Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 207 of 218
Found at i:61373400 original size:27 final size:27
Alignment explanation
Indices: 61373364--61373416 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
61373354 TTTTCTCCTT
*
61373364 TTTCTTTCTTCTTCTTCTTCTTTCTTC
1 TTTCTCTCTTCTTCTTCTTCTTTCTTC
* *
61373391 TTTCTCTCTTTTTCTTCTTTTTTCTT
1 TTTCTCTCTTCTTCTTCTTCTTTCTT
61373417 TCTTACTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTCTCTCTTCTTCTTCTTCTTTCTTC
Found at i:61373425 original size:8 final size:7
Alignment explanation
Indices: 61373355--61373428 Score: 69
Period size: 7 Copynumber: 9.9 Consensus size: 7
61373345 TTTAAATTTT
*
61373355 TTTCTCC
1 TTTCTTC
61373362 TTT-TTC
1 TTTCTTC
61373368 TTTCTTC
1 TTTCTTC
61373375 TTCTTCTTC
1 -T-TTCTTC
61373384 TTTCTTC
1 TTTCTTC
61373391 TTTCTCTC
1 TTTCT-TC
61373399 TTTTTCTTC
1 --TTTCTTC
*
61373408 TTTTTTC
1 TTTCTTC
61373415 TTTCTTAC
1 TTTCTT-C
61373423 TTTCTT
1 TTTCTT
61373429 TCTTCCTCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
6 5 0.09
7 28 0.49
8 11 0.19
9 8 0.14
10 5 0.09
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTTC
Found at i:61373425 original size:24 final size:23
Alignment explanation
Indices: 61373353--61373425 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
61373343 TTTTTAAATT
*
61373353 TTTTTC-TCCTTTTTCTTTCTTC
1 TTTTTCTTCTTTTTTCTTTCTTC
* *
61373375 TTCTTCTTCTTTCTTCTTTCTCTC
1 TTTTTCTTCTTTTTTCTTTCT-TC
61373399 TTTTTCTTCTTTTTTCTTTCTTAC
1 TTTTTCTTCTTTTTTCTTTCTT-C
61373423 TTT
1 TTT
61373426 CTTTCTTCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 5 0.12
23 13 0.30
24 25 0.58
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTTCTTCTTTTTTCTTTCTTC
Found at i:61373430 original size:16 final size:15
Alignment explanation
Indices: 61373364--61373432 Score: 74
Period size: 17 Copynumber: 4.7 Consensus size: 15
61373354 TTTTCTCCTT
61373364 TTTCTTTC-TTCTTC
1 TTTCTTTCTTTCTTC
61373378 -TTC-TTCTTTCTTC
1 TTTCTTTCTTTCTTC
*
61373391 TTTCTCTCTTTTTCTTC
1 TTTCT-T-TCTTTCTTC
61373408 TTT-TTTCTTTCTTAC
1 TTTCTTTCTTTCTT-C
61373423 TTTCTTTCTT
1 TTTCTTTCTT
61373433 CCTCCCCGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.07
13 9 0.20
14 10 0.22
15 5 0.11
16 8 0.17
17 11 0.24
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:61373984 original size:30 final size:30
Alignment explanation
Indices: 61373936--61374072 Score: 131
Period size: 30 Copynumber: 4.6 Consensus size: 30
61373926 GTAATTTTAT
* *
61373936 AAAGTTTAGAGGTTAAAATATAATTTGGAGA
1 AAAGTTTAGGGGTCAAAATATAATTT-GAGA
* * *
61373967 ACA-TTTAGGGGTCAAAATGTAATTT-AAA
1 AAAGTTTAGGGGTCAAAATATAATTTGAGA
** *
61373995 AAAGTTTAGGGGTTGAAGTATAATTTTGAG-
1 AAAGTTTAGGGGTCAAAATATAA-TTTGAGA
*
61374025 AAAGTTTAGGGGTCAAAATGA-AATTTTAGA
1 AAAGTTTAGGGGTCAAAAT-ATAATTTGAGA
61374055 AAAGTTTA-GGGTCAAAAT
1 AAAGTTTAGGGGTCAAAAT
61374073 GCAAAAAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.05
29 30 0.35
30 48 0.56
31 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATATAATTTGAGA
Found at i:61374017 original size:59 final size:59
Alignment explanation
Indices: 61373915--61374065 Score: 189
Period size: 59 Copynumber: 2.5 Consensus size: 59
61373905 GAAAATTTTT
* * *
61373915 GGGG-CAAAAGTGTAATTTTATAAAGTTTAGAGGTTAAAATATAATTTGGAGAACA-TTTA
1 GGGGTCAAAA-TGTAATTTAAAAAAGTTTAGGGGTTAAAATATAATTTGGAGAA-AGTTTA
* * *
61373974 GGGGTCAAAATGTAATTTAAAAAAGTTTAGGGGTTGAAGTATAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTAAAAAAGTTTAGGGGTTAAAATATAATTTGGAGAAAGTTTA
* *
61374033 GGGGTCAAAATGAAATTTTAGAAAAGTTTAGGG
1 GGGGTCAAAATGTAA-TTTAAAAAAGTTTAGGG
61374066 TCAAAATGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 1 0.01
59 59 0.73
60 21 0.26
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (59 bp):
GGGGTCAAAATGTAATTTAAAAAAGTTTAGGGGTTAAAATATAATTTGGAGAAAGTTTA
Found at i:61379194 original size:24 final size:21
Alignment explanation
Indices: 61379167--61379230 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
61379157 AAAAAATGAG
61379167 TAAATTAATCTTTATATATTATAA
1 TAAATTAATCTTT-T-TATTA-AA
* *
61379191 TAAACTAGTCTTTTTATTAAA
1 TAAATTAATCTTTTTATTAAA
* *
61379212 AAAATTATTCATTTTTATT
