-TGGCTTA
66 T-AGGAT-TTGTGGCTTAAATCTACTTCC-CTAC--TCCTAGGGAAGATAAGATTCGCCGTCTTC
* * * * ** *
49311206 AATCTGCTTCC-CTACT-CCTGGGGAAGATAAGATTCGAAGTCCTCGATTTG
126 GATCTGC-TCCACTACTACCTAGGG-AGATAAGATTCGAA-TCTTCAACCTA
* * *
49311256 TTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
49311321 TA-GAGTTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATC
66 TAGGA-TTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATC
* *
49311385 TGCTCCACTACTACTTAGGGAGATAAGA-TCTGCAATTTTCAACCTA
130 TGCTCCACTACTACCTAGGGAGATAAGATTC-G-AATCTTCAACCTA
* * * * * *
49311431 CTCCACTGCTGCTCAGGGAGATAAGA-CT--AGTCTTT-AACCTATTCCAATGCT-ATCAAAGGA
1 CTCCACTACTGCTCAGGGAGATAAGATCTGCAAT-TTTCAACCTACTCCACTGCTGCTCAGA-GA
* * * *
49311491 GATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCGAT
64 GATAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGAT
* * * *
49311556 CCGCTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTA
129 CTGCTCCACTACTACCTAGGGAGATAAGAT-TCGAATCTTCAACCTA
* * * *
49311603 CTCCACTGA-TGCTCAGGGAGATAAGGTCTACAATCTTCAACCTA-TCTCACTGTTG-TCCAG-G
1 CTCCACT-ACTGCTCAGGGAGATAAGATCTGCAATTTTCAACCTACTC-CACTGCTGCT-CAGAG
* * * *
49311664 AAGATAGGATTTGTGGCTTAAATCTGCTTCTCTACTCCTAGGGAAGATAAGATTCACCATCTTCG
63 -AGATAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCG
*
49311729 ATCTGCTCCACTACTACTTAGGGAGATAAG
127 ATCTGCTCCACTACTACCTAGGGAGATAAG
49311759 TTCTACAATT
Statistics
Matches: 424, Mismatches: 55, Indels: 48
0.80 0.10 0.09
Matches are distributed among these distances:
171 4 0.01
172 143 0.34
173 11 0.03
174 37 0.09
175 220 0.52
176 9 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (174 bp):
CTCCACTACTGCTCAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
TAGGATTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCT
GCTCCACTACTACCTAGGGAGATAAGATTCGAATCTTCAACCTA
Found at i:49311521 original size:172 final size:173
Alignment explanation
Indices: 49311317--49311768 Score: 660
Period size: 172 Copynumber: 2.6 Consensus size: 173
49311307 GCTGCTCAGA
* *
49311317 GAGATA-GAGTTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTC
1 GAGATAGGA-TTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTC
* *
49311381 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCA
65 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCA
* *
49311446 GGGAGATAA-GACT-AGTCTTTAACCTAT-TCCAATGCTATCAAAG
130 GGGAGATAAGGACTAAATCTTCAACCTATCT-CAATGCTATC-AAG
* * *
49311489 GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCG
1 GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCG
* *
49311554 ATCCGCTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAG
66 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCAG
* * * * *
49311619 GGAGATAAGGTCTACAATCTTCAACCTATCTCACTGTTGTCCAG
131 GGAGATAAGGACTA-AATCTTCAACCTATCTCAATGCTATCAAG
* *
49311663 GAAGATAGGATTTGTGGCTTAAATCTGCTTCTCTACTCCTAGGGAAGATAAGATTCACCATCTTC
1 G-AGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTC
*
49311728 GATCTGCTCCACTACTACTTAGGGAGATAAGTTCTACAATT
65 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATT
49311769 CCATTGATCT
Statistics
Matches: 252, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
172 128 0.51
173 5 0.02
174 3 0.01
175 115 0.46
176 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (173 bp):
GAGATAGGATTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCACCGTCTTCG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGATGCTCAG
GGAGATAAGGACTAAATCTTCAACCTATCTCAATGCTATCAAG
Found at i:49311595 original size:303 final size:304
Alignment explanation
Indices: 49310951--49311625 Score: 1034
Period size: 303 Copynumber: 2.2 Consensus size: 304
49310941 TTTCAACCTA
* * * * *
49310951 CTCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTG-TCCAGAGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCT-CAGAGAG
*
49311015 ATAGGGTTTGTGGCTTAAATCTACTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCT
65 ATAGAGTTTGTGGCTTAAATCTACTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCT
* *
49311080 GCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCTACTGCTGCTCAGGGAG
130 GCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
* * * *
49311145 ATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCCAGAGAGATAGGATTTGTGGCTTAAATC
195 ATAAGGACTA-AATCTTCAACCTATTCCAATGCTATCAAGAGAGATAGGATTTGTGGCTTAAATC
* **
49311210 TGCTTCCCTACTCCTGGGGAAGATAAGATTCGAAGTCCTCGATTTG
259 TGCTTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
* * *
49311256 TTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
49311321 TAGAGTTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCT
66 TAGAGTTTGTGGCTTAAATCTACTTCCCTACTCCT-GGGAAGATAAGATTCGCCGTCTTCGATCT
49311386 GCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
130 GCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
* *
49311451 ATAA-GACT-AGTCTTTAACCTATTCCAATGCTATCAA-AGGAGATAGGATTTGTGGCTTAAATC
195 ATAAGGACTAAATCTTCAACCTATTCCAATGCTATCAAGA-GAGATAGGATTTGTGGCTTAAATC
* ** *
49311513 TGCTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCGATCCG
259 TGCTTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
* * * *
49311559 CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
49311624 TA
66 TA
49311626 AGGTCTACAA
Statistics
Matches: 337, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
302 1 0.00
303 147 0.44
305 92 0.27
306 97 0.29
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (304 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
TAGAGTTTGTGGCTTAAATCTACTTCCCTACTCCTGGGAAGATAAGATTCGCCGTCTTCGATCTG
CTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
TAAGGACTAAATCTTCAACCTATTCCAATGCTATCAAGAGAGATAGGATTTGTGGCTTAAATCTG
CTTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
Found at i:49311669 original size:44 final size:44
Alignment explanation
Indices: 49311577--49311669 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
49311567 CTACTTAGGG
* * *
49311577 AGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGGG
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGA
* *
49311621 AGATAAGGTCTACAATCTTCAACCTA-TCTCACTGTTG-TCCAGGA
1 AGATAAGATCTACAATCTTCAACCTACTC-CACTGATGCT-CAGGA
49311665 AGATA
1 AGATA
49311670 GGATTTGTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGA
Found at i:49311754 original size:303 final size:303
Alignment explanation
Indices: 49310951--49311758 Score: 810
Period size: 303 Copynumber: 2.7 Consensus size: 303
49310941 TTTCAACCTA
** * * * * * *
49310951 CTCCACTACTGTTTAAGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTG-TCCAGAGAG
1 CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCT-CAGAGAG
* **** * * **
49311015 ATAGGGTTTGTGGCTTAAATCTACTTCCCTACTCCT-GGGAAGATAAGATTCGCCGTCTTCGATC
65 ATAGAGTTACAAGCTTAAACCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGGCTTAAATC
* * * * * *
49311079 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCTACTGCTGCTCAGGGA
130 TGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAGGGA
* * * * *
49311144 GATAAGGTCTACAATCTTCAACCTATTCCACTGCTGTCCAGAGAGATAGGATTTGTGGCTTAAAT
195 GATAA-GACT--AGTCTTCAACCTATTCCAATGCTATCAAGAGAGATAGGATTTGTGGCTTAAAT
* **
49311209 CTGCTTCCCTACTCCTGGGGAAGATAAGATTCGAAGTCCTCGATTTG
257 CTGCTTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
* * * * *
49311256 TTCCACTATTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGAGAGA
1 CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGAGAGA
**** * * **
49311321 TAGAGTTTGTGGCTTAAATCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGTCTTCGATCT
66 TAGAGTTACAAGCTTAAACCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGGCTTAAATCT
* * * *
49311386 GCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
131 GCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAGGGAG
*
49311451 ATAAGACTAGTCTTTAACCTATTCCAATGCTATCAA-AGGAGATAGGATTTGTGGCTTAAATCTG
196 ATAAGACTAGTCTTCAACCTATTCCAATGCTATCAAGA-GAGATAGGATTTGTGGCTTAAATCTG
* ** *
49311515 CTTCCCTACTCTTGGGGAAGATAAGATTCCCCGTCTTCGATCCG