1 TAAATTAATC-TTTTTATT
61379231 GTTAAAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.26
22 13 0.38
23 1 0.03
24 11 0.32
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAATTAATCTTTTTATTAAA
Found at i:61379952 original size:26 final size:25
Alignment explanation
Indices: 61379914--61379962 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
61379904 TTTTAGACCA
**
61379914 AAATTTATTATTTTTATTCATTTGGT
1 AAATTTAGGATTTTT-TTCATTTGGT
*
61379940 AAATTTAGGATTTTTTTTATTTG
1 AAATTTAGGATTTTTTTCATTTG
61379963 TGAGGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
AAATTTAGGATTTTTTTCATTTGGT
Found at i:61381127 original size:24 final size:24
Alignment explanation
Indices: 61381100--61381145 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
61381090 AATTCAATTG
*
61381100 CTAAATTAAAATTTATCAACTCGA
1 CTAAATCAAAATTTATCAACTCGA
* *
61381124 CTAACTCAAAATTTATTAACTC
1 CTAAATCAAAATTTATCAACTC
61381146 AATTCGACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (24 bp):
CTAAATCAAAATTTATCAACTCGA
Found at i:61384886 original size:16 final size:16
Alignment explanation
Indices: 61384865--61384907 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
61384855 TGAGTTTAAG
61384865 AGTTTTAAGAGT-ATT
1 AGTTTTAAGAGTAATT
61384880 AAGTTTTAATGAGTAATT
1 -AGTTTTAA-GAGTAATT
*
61384898 AGATTTAAGA
1 AGTTTTAAGA
61384908 TTCAAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 11 0.46
18 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
AGTTTTAAGAGTAATT
Found at i:61384893 original size:17 final size:19
Alignment explanation
Indices: 61384851--61384894 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
61384841 ATTTTTAATA
61384851 TTAATGAGT-TTAAGAGTT
1 TTAATGAGTATTAAGAGTT
61384869 TTAA-GAGTATT-A-AGTT
1 TTAATGAGTATTAAGAGTT
61384885 TTAATGAGTA
1 TTAATGAGTA
61384895 ATTAGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (19 bp):
TTAATGAGTATTAAGAGTT
Found at i:61385049 original size:18 final size:18
Alignment explanation
Indices: 61385028--61385070 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
61385018 AATTGAATAT
*
61385028 AAAAATTGACTAAATCAA
1 AAAAATTGAATAAATCAA
*
61385046 AAAAACTGAATAAATCAA
1 AAAAATTGAATAAATCAA
61385064 AAAAATT
1 AAAAATT
61385071 AAGTAGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATTGAATAAATCAA
Found at i:61386443 original size:12 final size:12
Alignment explanation
Indices: 61386426--61386461 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
61386416 AGCTGGATCA
*
61386426 AAATTTTTTTAT
1 AAATTTTTTAAT
61386438 AAATTTTTTAAT
1 AAATTTTTTAAT
*
61386450 AAATTATTTAAT
1 AAATTTTTTAAT
61386462 TAGTTAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AAATTTTTTAAT
Found at i:61400225 original size:3 final size:3
Alignment explanation
Indices: 61400215--61400245 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
61400205 ATAATAAACC
61400215 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
61400246 GGATTACCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61402272 original size:20 final size:18
Alignment explanation
Indices: 61402230--61402272 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
61402220 TATTATCGTC
*
61402230 AAAGCAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
*
61402248 AAAGAAAAAACAAAATAAA
1 AAAGAAAAAA-AAAAGAAA
61402267 ATAAGA
1 A-AAGA
61402273 CCTGACTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGAAA
Found at i:61402664 original size:31 final size:31
Alignment explanation
Indices: 61402629--61402702 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
61402619 TGATCAAATT
61402629 AAAGTATAAGGACTAAACCCATAACTTTTGC
1 AAAGTATAAGGACTAAACCCATAACTTTTGC
61402660 AAAGTATAAGGACTAAACCCATAACTTTTGC
1 AAAGTATAAGGACTAAACCCATAACTTTTGC
* *
61402691 GAAGTACAAGGA
1 AAAGTATAAGGA
61402703 GTAATGGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (31 bp):
AAAGTATAAGGACTAAACCCATAACTTTTGC
Found at i:61403781 original size:23 final size:25
Alignment explanation
Indices: 61403737--61403782 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61403727 ATTTAACACG
*
61403737 TTTGAGTCTCCTTTTTTGTTGATAT
1 TTTGAGTCTCCTTTTCTGTTGATAT
*
61403762 TTTGATTCT-CTTTTCT-TTGAT
1 TTTGAGTCTCCTTTTCTGTTGAT
61403783 TTATTTTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 6 0.32
25 8 0.42
ACGTcount: A:0.11, C:0.13, G:0.13, T:0.63
Consensus pattern (25 bp):
TTTGAGTCTCCTTTTCTGTTGATAT
Found at i:61409110 original size:18 final size:19
Alignment explanation
Indices: 61409082--61409122 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
61409072 ATTGTTTGAA
61409082 TATTGTATAATATTTGTT-T
1 TATTGTATAAT-TTTGTTAT
61409101 TATTGT-TAATTTTGTTAT
1 TATTGTATAATTTTGTTAT
61409119 TATT
1 TATT
61409123 TTAGAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (19 bp):
TATTGTATAATTTTGTTAT
Found at i:61411348 original size:21 final size:21
Alignment explanation
Indices: 61411314--61411357 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
61411304 TATCCAAATT
* *
61411314 AAAATCGAACCAAATTCAATA
1 AAAATCAAACCAAAATCAATA
* *
61411335 AAAATCAAATCAAAATCGATA
1 AAAATCAAACCAAAATCAATA
61411356 AA
1 AA
61411358 TTAAGTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAATCAAACCAAAATCAATA
Found at i:61412138 original size:20 final size:22
Alignment explanation
Indices: 61412096--61412152 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
61412086 TATTGACGTC
61412096 AATAAATAATTTAAAAATCATAAA
1 AATAAATAATTT-AAAA-CATAAA
61412120 AATAAATAATTT-AAA-ATAAA
1 AATAAATAATTTAAAACATAAA
*
61412140 AAT-AATAAATTAA
1 AATAAATAATTTAA
61412153 CATGAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 9 0.29
22 3 0.10
24 12 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATAATTTAAAACATAAA
Found at i:61412146 original size:19 final size:20
Alignment explanation
Indices: 61412115--61412152 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61412105 TTTAAAAATC
*
61412115 ATAAAAATAAATAATTTAAA
1 ATAAAAATAAATAAATTAAA
61412135 ATAAAAAT-AATAAATTAA
1 ATAAAAATAAATAAATTAA
61412153 CATGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAAATAAATAAATTAAA
Found at i:61414991 original size:15 final size:15
Alignment explanation
Indices: 61414971--61415005 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
61414961 GGATGTGAAA
61414971 TCATATATGGAGGAC
1 TCATATATGGAGGAC
*
61414986 TCATATATGGCGGAC
1 TCATATATGGAGGAC
61415001 TCATA
1 TCATA
61415006 CATGTAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (15 bp):
TCATATATGGAGGAC
Found at i:61420053 original size:20 final size:21
Alignment explanation
Indices: 61420005--61420056 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
61419995 GATTTCATGT
61420005 TTCCAA-TTTTATTTTTATTA
1 TTCCAATTTTTATTTTTATTA
*
61420025 TT-C--TATTTATTTTT-TTA
1 TTCCAATTTTTATTTTTATTA
61420042 TTCCAATTTTTATTT
1 TTCCAATTTTTATTT
61420057 GATCCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 1 0.04
20 10 0.38
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCCAATTTTTATTTTTATTA
Found at i:61427983 original size:29 final size:32
Alignment explanation
Indices: 61427924--61427989 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
61427914 ACTCTAGAAT
*
61427924 TTTTCTCTTCTTCTTCTCCTCCTCCTATTTTTC
1 TTTTCTCTTCTTCTTCTCCTACT-CTATTTTTC
*
61427957 TTTT-TCTTCTTCTTCT-CTACT-TTTTTTTC
1 TTTTCTCTTCTTCTTCTCCTACTCTATTTTTC
61427986 TTTT
1 TTTT
61427990 ATTGCCCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.35
31 4 0.13
32 12 0.39
33 4 0.13
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTTCTCTTCTTCTTCTCCTACTCTATTTTTC
Found at i:61443486 original size:38 final size:38
Alignment explanation
Indices: 61443436--61443532 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 38
61443426 TGTATTTGGC
*
61443436 TCAACAGCAACAGTAGACAT-TCTTATCATGTATTCAAT
1 TCAACAGTAACAGTAGACATGT-TTATCATGTATTCAAT
* ***
61443474 TCAATAGTAACAGTAGACATGTTTATCATGTATTTGGT
1 TCAACAGTAACAGTAGACATGTTTATCATGTATTCAAT
*
61443512 TCAACAGTAACAGTAGGCATG
1 TCAACAGTAACAGTAGACATG
61443533 CATCAGTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 50 0.98
39 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (38 bp):
TCAACAGTAACAGTAGACATGTTTATCATGTATTCAAT
Found at i:61447316 original size:30 final size:30
Alignment explanation
Indices: 61447218--61447321 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