260 CTTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
*
49311559 CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGGGAGA
1 CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGAGAGA
* * * ** * * *
49311624 TA-AGGTCTACAATCTTCAACCTA-TCTCACTGTTGTCC-A-GGAAGATAGGATTTG-TGGCTTA
66 TAGA-GT-TACAAGCTTAAACCTACT-TC-C-CTACTCCTAGGGAAGATAAGATTCGCCGGCTTA
* * * * *
49311684 AATCTGCTTCTCTACT-CCTAGGGAAGATAAGAT-T-CACCATCTTCGATCTGCTCCACTACTAC
126 AATCTGCTCCACTACTACCTAGGG-AGATAAGATCTGCA--ATCTTCAACCTACTCCACTACTAC
*
49311746 TTAGGGAGATAAG
188 TCAGGGAGATAAG
49311759 TTCTACAATT
Statistics
Matches: 436, Mismatches: 56, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
301 2 0.00
302 9 0.02
303 206 0.47
304 24 0.06
305 94 0.22
306 101 0.23
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (303 bp):
CTCCACTACTACTTAGGGAGATAAGATCTCCAATTTTCAACCTACTCCACTGATGCTCAGAGAGA
TAGAGTTACAAGCTTAAACCTACTTCCCTACTCCTAGGGAAGATAAGATTCGCCGGCTTAAATCT
GCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTACTACTCAGGGAG
ATAAGACTAGTCTTCAACCTATTCCAATGCTATCAAGAGAGATAGGATTTGTGGCTTAAATCTGC
TTCCCTACTCCTGGGGAAGATAAGATTCCAAGTCCTCGATCCG
Found at i:49319699 original size:21 final size:21
Alignment explanation
Indices: 49319660--49319699 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49319650 ATTGCCCTAA
* *
49319660 ATTTCTCTTCAATCCATTTCC
1 ATTTCTCCTCAAACCATTTCC
*
49319681 ATTTCTCCTCAAACTATTT
1 ATTTCTCCTCAAACCATTT
49319700 TGGCAATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTCTCCTCAAACCATTTCC
Found at i:49325705 original size:5 final size:5
Alignment explanation
Indices: 49325689--49325777 Score: 115
Period size: 5 Copynumber: 17.8 Consensus size: 5
49325679 TTCATACTAG
* * * *
49325689 TCATA TCTTA TCATA TCATA ACGTA TCATA ACATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* * *
49325739 TCATA CCAAA TCATA TCATA TCATA TTATA TCATA TCAT
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCAT
49325778 TACATGTCCT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.38
Consensus pattern (5 bp):
TCATA
Found at i:49326342 original size:49 final size:48
Alignment explanation
Indices: 49326280--49326437 Score: 149
Period size: 49 Copynumber: 3.2 Consensus size: 48
49326270 AAAGCTAGCG
* * *
49326280 TGTGGTCCACATGGACTACCCATACGGTCTGTAAAGTTTCACACGGCCT
1 TGTGCTCCACATGG-CTACCCACACAGTCTGTAAAGTTTCACACGGCCT
** ****
49326329 TGTGCTCCACATGGCTAAGACACACAAG-CTGTAAAAACACACACGG-CT
1 TGTGCTCCACATGGCT-ACCCACAC-AGTCTGTAAAGTTTCACACGGCCT
* * *
49326377 GTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTTACACGGCCT
1 -TGTGCTCCACATGG-CTACCCACACAGTCTGTAAAGTTTCACACGGCCT
49326427 TGTGCTCCACA
1 TGTGCTCCACA
49326438 AGGCCAAGAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 6 0.07
49 74 0.87
50 5 0.06
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (48 bp):
TGTGCTCCACATGGCTACCCACACAGTCTGTAAAGTTTCACACGGCCT
Found at i:49326448 original size:98 final size:98
Alignment explanation
Indices: 49326278--49326492 Score: 268
Period size: 98 Copynumber: 2.2 Consensus size: 98
49326268 AAAAAGCTAG
* * * * * * *
49326278 CGTGTGGTCCACATGGACTACCCATACGGTCTGTAAAGTTTCACACGGCCTTGTGCTCCACATGG
1 CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
* * * *
49326343 CTAAGACACACAAGCTGTAAAAACACACACGGC
66 CCAAGACACACAAGCTGCAAAAAAACACACGAC
* *
49326376 TGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTTACACGGCCTTGTGCTCCACAAGG
1 CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
* * * *
49326441 CCAAGACACATAGGTTGCAAAAAAACACATGAC
66 CCAAGACACACAAGCTGCAAAAAAACACACGAC
*
49326474 CGTGTGCTCCGCACGGCCT
1 CGTGTGCTCCACACGGCCT
49326493 GACACACGGC
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (98 bp):
CGTGTGCTCCACACGGCCTACCCACACAGTCTGCAAAGTTTCACACGGCCTTGTGCTCCACAAGG
CCAAGACACACAAGCTGCAAAAAAACACACGAC
Found at i:49326460 original size:49 final size:48
Alignment explanation
Indices: 49326312--49326461 Score: 131
Period size: 49 Copynumber: 3.1 Consensus size: 48
49326302 TACGGTCTGT
* * * *
49326312 AAAGTTTCACACGGCCTTGTGCTCCACATGGCTAAGACACACAAGCTGT
1 AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACAC-AGTTGC
**** * * **
49326361 AAAAACACACACGG-CTGTGTGCTCCACACGGCCTACCCACACAGTCTGC
1 AAAGTTTCACACGGCCT-TGTGCTCCACAAGGCCAAGACACACAGT-TGC
* *
49326410 AAAGTTTTACACGGCCTTGTGCTCCACAAGGCCAAGACACATAGGTTGC
1 AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACACA-GTTGC
49326459 AAA
1 AAA
49326462 AAAACACATG
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
48 4 0.05
49 68 0.89
50 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (48 bp):
AAAGTTTCACACGGCCTTGTGCTCCACAAGGCCAAGACACACAGTTGC
Found at i:49328918 original size:29 final size:29
Alignment explanation
Indices: 49328828--49328921 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 29
49328818 TTTATTTAAA
*
49328828 TATGTAT-AA-ATGAATCAAAATCAAAGTT
1 TATGTATAAATATGAA-CCAAATCAAAGTT
* **
49328856 TCATGTATACATATGAACCACAATTCAATTTT
1 T-ATGTATAAATATGAACCA-AA-TCAAAGTT
*
49328888 TATGTATATAAT-TGTACCAAATCAAAGTT
1 TATGTATA-AATATGAACCAAATCAAAGTT
49328917 TATGT
1 TATGT
49328922 GTCAAATTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
28 1 0.02
29 17 0.33
30 5 0.10
31 20 0.38
32 9 0.17
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (29 bp):
TATGTATAAATATGAACCAAATCAAAGTT
Found at i:49333065 original size:20 final size:22
Alignment explanation
Indices: 49333040--49333090 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
49333030 GGCTCCATAT
*
49333040 CTCGAACCTTG-AATTTG-AAC
1 CTCGAACCTTGAAACTTGAAAC
49333060 CTCGAACC-TGAAACTTGAAAC
1 CTCGAACCTTGAAACTTGAAAC
*
49333081 CTTGAACCTT
1 CTCGAACCTT
49333091 AGACTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 10 0.38
22 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CTCGAACCTTGAAACTTGAAAC
Found at i:49333488 original size:17 final size:16
Alignment explanation
Indices: 49333468--49333517 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
49333458 TTATTTTTAA
49333468 AATTTTTATATTATTTT
1 AATTTTTATATT-TTTT
*
49333485 AA-TTTAATATTTTTT
1 AATTTTTATATTTTTT
49333500 -ATTTATTGATATTTTTT
1 AATTT-TT-ATATTTTTT
49333517 A
1 A
49333518 TATAGTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 6 0.22
16 9 0.33
17 11 0.41
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:49357828 original size:44 final size:44
Alignment explanation
Indices: 49357717--49358005 Score: 169
Period size: 44 Copynumber: 6.6 Consensus size: 44
49357707 GAAGAATTAC
** *** **
49357717 AGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCAGT
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATT-AAAATAAA
* * * *
49357762 A-ATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
* * * *** *
49357805 AGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGA-TCGCAT-CA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATTAAAATAAA
* * * * * *
49357847 CG-TCTTATCTCCCTGAGCTTACAGTGGAATAGACTGAAGAATTAC
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGA-TTAA-AATAAA
* * *** *
49357892 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATT-AAAATAAA
* *
49357937 A-ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
* *
49357980 GGATCTTATCTCTCTGA-AGTTACAGT
1 AGATCTTATCTCCCTGAGA-TTACAGT
49358006 AGAGTAGATC
Statistics
Matches: 176, Mismatches: 57, Indels: 23
0.69 0.22 0.09
Matches are distributed among these distances:
41 25 0.14
42 2 0.01
43 13 0.07
44 102 0.58
45 5 0.03
46 29 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAACAGATTAAAATAAA
Found at i:49357997 original size:175 final size:174
Alignment explanation
Indices: 49357706--49358080 Score: 597
Period size: 175 Copynumber: 2.1 Consensus size: 174
49357696 AACAGATCAG
* * *
49357706 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCCAGTAATCCTATT
1 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
*
49357771 TCCCTAAGATTACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
66 TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
* * *