61447208 AAAAATTTTA
* *
61447218 AACTTTTAAAGG-CCAAAAATTTTTTTACC
1 AACTTTTAAGGGCCCAAAATTTTTTTTACC
***
61447247 AACTTTTAAGGGGCCCCAAAATTTTTTTTTTTT
1 AACTTTTAA-GGG-CCCAAAA-TTTTTTTTACC
* *
61447280 AGCTTTTAAGGGCCCAAAGTTTTTTTTACC
1 AACTTTTAAGGGCCCAAAATTTTTTTTACC
61447310 AACTTTTAAGGG
1 AACTTTTAAGGG
61447322 ACCTAAAAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
29 9 0.15
30 21 0.35
31 6 0.10
32 9 0.15
33 15 0.25
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (30 bp):
AACTTTTAAGGGCCCAAAATTTTTTTTACC
Found at i:61453078 original size:28 final size:28
Alignment explanation
Indices: 61453014--61453084 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
61453004 CACAAGATAA
*
61453014 TCCTATATAGATAGTTACTGGCCGATTC
1 TCCTATATAGATAGTTACTGGCCGAATC
* ** *
61453042 TTCGGTATAGATAGTTACTGGCGGAATC
1 TCCTATATAGATAGTTACTGGCCGAATC
61453070 TCCTATATAGATAGT
1 TCCTATATAGATAGT
61453085 CTCTTTTGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (28 bp):
TCCTATATAGATAGTTACTGGCCGAATC
Found at i:61457384 original size:19 final size:21
Alignment explanation
Indices: 61457342--61457384 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
61457332 AGAGTTATAG
*
61457342 AAAATAAAAATAATTAAAGGA
1 AAAATAAAAATAATTAAAAGA
*
61457363 AAAAT-AAAA-AATTAAAATA
1 AAAATAAAAATAATTAAAAGA
61457382 AAA
1 AAA
61457385 TACCAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (21 bp):
AAAATAAAAATAATTAAAAGA
Found at i:61457438 original size:22 final size:22
Alignment explanation
Indices: 61457401--61457447 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 22
61457391 AAGTTTGTAT
61457401 CAATCTATATGAAA-TTG-ATC
1 CAATCTATATGAAATTTGAATC
61457421 CAATCTAGTATTGAAATTTGAATC
1 CAATCTA-TA-TGAAATTTGAATC
61457445 CAA
1 CAA
61457448 CCACAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 2 0.09
22 5 0.22
23 3 0.13
24 6 0.26
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (22 bp):
CAATCTATATGAAATTTGAATC
Found at i:61460092 original size:101 final size:101
Alignment explanation
Indices: 61459964--61460163 Score: 294
Period size: 101 Copynumber: 2.0 Consensus size: 101
61459954 CCATAGTCTT
* * * *
61459964 ACGTGCATAGTGTCATAACTCAGTTATGGTCGTATCATCAAAATGCCATAGCCCAGCTATGGTCA
1 ACGTCCATAGTGCCATAACCCAGTTATGGTCGTATCATCAAAATGCCACAGCCCAGCTATGGT-A
* *
61460029 -TACATATAAACACTGTCATAGTCCAACCATGGTCAG
65 TTACATATAAACACTGCCAAAGTCCAACCATGGTCAG
* * *
61460065 ACGTCCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAGCTTTGGTAT
1 ACGTCCATAGTGCCATAACCCAGTTATGGTCGTATCATCAAAATGCCACAGCCCAGCTATGGTAT
*
61460130 TACATATATACACTGCCAAAGTCCAACCATGGTC
66 TACATATAAACACTGCCAAAGTCCAACCATGGTC
61460164 TTAAATACTT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 87 0.99
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (101 bp):
ACGTCCATAGTGCCATAACCCAGTTATGGTCGTATCATCAAAATGCCACAGCCCAGCTATGGTAT
TACATATAAACACTGCCAAAGTCCAACCATGGTCAG
Found at i:61469565 original size:17 final size:18
Alignment explanation
Indices: 61469543--61469580 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61469533 ACCTCAAAAA
*
61469543 AAACGGT-TGTTTTTAAT
1 AAACGGTCTGATTTTAAT
*
61469560 AAACGGTCTGATTTTATT
1 AAACGGTCTGATTTTAAT
61469578 AAA
1 AAA
61469581 ACAACAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (18 bp):
AAACGGTCTGATTTTAAT
Found at i:61476569 original size:28 final size:29
Alignment explanation
Indices: 61476504--61476574 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
61476494 CACAAGATAA
* *
61476504 TCCTATATAGATAGTTACTGGCTGATTCT
1 TCCTATATAGATAGTTACTGGCGGAATCT
**
61476533 TCGGA-ATAGATAGTTACTGGCGGAATC-
1 TCCTATATAGATAGTTACTGGCGGAATCT
61476560 TCCTATATAGATAGT
1 TCCTATATAGATAGT
61476575 CTCTTTTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 3 0.09
28 29 0.83
29 3 0.09
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (29 bp):
TCCTATATAGATAGTTACTGGCGGAATCT
Found at i:61480602 original size:19 final size:19
Alignment explanation
Indices: 61480578--61480624 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
61480568 ATAGAGTTAT
61480578 AGAAAATAAAAATAATT-AA
1 AGAAAATAAAAA-AATTGAA
61480597 AGAAAAATAAAAAAATTGAA
1 AG-AAAATAAAAAAATTGAA
*
61480617 ATAAAATA
1 AGAAAATA
61480625 TCAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
AGAAAATAAAAAAATTGAA
Found at i:61485065 original size:28 final size:28
Alignment explanation
Indices: 61485001--61485071 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
61484991 CACAAGATAA
* *
61485001 TCCTATATAGATAGTTTCTGGCCGGTTC
1 TCCTATATAGATAGTTACTGGCCGGATC
* **
61485029 TTCGGTATAGATAGTTACTGG-CGGAATC
1 TCCTATATAGATAGTTACTGGCCGG-ATC
61485057 TCCTATATAGATAGT
1 TCCTATATAGATAGT
61485072 CTATTTTGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (28 bp):
TCCTATATAGATAGTTACTGGCCGGATC
Found at i:61488116 original size:12 final size:12
Alignment explanation
Indices: 61488099--61488125 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61488089 TGTCTGAAAC
61488099 TGCCTTTTATGA
1 TGCCTTTTATGA
61488111 TGCCTTTTATGA
1 TGCCTTTTATGA
61488123 TGC
1 TGC
61488126 ACTTGTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.48
Consensus pattern (12 bp):
TGCCTTTTATGA
Found at i:61494266 original size:20 final size:20
Alignment explanation
Indices: 61494243--61494289 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
61494233 GATAACTAAC
* *
61494243 ATTTTTTTATTTATGGTAAT
1 ATTTTTTTATTAATAGTAAT
* *
61494263 ATTTTTATATTAATAGTAGT
1 ATTTTTTTATTAATAGTAAT
61494283 ATTTTTT
1 ATTTTTT
61494290 AATAATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (20 bp):
ATTTTTTTATTAATAGTAAT
Found at i:61495929 original size:6 final size:6
Alignment explanation
Indices: 61495900--61495929 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
61495890 TTTAACAATT
61495900 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
61495930 AACTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:61495948 original size:37 final size:37
Alignment explanation
Indices: 61495875--61495956 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 37
61495865 AGAAATATTT
**
61495875 TTTTTATTTTTTATTTTTAACAATTTTTTTATTTTTA
1 TTTTTATTTTTTATTTTTAACAATTTTAGTATTTTTA
*
61495912 TTTTTA-TTTTTATTTTTAAACTATTATTAGTATTTTATAA
1 TTTTTATTTTTTATTTTT-AACAATT-TTAGTATTTT-T-A
61495952 TTTTT
1 TTTTT
61495957 TAAGTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 11 0.29
37 12 0.32
38 8 0.21
39 1 0.03
40 6 0.16
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (37 bp):
TTTTTATTTTTTATTTTTAACAATTTTAGTATTTTTA
Found at i:61496628 original size:11 final size:11
Alignment explanation
Indices: 61496614--61496638 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61496604 TTTCTAATTA
61496614 TTTAATAATAT
1 TTTAATAATAT
61496625 TTTAATAATAT
1 TTTAATAATAT
61496636 TTT
1 TTT
61496639 CTATATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:61510403 original size:18 final size:19
Alignment explanation
Indices: 61510380--61510416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
61510370 TGACTTCAAC
61510380 AAAAATT-TATTTTTTTAG
1 AAAAATTATATTTTTTTAG
61510398 AAAAATTAATATTTTTTTA
1 AAAAATT-ATATTTTTTTA
61510417 TTATTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
AAAAATTATATTTTTTTAG
Found at i:61510430 original size:28 final size:27
Alignment explanation
Indices: 61510385--61510437 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
61510375 TCAACAAAAA
*
61510385 TTTATTTTTTTAGAAAAATTAATATTTT
1 TTTATTATTTTAGAAAAATT-ATATTTT
61510413 TTTATTATTTT-GATAAAATTATATT
1 TTTATTATTTTAGA-AAAATTATATT
61510438 AAATATCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTATTATTTTAGAAAAATTATATTTT
Found at i:61510614 original size:19 final size:21
Alignment explanation
Indices: 61510570--61510619 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
61510560 GTTTATTTAT
* *
61510570 ATTAATCATATTTTAGTTTCA
1 ATTAATCTTATTTTAGCTTCA
61510591 ATTAATCTTATTTTA-CTT-A
1 ATTAATCTTATTTTAGCTTCA
*
61510610 ATTAAGCTTA
1 ATTAATCTTA
61510620 ATTGCCTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 2 0.08
21 14 0.54
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTAATCTTATTTTAGCTTCA
Found at i:61516841 original size:18 final size:18
Alignment explanation
Indices: 61516818--61516919 Score: 57
Period size: 20 Copynumber: 5.4 Consensus size: 18
61516808 TAAAACATTT
61516818 TTAAAAAATTAAAAAATA