49357836 AGATCGCATCACGTCTTATCTCCCTGAGCTTACAGTGGAATAGAC
131 AGATCGCATCACGTCTT-TCTCCATGAGATTAAAGTGGAATAGAC
49357881 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
1 TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
* * *
49357946 TCCCTGAGATTACAGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
*
49358011 AGATCGCATCAGGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
131 AGATCGCATCACGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
* * * * *
49358055 CGAAGAACTATAGATCCTGTCTCCCT
1 TGAAGAATTACAGATCTTATCTCCCT
49358081 AAGCAGTAGC
Statistics
Matches: 184, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
174 45 0.24
175 139 0.76
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (174 bp):
TGAAGAATTACAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAATAATCCTATT
TCCCTAAGATTACAGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGC
AGATCGCATCACGTCTTTCTCCATGAGATTAAAGTGGAATAGAC
Found at i:49358214 original size:44 final size:44
Alignment explanation
Indices: 49358151--49358245 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 44
49358141 TTAAGCTGCG
* *
49358151 AGTCCTATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATCGCA
1 AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
* *
49358195 AGTCCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTACA
1 AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
49358239 AGTCCTA
1 AGTCCTA
49358246 ACCCACAGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATCACA
Found at i:49360676 original size:104 final size:105
Alignment explanation
Indices: 49360357--49360830 Score: 539
Period size: 105 Copynumber: 4.6 Consensus size: 105
49360347 TTGTTAGGAT
* * **
49360357 TTGTGATCATAAATCAGCTAACTC-AATAAACTTAGGTTATGATCTTAAATCAACTAACC-TT-T
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
** ** *
49360419 AATATCAGTTGTGAATGTAGGTTAGTGAGCTATTTATG-AG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTA-GAAG
** * * * * *
49360459 TTACGATCTTAAATAAACTAACTCAAATAAATTTGGGTTACGATCTTAAATCAGCTAACCTTTAT
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* * * * *
49360524 AATATTAGCTGTGAACGTAGGTCAGCGAGCTATTTAGGAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
* * * * *
49360564 TTGAGATCTTAAATCAACTAACTCAAATAGACTTAGGTTTCAATCTTAAATCAATTAACC-TTAT
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* *
49360628 AATATTAACTGTGAACAAAGGTTAGCGAGCTATTTAGAAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
* * * * * *
49360668 TTGTGATCTTAAAT-AGCTAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTAA
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
* *
49360732 AATATCAACCGTGAACATAGGTTAGTGAGCTATTTA-AGAG
66 AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGA-AG
* *
49360772 TTGTGATCTTAAATCAACTTACTCAAATAAACTTAGGTTGCGATATTAAATCAACTAAC
1 TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAAC
49360831 TCAAATAAAC
Statistics
Matches: 314, Mismatches: 51, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
102 19 0.06
103 68 0.22
104 106 0.34
105 121 0.39
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (105 bp):
TTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAACTAACCTTTAT
AATATCAACTGTGAACATAGGTTAGCGAGCTATTTAGAAG
Found at i:49360764 original size:208 final size:208
Alignment explanation
Indices: 49360350--49360830 Score: 601
Period size: 208 Copynumber: 2.3 Consensus size: 208
49360340 AGATAAGTTG
* * *
49360350 TTAGGATTTGTGATCATAAATCAGCTAACTC-AATAAACTTAGGTTAT-GATCTTAAATCAACTA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTT-TCGATCTTAAATCAACTA
** *** *
49360413 ACCTTTAATATCAGTTGTGAATGTAGGTTAGTGAGCTATTTATGAGTTACGATCTTAAATAAACT
65 ACCTTTAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATGAGTTACGATCTTAAATAAACT
* * * * * * * *
49360478 AACTCAAATAAATTTGGGTTACGATCTTAAATCAGCTAACCTTTATAATATTAGCTGTGAACGTA
130 AACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACATA
49360543 GGTCAGCGAGCTAT
195 GGTCAGCGAGCTAT
* * * *
49360557 TTAGGAGTTGAGATCTTAAATCAACTAACTCAAATAGACTTAGGTTTCAATCTTAAATCAATTAA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
* ** *
49360622 CCTTATAATATTAACTGTGAACAAAGGTTAGCGAGCTATTTA-GAAGTTGTGATCTTAAAT-AGC
66 CCTT-TAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATG-AGTTACGATCTTAAATAAAC
* * *
49360685 TAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTAAAATATCAACCGTGAACAT
129 TAACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACAT
* *
49360750 AGGTTAGTGAGCTAT
194 AGGTCAGCGAGCTAT
* * * *
49360765 TTAAGAGTTGTGATCTTAAATCAACTTACTCAAATAAACTTAGGTTGCGATATTAAATCAACTAA
1 TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
49360830 C
66 C
49360831 TCAAATAAAC
Statistics
Matches: 232, Mismatches: 38, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
207 28 0.12
208 160 0.69
209 44 0.19
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (208 bp):
TTAGGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAGGTTTCGATCTTAAATCAACTAA
CCTTTAATATCAACTGTGAACAAAGGTTAGCGAGCTATTTATGAGTTACGATCTTAAATAAACTA
ACTCAAATAAACTTAGGTCACGATCTTAAATCAGCTAACCTTTAAAATATCAACCGTGAACATAG
GTCAGCGAGCTAT
Found at i:49360833 original size:37 final size:37
Alignment explanation
Indices: 49360771--49361008 Score: 154
Period size: 37 Copynumber: 6.6 Consensus size: 37
49360761 CTATTTAAGA
* * * *
49360771 GTTGTGATCTTAAATCAACTTACTCAAATAAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
*
49360808 GTTGCGATATTAAATCAACTAACTCAAATAAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
* * * *
49360845 GTTGCAATCTTAAATTAGCTAACCTC-TAT-AACATTA-
1 GTTGCGATATTAAATCAGCTAA-CTCAAATAAAC-TTAG
* * * * * * ***
49360881 GTTGTG--A--ACAT-AGGTTA-GCAAGT-TGTTTAGG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTA-G
* *
49360912 AGTTGCGATTTTAAATCAGGTAACTCAAATAAACTTAG
1 -GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
*
49360950 GTTGCGATATTAAATCAGCTAACTCAAATTAACTTAG
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
* * *
49360987 GTTGTGATCTTAAATCAACTAA
1 GTTGCGATATTAAATCAGCTAA
49361009 GCTTTATAAT
Statistics
Matches: 153, Mismatches: 35, Indels: 26
0.71 0.16 0.12
Matches are distributed among these distances:
29 4 0.03
30 1 0.01
31 4 0.03
32 8 0.05
36 10 0.07
37 115 0.75
38 8 0.05
39 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (37 bp):
GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAG
Found at i:49360945 original size:142 final size:142
Alignment explanation
Indices: 49360667--49361093 Score: 561
Period size: 142 Copynumber: 3.0 Consensus size: 142
49360657 CTATTTAGAA
* * * * *
49360667 GTTGTGATCTTAAAT-AGCTAAGTCAAATAAACTTAGGTCGCGATCTTAAATCAGCTACCCTTTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* * * * * * * *
49360731 AAATATCA-ACCGTGAACATAGGTTAGTGAGCTATTTAAGAGTTGTGATCTTAAATCAACTTACT
66 TAATATTAGA-TGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACT
49360795 CAAATAAACTTAG
130 CAAATAAACTTAG
* * * *
49360808 GTTGCGATATTAAATCAACTAACTCAAATAAACTTAGGTTGCAATCTTAAATTAGCTAACCTCTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* * * * * **
49360873 TAACATTAGTTGTGAACATAGGTTAGCAAGTTGTTTAGGAGTTGCGATTTTAAATCAGGTAACTC
66 TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
49360938 AAATAAACTTAG
131 AAATAAACTTAG
* * * *
49360950 GTTGCGATATTAAATCAGCTAACTCAAATTAACTTAGGTTGTGATCTTAAATCAACTAAGCTTTA
1 GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
* *
49361015 TAATATTAGATGTGAACATAGGTCAGCGAGCTGTTTAGGAGTTGCGATCTTAAATTAACTAACTC
66 TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
49361080 AAATAAACTTAG
131 AAATAAACTTAG
49361092 GT
1 GT
49361094 ATGAACATTT
Statistics
Matches: 243, Mismatches: 41, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
141 13 0.05
142 230 0.95
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (142 bp):
GTTGCGATATTAAATCAGCTAACTCAAATAAACTTAGGTTGCGATCTTAAATCAGCTAACCTTTA
TAATATTAGATGTGAACATAGGTTAGCGAGCTGTTTAGGAGTTGCGATCTTAAATCAACTAACTC
AAATAAACTTAG
Found at i:49361160 original size:10 final size:10
Alignment explanation