1 TTAAAAAATTAAAAAATA
* *
61516836 TTAAAAATTTATATAAACT-
1 TTAAAAAATTA-A-AAAATA
* *
61516855 TATAACAATTATAAAAAATA
1 T-TAAAAAAT-TAAAAAATA
* **
61516875 TATATAAAATTTAAAAAACC
1 T-TA-AAAAATTAAAAAATA
61516895 TT-AAAAATTAAAAAATCA
1 TTAAAAAATTAAAAAAT-A
61516913 -TAAAAAA
1 TTAAAAAA
61516920 AAACTTAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
17 13 0.20
18 15 0.23
19 7 0.11
20 24 0.36
21 7 0.11
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAAAAATTAAAAAATA
Found at i:61516878 original size:20 final size:20
Alignment explanation
Indices: 61516827--61516909 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
61516817 TTTAAAAAAT
61516827 TAAAAAATAT-TAAAAATTTA
1 TAAAAAATATATAAAAA-TTA
* * *
61516847 TATAAACT-TATAACAATTA
1 TAAAAAATATATAAAAATTA
61516866 TAAAAAATATATATAAAATT-
1 TAAAAAATATATA-AAAATTA
**
61516886 TAAAAAACCT-TAAAAATTA
1 TAAAAAATATATAAAAATTA
61516905 -AAAAA
1 TAAAAA
61516910 TCATAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 11 0.22
19 12 0.24
20 23 0.45
21 5 0.10
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAAATATATAAAAATTA
Found at i:61516883 original size:11 final size:9
Alignment explanation
Indices: 61516821--61516918 Score: 53
Period size: 9 Copynumber: 10.6 Consensus size: 9
61516811 AACATTTTTA
61516821 AAAAATTA-
1 AAAAATTAT
61516829 AAAAA-TATT
1 AAAAATTA-T
61516838 AAAAATTTAT
1 AAAAA-TTAT
*
61516848 ATAAACTTAT
1 A-AAAATTAT
*
61516858 AACAATTAT
1 AAAAATTAT
61516867 AAAAAATATAT
1 -AAAAAT-TAT
61516878 ATAAAATT-T
1 A-AAAATTAT
*
61516887 AAAAAACCT-T
1 -AAAAA-TTAT
61516897 AAAAATTA-
1 AAAAATTAT
*
61516905 AAAAATCAT
1 AAAAATTAT
61516914 AAAAA
1 AAAAA
61516919 AAAACTTAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
7 2 0.03
8 13 0.18
9 26 0.37
10 17 0.24
11 13 0.18
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:61516916 original size:17 final size:17
Alignment explanation
Indices: 61516878--61516918 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
61516868 AAAAATATAT
*
61516878 ATAAAATTTAAAAAACC
1 ATAAAAATTAAAAAACC
* *
61516895 TTAAAAATTAAAAAATC
1 ATAAAAATTAAAAAACC
61516912 ATAAAAA
1 ATAAAAA
61516919 AAAACTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAATTAAAAAACC
Found at i:61517543 original size:19 final size:19
Alignment explanation
Indices: 61517521--61517589 Score: 52
Period size: 20 Copynumber: 3.7 Consensus size: 19
61517511 ATTGTATATT
61517521 TTTTATAATATTTTACAAG
1 TTTTATAATATTTTACAAG
* * * *
61517540 TTTTATGATTTTTTTATAAT
1 TTTTAT-AATATTTTACAAG
**
61517560 TTTTATAAT-TTACACAAG
1 TTTTATAATATTTTACAAG
*
61517578 -TATATAATATTT
1 TTTTATAATATTT
61517590 GTAATATTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 8 0.22
20 15 0.41
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTATAATATTTTACAAG
Found at i:61517554 original size:20 final size:20
Alignment explanation
Indices: 61517521--61517570 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
61517511 ATTGTATATT
*
61517521 TTTTATAA-TATTTTACAAG
1 TTTTATAATTTTTTTACAAG
* * *
61517540 TTTTATGATTTTTTTATAAT
1 TTTTATAATTTTTTTACAAG
61517560 TTTTATAATTT
1 TTTTATAATTT
61517571 ACACAAGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAG
Found at i:61518725 original size:15 final size:15
Alignment explanation
Indices: 61518690--61518731 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61518680 TTAAGAATTT
*
61518690 TATTAAATTAT-ATA
1 TATTTAATTATAATA
61518704 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
61518718 TATTTAATAATAAT
1 TATTTAATTATAAT
61518732 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:61518965 original size:45 final size:43
Alignment explanation
Indices: 61518865--61518974 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
61518855 TTTTCCATTA
61518865 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
61518904 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
61518949 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
61518975 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:61518976 original size:16 final size:16
Alignment explanation
Indices: 61518955--61519022 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