Indices: 49361145--49361175 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
49361135 ATCTTTCATA
49361145 CATTATATTT
1 CATTATATTT
49361155 CATTATATTT
1 CATTATATTT
49361165 CATTATATTT
1 CATTATATTT
49361175 C
1 C
49361176 TTCAGATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (10 bp):
CATTATATTT
Found at i:49371650 original size:41 final size:41
Alignment explanation
Indices: 49371601--49371681 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
49371591 ATTACGAAGT
49371601 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
1 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
**
49371642 TAGTATGAAAAATATATTAAAGATCGGTTAAGTAATTAAA
1 TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAA
49371682 TTGAGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (41 bp):
TAGTATGAAAAATATATTAAAGATCAATTAAGTAATTAAAC
Found at i:49376548 original size:7 final size:7
Alignment explanation
Indices: 49376536--49376586 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
49376526 TAGTTTACAT
49376536 TTTTTTA
1 TTTTTTA
49376543 TTTTTTA
1 TTTTTTA
49376550 -TTTTTA
1 TTTTTTA
**
49376556 TAATTTA
1 TTTTTTA
49376563 TTTTTATAA
1 TTTTT-T-A
*
49376572 TTTTTAA
1 TTTTTTA
49376579 TTTTTTA
1 TTTTTTA
49376586 T
1 T
49376587 CATTTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.17
7 22 0.63
8 1 0.03
9 6 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:49376564 original size:20 final size:20
Alignment explanation
Indices: 49376539--49376606 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
49376529 TTTACATTTT
49376539 TTTATTTTTTATTTTTATAA
1 TTTATTTTTTATTTTTATAA
*
49376559 TTTATTTTTATAATTTT-TAA
1 TTTATTTTT-TATTTTTATAA
* *
49376579 TTT-TTTATCATTTTTA-AA
1 TTTATTTTTTATTTTTATAA
49376597 -TTATTTTTTA
1 TTTATTTTTTA
49376607 ATGTAACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 4 0.10
20 15 0.38
21 6 0.15
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTTTTTATTTTTATAA
Found at i:49376582 original size:36 final size:35
Alignment explanation
Indices: 49376536--49376608 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 35
49376526 TAGTTTACAT
* *
49376536 TTTTTTATTTTTTAT-TTTTATAATTTATTTTTATAA
1 TTTTTAATTTTTTATATTTT-TAAATTATTTTT-TAA
49376572 TTTTTAATTTTTTATCATTTTTAAATTATTTTTTAA
1 TTTTTAATTTTTTAT-ATTTTTAAATTATTTTTTAA
49376608 T
1 T
49376609 GTAACATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 11 0.33
38 4 0.12
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (35 bp):
TTTTTAATTTTTTATATTTTTAAATTATTTTTTAA
Found at i:49384202 original size:21 final size:21
Alignment explanation
Indices: 49384176--49384233 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
49384166 CCAGCTTCCA
49384176 GCGGGGGTTCTGGTTGCTCCG
1 GCGGGGGTTCTGGTTGCTCCG
* *
49384197 GCGGGGATTCTGGTTCCTCCG
1 GCGGGGGTTCTGGTTGCTCCG
** *
49384218 GTAGGGGATCTGGTTG
1 GCGGGGGTTCTGGTTG
49384234 TCGGTGTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.05, C:0.21, G:0.45, T:0.29
Consensus pattern (21 bp):
GCGGGGGTTCTGGTTGCTCCG
Found at i:49385802 original size:11 final size:11
Alignment explanation
Indices: 49385788--49385844 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
49385778 TTTTTTAAAT
*
49385788 AGGAATTTGAG
1 AGGAAATTGAG
*
49385799 AGGAAATTCAG
1 AGGAAATTGAG
49385810 AGGAAATTGAG
1 AGGAAATTGAG
49385821 A-GAATATT-AG
1 AGGAA-ATTGAG
49385831 AGAGAAATTGAG
1 AG-GAAATTGAG
49385843 AG
1 AG
49385845 AAAGGATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 6 0.15
11 26 0.67
12 7 0.18
ACGTcount: A:0.46, C:0.02, G:0.32, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:49385845 original size:22 final size:21
Alignment explanation
Indices: 49385788--49385847 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
49385778 TTTTTTAAAT
*
49385788 AGGAATTTGAGAGGAAATTCAG
1 AGGAAATTGAGA-GAAATTCAG
49385810 AGGAAATTGAGAGAATATT-AG
1 AGGAAATTGAGAGAA-ATTCAG
49385831 AGAGAAATTGAGAGAAA
1 AG-GAAATTGAGAGAAA
49385848 GGATTAAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.48, C:0.02, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGAAATTGAGAGAAATTCAG
Found at i:49386909 original size:32 final size:31
Alignment explanation
Indices: 49386864--49386959 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49386854 CTTAGATAAT
49386864 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49386895 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
49386927 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49386958 TT
1 TT
49386960 GTAATTTGTC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:49387311 original size:29 final size:27
Alignment explanation
Indices: 49387262--49387320 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
49387252 AATCTATCCT
*
49387262 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
49387291 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
49387318 TTT
1 TTT
49387321 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:49398686 original size:3 final size:3
Alignment explanation
Indices: 49398680--49398720 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
49398670 AATTTATAGC
49398680 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49398721 CAAGGATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49403085 original size:45 final size:45
Alignment explanation
Indices: 49403011--49403126 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
49403001 CTACGTGTAG
* * **
49403011 CGAGTATCACTGATTATAAAGGTGGTTGCTATGTGTTGATTCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
*
49403056 CGGGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
1 CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
* * *
49403101 CGAGTATCATTGCTTATAAGGGTGGT
1 CGAGTACCATTGATTATAAAGGTGGT
49403127 GTTGTGTGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
CGAGTACCATTGATTATAAAGGTGGTTGCTATGTACTGATTCCAC
Found at i:49414541 original size:27 final size:27
Alignment explanation
Indices: 49414502--49414554 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
49414492 AAACTTGACC
49414502 CTTAAACCCCAAA-CACAAACCCTAAAT
1 CTTAAACCCCAAATC-CAAACCCTAAAT
* * *
49414529 CTTAAATCTCAAATCCAAACCTTAAA
1 CTTAAACCCCAAATCCAAACCCTAAA
49414555 CCTCATAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (27 bp):
CTTAAACCCCAAATCCAAACCCTAAAT
Found at i:49417761 original size:20 final size:21
Alignment explanation
Indices: 49417702--49417761 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 21
49417692 AAAAATATTA
* *
49417702 ATATATAAA-TAATTTTTTTC
1 ATATATAAATTAATATTTATC
49417722 ATATATAAATTTTGAA-ATTTAT-
1 ATATATAAA--TT-AATATTTATC
49417744 ATATATAAATTAATATTT
1 ATATATAAATTAATATTT
49417762 TTAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 2 0.06
20 15 0.45
22 9 0.27
23 5 0.15
24 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATATAAATTAATATTTATC
Found at i:49417764 original size:22 final size:23
Alignment explanation
Indices: 49417702--49417764 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
49417692 AAAAATATTA
49417702 ATATATAAA-TAAT-TTTTT-TC
1 ATATATAAATTAATATTTTTATC
* **
49417722 ATATATAAATT-TTGAAATTTAT-
1 ATATATAAATTAAT-ATTTTTATC
49417744 ATATATAAATTAATATTTTTA
1 ATATATAAATTAATATTTTTA
49417765 AATTTTTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 10 0.31
21 1 0.03
22 19 0.59
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATATAAATTAATATTTTTATC
Found at i:49417789 original size:127 final size:126
Alignment explanation
Indices: 49417638--49417866 Score: 431
Period size: 127 Copynumber: 1.8 Consensus size: 126
49417628 TATTATGCTT
49417638 AATTTTTAGTTATTTTTAATACATACTTATAGTATAATTTGTACTTTCTTAATAAAAAATATTAA
1 AATTTTTAGTTATTTTTAATACATACTTATAGTATAATTTGTACTTTCTTAATAAAAAATATTAA
*
49417703 TATATAAATAATTTTTTTCATATATAAATTTTGAAATTTATATATATAAATTAATATTTTTA
66 TATATAAATAATTTTTTT-ATATATAAATTTTAAAATTTATATATATAAATTAATATTTTTA
*
49417765 AATTTTTAGTTATTTTTAATACATACTTATAGTTTAATTTGTACTTTCTTAATAAAAAATATTAA
1 AATTTTTAGTTATTTTTAATACATACTTATAGTATAATTTGTACTTTCTTAATAAAAAATATTAA