61518945 GATTTGCTAT
*
61518955 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
61518971 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
61518987 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
61519003 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
61519019 TACA
1 TACA
61519023 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:61518996 original size:32 final size:32
Alignment explanation
Indices: 61518955--61519022 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
61518945 GATTTGCTAT
61518955 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
61518987 TACACCTCTATTCCAATACACCTCTAATCCAA
1 TACACCTCTATTCCAATACACCTCTAATCCAA
61519019 TACA
1 TACA
61519023 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACCTCTATTCCAATACACCTCTAATCCAA
Found at i:61521432 original size:20 final size:20
Alignment explanation
Indices: 61521415--61521458 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
61521405 CTGGTCTTCT
61521415 TCAACCTCTTAAGCTCTTAA
1 TCAACCTCTTAAGCTCTTAA
61521435 TCAACCTCTTAAGCTCTT-A
1 TCAACCTCTTAAGCTCTTAA
61521454 TCAAC
1 TCAAC
61521459 ATTACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.34
Consensus pattern (20 bp):
TCAACCTCTTAAGCTCTTAA
Found at i:61525956 original size:20 final size:20
Alignment explanation
Indices: 61525931--61525970 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61525921 CATAAAATGA
*
61525931 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
61525951 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
61525971 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:61526093 original size:20 final size:20
Alignment explanation
Indices: 61526068--61526106 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
61526058 TTTTTTACAT
61526068 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
61526088 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
61526107 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:61526166 original size:15 final size:15
Alignment explanation
Indices: 61526137--61526189 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
61526127 TATTGCAATG
*
61526137 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
61526153 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
61526169 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
61526187 ATT
1 ATT
61526190 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:61529568 original size:25 final size:25
Alignment explanation
Indices: 61529509--61529569 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
61529499 AGAATATGCT
*
61529509 AAGAAG-AGAA-G-ATGAAGAACAG
1 AAGAAGAAGAAGGAATGAAAAACAG
* *
61529531 AAGAAGAAAAAGGAATGAAAAACGG
1 AAGAAGAAGAAGGAATGAAAAACAG
61529556 AAGAAGAAGAAGGA
1 AAGAAGAAGAAGGA
61529570 GCCTTACCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 6 0.19
23 3 0.09
24 1 0.03
25 22 0.69
ACGTcount: A:0.62, C:0.03, G:0.31, T:0.03
Consensus pattern (25 bp):
AAGAAGAAGAAGGAATGAAAAACAG
Found at i:61529652 original size:18 final size:18
Alignment explanation
Indices: 61529629--61529666 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61529619 TTTGCAATCC
61529629 AAGGGGAAGGGAAAAGGG
1 AAGGGGAAGGGAAAAGGG
*
61529647 AAGGGGAAGGGAAAGGGG
1 AAGGGGAAGGGAAAAGGG
61529665 AA
1 AA
61529667 AGGGTAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGAAAAGGG
Found at i:61529679 original size:24 final size:24
Alignment explanation
Indices: 61529629--61529680 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
61529619 TTTGCAATCC
* **
61529629 AAGGGGAAGGGAAAAGGGAAGGGG
1 AAGGGAAAGGGAAAAGGGAAGAAG
* *
61529653 AAGGGAAAGGGGAAAGGGTAGAAG
1 AAGGGAAAGGGAAAAGGGAAGAAG
61529677 AAGG
1 AAGG
61529681 CATCATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (24 bp):
AAGGGAAAGGGAAAAGGGAAGAAG
Found at i:61534433 original size:16 final size:16
Alignment explanation
Indices: 61534414--61534444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61534404 GTTTAAACCT
61534414 ATGTTCTTTTACATTC
1 ATGTTCTTTTACATTC
*
61534430 ATGTTCTTTTGCATT
1 ATGTTCTTTTACATT
61534445 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (16 bp):
ATGTTCTTTTACATTC