49417830 TATATAAATAATTTTTTTATATATAAATTTTAAAATT
66 TATATAAATAATTTTTTTATATATAAATTTTAAAATT
49417867 ATTAAGGCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
126 18 0.18
127 82 0.82
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (126 bp):
AATTTTTAGTTATTTTTAATACATACTTATAGTATAATTTGTACTTTCTTAATAAAAAATATTAA
TATATAAATAATTTTTTTATATATAAATTTTAAAATTTATATATATAAATTAATATTTTTA
Found at i:49420541 original size:51 final size:51
Alignment explanation
Indices: 49420476--49420611 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
49420466 CAATGAGATG
* * * * * *
49420476 AGATTCGTTACCTTCAACTTTAATCTGCTCCGCTACAACGCCAGGGAAATA
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
* * *
49420527 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAGATA
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
* * ** *
49420578 GGATTTGCTGTATTCAGCTTTAATCCACTCCACT
1 AGATTCGCTGCCTTCAGCTTTAATCTACTCCACT
49420612 TCAGCTTTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
AGATTCGCTGCCTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAATA
Found at i:49420616 original size:21 final size:21
Alignment explanation
Indices: 49420590--49420632 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
49420580 ATTTGCTGTA
49420590 TTCAGCTTTAATCCACTCCAC
1 TTCAGCTTTAATCCACTCCAC
*
49420611 TTCAGCTTTAATCCATTCCAC
1 TTCAGCTTTAATCCACTCCAC
49420632 T
1 T
49420633 GCAATGCCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (21 bp):
TTCAGCTTTAATCCACTCCAC
Found at i:49420813 original size:45 final size:45
Alignment explanation
Indices: 49420757--49420853 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
49420747 GTCTTCTTTA
* * * * *
49420757 ATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCCTCG
1 ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
* * *
49420802 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTACTATCTTCG
1 ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
49420847 ATCTACT
1 ATCTACT
49420854 CCACTGCTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCCTCG
Found at i:49421118 original size:44 final size:44
Alignment explanation
Indices: 49420937--49421138 Score: 133
Period size: 44 Copynumber: 4.6 Consensus size: 44
49420927 CTTTGATCTG
** *
49420937 CTCCACTACTGCTTAGGGAGACGGGATCTACATTCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
* ***** * * *
49420981 CTCCACTGCTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
* * * * * *
49421024 CTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACCATCTTCGATCTG
1 C-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACAATCTTCAACCTA
*
49421069 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
* ** *
49421113 ATCCACTGTTGCTCAGGGAGATAGGA
1 CTCCACTACTGCTTAGGGAGATAGGA
49421139 CTGGTGGCTT
Statistics
Matches: 117, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
43 17 0.15
44 82 0.70
45 18 0.15
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
Found at i:49421118 original size:132 final size:129
Alignment explanation
Indices: 49420832--49421188 Score: 543
Period size: 132 Copynumber: 2.7 Consensus size: 129
49420822 AGGAAGATAA
* * * * *
49420832 GATCTACTATCTTCGATCTACTCCACTGCTACTCAGGGAGATAGGACTAGTGGCTTAAATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
* * * *
49420897 TCCCTACTACCTTGGAAAGATAAGGTTCGCCTTTGATCTGCTCCACTACTGCTTAGGGAGACGG
66 TCCCTACTACCTTGGGAAGATAAGATTCACCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
* *
49420961 GATCTACATTCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
49421026 TCCCTACTACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAC
66 TCCCTACTACCTTGGGAAGATAAGATTCACC-T-TT-GATCTGCTCCACTACTGCTTAGGGAGAC
49421091 AG
128 AG
* * *
49421093 GATCTACAATCTTCAACCTAATCCACTGTTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGTT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
* *
49421158 TCCCTACTTCTTTGGGAAGATAAGATTCACC
66 TCCCTACTACCTTGGGAAGATAAGATTCACC
49421189 GCCTTCTTCA
Statistics
Matches: 207, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
129 86 0.42
130 1 0.00
131 2 0.01
132 118 0.57
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (129 bp):
GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
TCCCTACTACCTTGGGAAGATAAGATTCACCTTTGATCTGCTCCACTACTGCTTAGGGAGACAG
Found at i:49422095 original size:7 final size:7
Alignment explanation
Indices: 49422083--49422121 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
49422073 GGATGTATAT
49422083 AAAAATA
1 AAAAATA
49422090 AAAAATA
1 AAAAATA
49422097 AAAAATA
1 AAAAATA
49422104 AAAAATA
1 AAAAATA
49422111 AAAAATA
1 AAAAATA
49422118 AAAA
1 AAAA
49422122 GGGAACTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:49422222 original size:18 final size:18
Alignment explanation
Indices: 49422199--49422233 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49422189 TTCTAGGGAC
49422199 AACAAGTTCAATATAAAA
1 AACAAGTTCAATATAAAA
*
49422217 AACAAGTTCAATTTAAA
1 AACAAGTTCAATATAAA
49422234 TAGTATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (18 bp):
AACAAGTTCAATATAAAA
Found at i:49424353 original size:30 final size:28
Alignment explanation
Indices: 49424318--49424443 Score: 103
Period size: 30 Copynumber: 4.2 Consensus size: 28
49424308 CAAAAAATAA
* *
49424318 AAAATTGCATTTTGA-CCCATAAATTTTCCT
1 AAAATTACATTTTAAGCCC-TAAATTTT--T
*
49424348 AAAATTATATTTTAAGCCCTAAACTGTTTT
1 AAAATTACATTTTAAGCCCTAAA-T-TTTT
* * *
49424378 GAAATTACATTTTGA-CCCATCAACTTTTT
1 AAAATTACATTTTAAGCCC-T-AAATTTTT
49424407 AAAATTACATTTTAAGCCCTAAATTTTCTT
1 AAAATTACATTTTAAGCCCTAAA-TTT-TT
49424437 AAAATTA
1 AAAATTA
49424444 TGTTTTGACC
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.03
29 24 0.31
30 43 0.55
31 6 0.08
32 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.41
Consensus pattern (28 bp):
AAAATTACATTTTAAGCCCTAAATTTTT
Found at i:49424442 original size:59 final size:59
Alignment explanation
Indices: 49424318--49424464 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 59
49424308 CAAAAAATAA
* *
49424318 AAAATTGCATTTTGACCCATAAATTTTCCTAAAATTATATTTTAAGCCCTAAACTGTTTT
1 AAAATTACATTTTGACCCATAAATTTT-CTAAAATTACATTTTAAGCCCTAAACTGTTTT
* * *
49424378 GAAATTACATTTTGACCCATCAACTTTT-TAAAATTACATTTTAAGCCCTAAA-TTTTCTT
1 AAAATTACATTTTGACCCAT-AAATTTTCTAAAATTACATTTTAAGCCCTAAACTGTT-TT
** *
49424437 AAAATTATGTTTTGACCCTATAAGTTTT
1 AAAATTACATTTTGACCC-ATAAATTTT
49424465 GCTACATTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 3 0.04
59 46 0.61
60 20 0.27
61 6 0.08
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTACATTTTGACCCATAAATTTTCTAAAATTACATTTTAAGCCCTAAACTGTTTT
Found at i:49424946 original size:18 final size:19
Alignment explanation
Indices: 49424911--49424946 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49424901 GCCCAATCAA
*
49424911 AAAAAAAAGAAATTAAGCC
1 AAAAAAAAGAAATAAAGCC
49424930 AAAAAAAAGAAA-AAAGC
1 AAAAAAAAGAAATAAAGC
49424947 AACACAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.75, C:0.08, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAAAAAAGAAATAAAGCC
Found at i:49425176 original size:13 final size:13
Alignment explanation
Indices: 49425144--49425180 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
49425134 CAGTCCAAAA
49425144 AAAGAAAAAAGAG
1 AAAGAAAAAAGAG
49425157 AAA-AAAAAAG-G
1 AAAGAAAAAAGAG
49425168 AAAGGAAAAAAGA
1 AAA-GAAAAAAGA
49425181 AAAAAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAG
Found at i:49437584 original size:14 final size:15
Alignment explanation
Indices: 49437565--49437604 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
49437555 TTTCTTTACA
49437565 CTAAATCCTA-AATC
1 CTAAATCCTAGAATC
49437579 CTAAAT-CTAGAATC
1 CTAAATCCTAGAATC
*
49437593 CCAAAT-CTAGAA
1 CTAAATCCTAGAA
49437605 CCCCAAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (15 bp):
CTAAATCCTAGAATC
Found at i:49437609 original size:14 final size:14
Alignment explanation
Indices: 49437581--49437611 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49437571 CCTAAATCCT
*
49437581 AAATCTAGAATCCC
1 AAATCTAGAACCCC
49437595 AAATCTAGAACCCC
1 AAATCTAGAACCCC
49437609 AAA
1 AAA
49437612 CCCAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (14 bp):
AAATCTAGAACCCC
Found at i:49437744 original size:20 final size:20
Alignment explanation
Indices: 49437732--49437785 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
49437722 AACCTCGAAC
49437732 CCCGAACC-CGAACCCCAAA
1 CCCGAACCTCGAACCCCAAA
* * *
49437751 CCCAAAACTCGAACACCAAA
1 CCCGAACCTCGAACCCCAAA
49437771 CCCGTAACCTCGAAC
1 CCCG-AACCTCGAAC
49437786 TCTTGAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 6 0.21
20 13 0.46
21 9 0.32
ACGTcount: A:0.39, C:0.46, G:0.09, T:0.06
Consensus pattern (20 bp):
CCCGAACCTCGAACCCCAAA
Found at i:49437851 original size:138 final size:139
Alignment explanation
Indices: 49437602--49437878 Score: 466
Period size: 138 Copynumber: 2.0 Consensus size: 139
49437592 CCCAAATCTA
49437602 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
1 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
* * * *
49437667 ATCCTAACCCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAGCTTGAACCTCGAAC
66 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
49437732 CCCGAACCC
131 CCCGAACCC
* * *
49437741 GAACCCCAAACCCAAAACTCGAACACCAAACCCGTAACCTCGAACTC-TTGAATCATAAATCAAA
1 GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
* *
49437805 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACTATTGAACCTTAAACTTGAACTTCAAAC
66 ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
49437870 CCCGAACCC
131 CCCGAACCC
49437879 CAAACCCTTG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
138 84 0.65
139 45 0.35
ACGTcount: A:0.42, C:0.36, G:0.06, T:0.16
Consensus pattern (139 bp):
GAACCCCAAACCCAAAACTCGAACAACAAACCCGTAACCTCAAACTCTTTGAACCATAAATCAAA
ACCCTAAACCCCAAACTTATAACACATAACCCCAAACCATTGAACCTTAAACTTGAACCTCAAAC
CCCGAACCC
Found at i:49437935 original size:14 final size:13
Alignment explanation
Indices: 49437901--49437951 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
49437891 TCCTAATCTT
49437901 AAACATTGAACCCC
1 AAAC-TTGAACCCC
*
49437915 AAACTTGAACCTC
1 AAACTTGAACCCC
49437928 AAATCTTGAACCCC
1 AAA-CTTGAACCCC
* *
49437942 GAACCTGAAC
1 AAACTTGAAC
49437952 ATTGAACCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (13 bp):
AAACTTGAACCCC
Found at i:49440965 original size:5 final size:5
Alignment explanation
Indices: 49440950--49440991 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
49440940 ATAATTATTT
* *
49440950 TAATA -AATA TAATA TAATA TAATA TAATA TAACA TAACA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA
49440992 GTATTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (5 bp):
TAATA
Found at i:49445783 original size:18 final size:19
Alignment explanation
Indices: 49445753--49445789 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49445743 CATGAGCATA
49445753 TGTATCATAACA-TTCATT
1 TGTATCATAACATTTCATT
49445771 TGTATACAT-ACATTTCATT
1 TGTAT-CATAACATTTCATT
49445790 CAATGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (19 bp):
TGTATCATAACATTTCATT
Found at i:49452676 original size:21 final size:21
Alignment explanation
Indices: 49452652--49452702 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
49452642 CCAGTCTATC
49452652 CCATCACTCTCTCAGCCT-CTT
1 CCATCACTCTCTCAG-CTACTT
*
49452673 CCATCACTTTCTCAGCTACTT
1 CCATCACTCTCTCAGCTACTT
*
49452694 GCATCACTC
1 CCATCACTC
49452703 CCACTGCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.18, C:0.43, G:0.06, T:0.33
Consensus pattern (21 bp):
CCATCACTCTCTCAGCTACTT
Found at i:49455964 original size:33 final size:33
Alignment explanation
Indices: 49455927--49455995 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
49455917 TTTTTATTCA
*
49455927 TAATAAATATGCTTTTCTTTTATTTAATAATGG
1 TAATAAATATGCTTTTCATTTATTTAATAATGG
49455960 TAATAAATATGCTTTTCATTTATTTAATAATGG
1 TAATAAATATGCTTTTCATTTATTTAATAATGG
49455993 TAA
1 TAA
49455996 AATCGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (33 bp):
TAATAAATATGCTTTTCATTTATTTAATAATGG
Found at i:49456299 original size:23 final size:25
Alignment explanation
Indices: 49456273--49456323 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
49456263 TTTTCACCAC
*
49456273 AAAATCAT-AAA-ATTATTTAATTT
1 AAAATCATAAAATATTATTGAATTT
**
49456296 AAAATTTTAAAATATTATTGAATTT
1 AAAATCATAAAATATTATTGAATTT
49456321 AAA
1 AAA
49456324 TTTTAGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 3 0.13
25 14 0.61
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATCATAAAATATTATTGAATTT
Found at i:49456455 original size:22 final size:24
Alignment explanation
Indices: 49456428--49456491 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 24
49456418 TTATTTAAAA
49456428 TAAATAAATTAATATTATTAAA-G
1 TAAATAAATTAATATTATTAAATG
49456451 -AAATAAATTAA-ATTACTTAAATG
1 TAAATAAATTAATATTA-TTAAATG
*
49456474 TTAATAAA-TAATATTATT
1 TAAATAAATTAATATTATT
49456492 GAAAATGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.11
22 16 0.44
23 6 0.17
24 10 0.28
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
TAAATAAATTAATATTATTAAATG
Found at i:49471000 original size:3 final size:3
Alignment explanation
Indices: 49470994--49471024 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
49470984 TTTATCTTAC
*
49470994 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49471025 ATACATACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:49471363 original size:32 final size:32
Alignment explanation
Indices: 49471321--49471381 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
49471311 ATAATTTGCC
* *
49471321 AATACATACACTTATATATTTTTTATTTTGTA
1 AATACATACACATATACATTTTTTATTTTGTA
*
49471353 AATATATACACATATACATTTTTTATTTT
1 AATACATACACATATACATTTTTTATTTT
49471382 TATTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (32 bp):
AATACATACACATATACATTTTTTATTTTGTA
Found at i:49475598 original size:13 final size:13
Alignment explanation
Indices: 49475560--49475590 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
49475550 GTGATGTGAA
49475560 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
49475574 AAAATGAAAAATG
1 AAAATGAAAAATG
49475587 AAAA
1 AAAA
49475591 GTAAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:49475946 original size:35 final size:35
Alignment explanation
Indices: 49475900--49475971 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
49475890 GGGCACCTAA
49475900 TCTTGGAACACTTCATTCATTGCCAAGATACGCAT
1 TCTTGGAACACTTCATTCATTGCCAAGATACGCAT
49475935 TCTTGGAACACTTCATTCATTGCCAAGATACGCAT
1 TCTTGGAACACTTCATTCATTGCCAAGATACGCAT
49475970 TC
1 TC
49475972 CTAAATCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (35 bp):
TCTTGGAACACTTCATTCATTGCCAAGATACGCAT
Found at i:49477079 original size:133 final size:131
Alignment explanation
Indices: 49476903--49477539 Score: 799
Period size: 133 Copynumber: 4.8 Consensus size: 131
49476893 TTGAAAATAT
* * * * *
49476903 CAGATATTGCCTTCCTACATATACAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTAAGG
1 CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTCCCT--GG
* * *
49476968 TTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTGAAGA
64 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGA
**
49477033 TTT
129 TAG
* * * * *
49477036 TAGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGATGGCAGATTTTACCTCCTCGTGG
1 CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTCC-C-TGG
* *
49477101 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGTAATAGATTGAAGA
64 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGA
49477166 TAG
129 TAG
* * * *
49477169 CAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGAATTTTACCTCTTCGTGG
1 CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTC--CCTGG
*
49477234 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCATCGGAATAGATTAAAGA
64 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGA
**
49477299 TTT
129 TAG
* * * **
49477302 TAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTCCCTGTGG
1 CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTCCC--TGG
* * * *
49477367 TTACAGTGAAGTACATTGAAGCC-GATAATTTTACTTCTCTGGGCAGCAGTGGAATAGATTAAAG
64 TTACAGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAG
49477431 ATAG
128 ATAG
** * * * * *
49477435 CAGATCTTGTATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTACCTCATCGTGG
1 CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTC--CCTGG
*
49477500 TTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
64 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
49477540 AGCAGATCTT
Statistics
Matches: 434, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.00
132 1 0.00
133 427 0.98
134 2 0.00
135 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
CAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGATGGCGGATTTTACCTCCCTGGTT
ACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGATA
G
Found at i:49477388 original size:266 final size:265
Alignment explanation
Indices: 49476893--49477539 Score: 951
Period size: 266 Copynumber: 2.4 Consensus size: 265
49476883 AGAGAGCAGG
* * * * * * *
49476893 TTGAAAATATCAGATATTGCCTTCCTACATATACAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 TTGAAGATAGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTAC
* * *
49476958 CTC-CCTAAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGCGGAA
66 CTCTCGT--GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAA
* *
49477022 TAGATTGAAGATTTTAGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGATGGCAGATT
129 TAGATTAAAGATTTTAGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGACGGCAGATT
*
49477087 TTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTGGGCAGCAGC
194 TTACCTCCTCGTGGTTACAGTGAAGTACATTGAAGCCGA-TAATTCTACTTCCCTGGGCAGCAGC
*
49477151 GTAATAGA
258 GGAATAGA
*
49477159 TTGAAGATAGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGAATTTTAC
1 TTGAAGATAGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTAC
*
49477224 CTCTTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCATCGGAAT
66 CTC-TCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
* * *
49477289 AGATTAAAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTT
130 AGATTAAAGATTTTAGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGACGGCAGATTT
* * *
49477354 TACCTCC-CTGTGGTTACAGTGAAGTACATTGAAGCCGATAATTTTACTTCTCTGGGCAGCAGTG
195 TACCTCCTC-GTGGTTACAGTGAAGTACATTGAAGCCGATAATTCTACTTCCCTGGGCAGCAGCG
49477418 GAATAGA
259 GAATAGA
* * * * *
49477425 TTAAAGATAGCAGATCTTG-TATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTA
1 TTGAAGATAGCAGATCTTGCT-TTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTA
*
49477489 CCTCATCGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
65 CCTC-TCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
49477540 AGCAGATCTT
Statistics
Matches: 346, Mismatches: 30, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
265 2 0.01
266 341 0.99
267 1 0.00
268 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (265 bp):
TTGAAGATAGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTAC
CTCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATA
GATTAAAGATTTTAGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGACGGCAGATTTT
ACCTCCTCGTGGTTACAGTGAAGTACATTGAAGCCGATAATTCTACTTCCCTGGGCAGCAGCGGA
ATAGA
Found at i:49477618 original size:107 final size:107
Alignment explanation
Indices: 49477432--49477646 Score: 351
Period size: 107 Copynumber: 2.0 Consensus size: 107
49477422 AGATTAAAGA
* *
49477432 TAGCAGATCTTGTATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTACCTCATCG
1 TAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGGAGGATTTTACCTCATCG
*
49477497 TGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
66 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * * *
49477539 TAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCA-GATTTTACCTCCTC
1 TAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGG-AGGATTTTACCTCATC
49477603 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
65 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
49477646 T
1 T
49477647 GGGTAGCAGC
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 99 0.99
108 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (107 bp):
TAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGGAGGATTTTACCTCATCG
TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
Found at i:49477728 original size:240 final size:240
Alignment explanation
Indices: 49477303--49477781 Score: 680
Period size: 240 Copynumber: 2.0 Consensus size: 240
49477293 TAAAGATTTT
* *
49477303 AGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTCCCTGTGGT
1 AGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGGCAGATTTTACCTCCCTGTGGT
* * *
49477368 TACAGTGAAGTACATTGAAGCCGATAATTTTACTTCTCTGGGCAGCAGTGGAATAGATTAAAGAT
66 TACAGTGAAGTACATTGAAGCCGATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGAT
* * * *
49477433 AGCAGATCTTGTATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTACCT-CATCG
131 AGCAGATCTTGCATTCCTACATAGACAGCGAAGAAGATCAAAAACGGAGGATTTTACCTCCCT-G
*
49477497 TGGTTATAGTGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTAGC
195 TGGTTACAGTGGAGTACATTGAAGCCGA-TAATTCTACTTCCCTAGC
* *
49477543 AGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCAGATTTTACCT-CCTCGTGG
1 AGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGGCAGATTTTACCTCCCT-GTGG
* * *
49477607 TTACAGTGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTGAAG
65 TTACAGTGAAGTACATTGAAGCCGA-TAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAG
*** * * * *
49477671 ATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTA-GATTTTACCTCCC
129 ATAGCAGATCTTGCATTCCTACATAGACAGCGAAGAAGATCAAAAACGG-AGGATTTTACCTCCC
49477735 TGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAG
193 TGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAG
49477782 GCAGCAGTGG
Statistics
Matches: 212, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
239 4 0.02
240 204 0.96
241 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (240 bp):
AGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGGCAGATTTTACCTCCCTGTGGT
TACAGTGAAGTACATTGAAGCCGATAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTAAAGAT
AGCAGATCTTGCATTCCTACATAGACAGCGAAGAAGATCAAAAACGGAGGATTTTACCTCCCTGT
GGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAGC
Found at i:49477788 original size:133 final size:133
Alignment explanation
Indices: 49477541--49478297 Score: 972
Period size: 133 Copynumber: 5.7 Consensus size: 133
49477531 TACTTCCCTA
*
49477541 GCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTG
1 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTG
* *
49477606 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTGAAG
66 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAG
49477671 ATT
131 ATT
** * * * * *
49477674 TTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTCC-CTGT
1 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTC-GT
* *
49477738 GGTTACAGTGGAGTACATTGAAGCC-GATAATTCTACTTCCCTAGGCAGCAGTGGAATAGATTAA
65 GGTTACAGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGA
*
49477802 AGATA
129 AGATT
* * * *
49477807 GCAGATCTTGCCTTCCTACATAGACAGTGAAGTAGATCAAAAATGGCAGATTTTACCTCATCGTG
1 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTG
* * *
49477872 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGGCAGCAGCGGAATAGATTGACG
66 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAG
*
49477937 ATA
131 ATT
*
49477940 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTG
1 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTG
*
49478005 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGACTGAA
66 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAA
49478069 GATT
130 GATT
* * * * * * * * * * * *
49478073 TCATATATTGTCTCCCTAAACAG-TAGTGGAGCAGATCAAAGATGGCAGAATTTACTTCC-CTGT
1 GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTC-GT
*
49478136 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGGCAACAGTGGAATAGATTGA
65 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGGCAGCAGTGGAATAGATTGA
49478201 AGATT
129 AGATT
* ** * * * * * * *
49478206 ACAGATCTTATCTCCCTA-AGCAG-TAGTGGAGTAGATCGAAGATGGCCGATTCTACCTCC-CTG
1 GCAGATCTTGCCTTCCTACA-TAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTC-G
*
49478268 AGGTTACAGTGGAGTACATTGAAGCCAGTA
64 TGGTTACAGTGGAGTACATTGAAGCCAGTA
49478298 TTCCTATCTC
Statistics
Matches: 553, Mismatches: 62, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
131 1 0.00
132 76 0.14
133 474 0.86
134 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (133 bp):
GCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTG
GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAG
ATT
Found at i:49477851 original size:373 final size:376
Alignment explanation
Indices: 49477165--49478297 Score: 1471
Period size: 373 Copynumber: 3.0 Consensus size: 376
49477155 TAGATTGAAG
* *
49477165 ATAGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGAATTTTACCTCTTC
1 ATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCG-ATTTTACCTCCTC
* *
49477230 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCATCGGAATAGATTA
65 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTG
49477295 AAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTC
130 AAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTC
* * * *
49477360 CCTGTGGTTACAGTGAAGTACATTGAAGCCGATAATTTTACTTCTCTGGGCAGCAGTGGAATAGA
195 CCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAGGCAGCAGTGGAATAGA
* *
49477425 TTAAAGATAGCAGATCTTGTATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTAC
260 TTAAAGATAGCAGATCTTGTCTTCCTACATAGACAGTGAAGTAGATCAAAAATGGA-GATTTTAC
*
49477490 CTCATCGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTA-CTT-C-C-C
324 CTCATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACCTTGCACAC
49477539 -TAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTC
1 ATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGC-GATTTTACCTCCTC
*
49477603 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTG
65 GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTG
49477668 AAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTC
130 AAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTC
49477733 CCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAGGCAGCAGTGGAATAGA
195 CCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAGGCAGCAGTGGAATAGA
*
49477798 TTAAAGATAGCAGATCTTGCCTTCCTACATAGACAGTGAAGTAGATCAAAAATGGCAGATTTTAC
260 TTAAAGATAGCAGATCTTGTCTTCCTACATAGACAGTGAAGTAGATCAAAAATGG-AGATTTTAC
49477863 CTCATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCTTGGGCAGCAGCGGAAT
324 CTCATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA---CCTT-----GCA-C-----
49477928 AGATTGAC
375 ------AC
*
49477936 GATAGCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCT
1 -ATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGC-GATTTTACCTCCT
* *
49478001 CGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGAC
64 CGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGCGGAATAGAT
* * * * * ** * * * * * * * * * *
49478065 TGAAGATTTCATATATTGTCTCCCTAAACAG-TAGTGGAGCAGATCAAAGATGGCAGAATTTACT
128 TGAAGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACC
*
49478129 TCCCTGTGGTTACAGTGGAGTACATTGAAGCC-AGTAATTCTACTTCCCTAGGGCAACAGTGGAA
193 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCGA-TAATTCTACTTCCCTA-GGCAGCAGTGGAA
* * * * * * * * *
49478193 TAGATTGAAGATTA-CAGATCTTATCTCCCTA-AGCAG-TAGTGGAGTAGATCGAAGATGGCCGA
256 TAGATTAAAGA-TAGCAGATCTTGTCTTCCTACA-TAGACAGTGAAGTAGATCAAAAATGG-AGA
* * *
49478255 TTCTACCTC-CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
318 TTTTACCTCATC-GTGGTTACAGTGGAGTACATTGAAGCCAGTA
49478298 TTCCTATCTC
Statistics
Matches: 676, Mismatches: 49, Indels: 44
0.88 0.06 0.06
Matches are distributed among these distances:
373 350 0.52
374 2 0.00
377 3 0.00
383 1 0.00
385 1 0.00
397 3 0.00
398 133 0.20
399 181 0.27
400 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (376 bp):
ATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGATTTTACCTCCTCG
TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGA
AGATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTACTTCCCTAGGCAGCAGTGGAATAGAT
TAAAGATAGCAGATCTTGTCTTCCTACATAGACAGTGAAGTAGATCAAAAATGGAGATTTTACCT
CATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACCTTGCACAC
Found at i:49477993 original size:506 final size:506
Alignment explanation
Indices: 49477037--49478038 Score: 1523
Period size: 506 Copynumber: 2.0 Consensus size: 506
49477027 TGAAGATTTT
*
49477037 AGATCTTGCCTTCCTGCATAGACAACAAAGAAGATCGAAGATGGCAGATTTTACCTCCTCGTGGT
1 AGATCTTGCCTTCCTACATAGACAACAAAGAAGATCGAAGATGGCAGATTTTACCTCCTCGTGGT
*
49477102 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGTAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGAT
* * * * *
49477167 AGCAGATCTTGCTTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCGAATTTTACCTCTTCGT
131 AGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGGAGAATTTTACCTCCTCGT
*
49477232 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCATCGGAATAGATTAAA
196 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCATCGGAATAGATTAAA
*** * * * *
49477297 GATTTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAGATTTTACCTCCC
261 GATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCAAAAACGGCAGATTTTACCTCCC
* *
49477362 TGTGGTTACAGTGAAGTACATTGAAGCCGATAATTTTACTTCTCTGGGCAGCAGTGGAATAGATT
326 TGTGGTTACAGTGAAGTACATTGAAGCCGATAATTCTACTTCTCTGGGCAGCAGCGGAATAGATT
* *
49477427 AAAGATAGCAGATCTTGTATTCCTACATAGACAGCGAAGTAGATCAAAAATGGAGGATTTTACCT
391 AAAGATAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGGAGGATTTTACCT
*
49477492 CATCGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGC
456 CATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGC
* * *
49477543 AGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCTCGTGGT
1 AGATCTTGCCTTCCTACATAGACAACAAAGAAGATCGAAGATGGCAGATTTTACCTCCTCGTGGT
*
49477608 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGTAGCAGCGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGAT
*** *
49477673 TTTAGATCTTGCCTTCCTGCATAGACAGCGAAGAAGATCGAAGACGGTAG-ATTTTACCTCC-CT
131 AGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGG-AGAATTTTACCTCCTC-
49477736 GTGGTTACAGTGGAGTACATTGAAGCC-GATAATTCTACTTCCCTAGGCAGCAGT-GGAATAGAT
194 GTGGTTACAGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTAGGCAGCA-TCGGAATAGAT
* * *
49477799 TAAAGATAGCAGATCTTGCCTTCCTACATAGACAGTGAAGTAGATCAAAAATGGCAGATTTTACC
257 TAAAGATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCAAAAACGGCAGATTTTACC
* *
49477864 T-CATCGTGGTTACAGTGGAGTACATTGAAGCC-AGTAATTCTACTTC-CTTGGGCAGCAGCGGA
322 TCCCT-GTGGTTACAGTGAAGTACATTGAAGCCGA-TAATTCTACTTCTC-TGGGCAGCAGCGGA
* * * * * * *
49477926 ATAGATTGACGATAGCAGATCTTGCCTTCCTACATAGACAGTGAAGCAGATCGAAGATGGCGGAT
384 ATAGATTAAAGATAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGGAGGAT
*
49477991 TTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
449 TTTACCTCATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
49478039 TCTCCCTGGG
Statistics
Matches: 448, Mismatches: 41, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
505 6 0.01
506 440 0.98
507 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (506 bp):
AGATCTTGCCTTCCTACATAGACAACAAAGAAGATCGAAGATGGCAGATTTTACCTCCTCGTGGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGAT
AGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCGAAGACGGAGAATTTTACCTCCTCGT
GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCATCGGAATAGATTAAA
GATAGCAGATCTTGCCTTCCTACATAGACAGCGAAGAAGATCAAAAACGGCAGATTTTACCTCCC
TGTGGTTACAGTGAAGTACATTGAAGCCGATAATTCTACTTCTCTGGGCAGCAGCGGAATAGATT
AAAGATAGCAGATCTTGCATTCCTACATAGACAGCGAAGCAGATCAAAAATGGAGGATTTTACCT
CATCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGC
Done.