Found at i:61535700 original size:2 final size:2
Alignment explanation
Indices: 61535693--61535728 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
61535683 CTTTGTAATA
61535693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61535729 GATGAGACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61536630 original size:31 final size:31
Alignment explanation
Indices: 61536551--61536630 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
61536541 AAAAGATTAT
* * *
61536551 ATACCAACTTAATAAAAAGTGTCAAGTTTAG
1 ATACCAAATTAAAAAAAAGTGTCAAATTTAG
* *
61536582 ATACCAAATTAGAAAAAAGTGTCAAATTTGG
1 ATACCAAATTAAAAAAAAGTGTCAAATTTAG
*
61536613 ATACGAAATTAAAAAAAA
1 ATACCAAATTAAAAAAAA
61536631 AAGTTTAGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (31 bp):
ATACCAAATTAAAAAAAAGTGTCAAATTTAG
Found at i:61537243 original size:6 final size:6
Alignment explanation
Indices: 61537232--61537320 Score: 97
Period size: 6 Copynumber: 13.8 Consensus size: 6
61537222 CTAGGGAGAA
*
61537232 GGAAAG GGAAAG GGAAAAG CGTGAAAG GGAAAG GGAAAG GGAAAG AGAAAGG
1 GGAAAG GGAAAG GG-AAAG -G-GAAAG GGAAAG GGAAAG GGAAAG GGAAA-G
* *
61537284 GAGAAGAG GGAAAG AGAAAG AGAAAG GGAAAG GGAAA
1 G-GAA-AG GGAAAG GGAAAG GGAAAG GGAAAG GGAAA
61537321 AAGAGAGGGA
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
6 52 0.71
7 9 0.12
8 10 0.14
9 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.45, T:0.01
Consensus pattern (6 bp):
GGAAAG
Found at i:61537267 original size:39 final size:39
Alignment explanation
Indices: 61537210--61537320 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
61537200 AAGGAAAAGG
**
61537210 AGAGGGAAAGAGCTAGGGAGAA-GGAAAGGGAAAGGGAAA
1 AGAGGGAAAGAGAAAGGGA-AAGGGAAAGGGAAAGGGAAA
* * * * *
61537249 AGCGTGAAAGGGAAAGGGAAAGGGAAAGAGAAAGGGAGA
1 AGAGGGAAAGAGAAAGGGAAAGGGAAAGGGAAAGGGAAA
*
61537288 AGAGGGAAAGAGAAAGAGAAAGGGAAAGGGAAA
1 AGAGGGAAAGAGAAAGGGAAAGGGAAAGGGAAA
61537321 AAGAGAGGGA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 2 0.03
39 57 0.97
ACGTcount: A:0.51, C:0.02, G:0.45, T:0.02
Consensus pattern (39 bp):
AGAGGGAAAGAGAAAGGGAAAGGGAAAGGGAAAGGGAAA
Found at i:61537269 original size:33 final size:34
Alignment explanation
Indices: 61537224--61537314 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
61537214 GGAAAGAGCT
*
61537224 AGGGAGAA-GGAAAGGGAAAGGGAAAAGCGTGAA-
1 AGGGA-AAGGGAAAGGGAAAGGGAAAAGCGAGAAG
* *
61537257 AGGGAAAGGGAAAGGGAAAGAG-AAAGGGAGAAG
1 AGGGAAAGGGAAAGGGAAAGGGAAAAGCGAGAAG
* *
61537290 AGGGAAAGAGAAAGAGAAAGGGAAA
1 AGGGAAAGGGAAAGGGAAAGGGAAA
61537315 GGGAAAAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 10 0.20
33 37 0.76
34 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.45, T:0.01
Consensus pattern (34 bp):
AGGGAAAGGGAAAGGGAAAGGGAAAAGCGAGAAG
Found at i:61537293 original size:27 final size:27
Alignment explanation
Indices: 61537212--61537312 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 27
61537202 GGAAAAGGAG
**
61537212 AGGGAAAGAGCTAGGGAGAAGGAAAGGGAA
1 AGGGAAAGAGAAAGGGAGAA-G--AGGGAA
*
61537242 AGGGAAAAGCGTGAAA-GG-GAA-AGGGAA
1 AGGG-AAA--GAGAAAGGGAGAAGAGGGAA
61537269 AGGGAAAGAGAAAGGGAGAAGAGGGAA
1 AGGGAAAGAGAAAGGGAGAAGAGGGAA
*
61537296 AGAGAAAGAGAAAGGGA
1 AGGGAAAGAGAAAGGGA
61537313 AAGGGAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
24 5 0.08
25 2 0.03
26 6 0.10
27 32 0.53
30 4 0.07
31 6 0.10
32 2 0.03
33 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.46, T:0.02
Consensus pattern (27 bp):
AGGGAAAGAGAAAGGGAGAAGAGGGAA
Found at i:61555203 original size:348 final size:348
Alignment explanation
Indices: 61554566--61555262 Score: 1376
Period size: 348 Copynumber: 2.0 Consensus size: 348
61554556 TTTATTACCG
61554566 GTAAATGAATGCATGTTTAAAGATGTTTATATGCAGATCATTGCATCATCTTTAAAAGGCGCATT
1 GTAAATGAATGCATGTTTAAAGATGTTTATATGCAGATCATTGCATCATCTTTAAAAGGCGCATT
61554631 AATGTTTTGGGTTCAAATCCTAACCTTTGTAATTCCCGATTTATGGGCTTTTTTGTATATAAAAA
66 AATGTTTTGGGTTCAAATCCTAACCTTTGTAATTCCCGATTTATGGGCTTTTTTGTATATAAAAA
61554696 AAACGAAAAAAAAATCTCCAAAATCACAAAAGCATAGAAATACGAGAGAGAGTGAGTACGATATT
131 AAACGAAAAAAAAATCTCCAAAATCACAAAAGCATAGAAATACGAGAGAGAGTGAGTACGATATT
61554761 CTGACTTTTCAATTTTCTCGAATTATATATTTATTAATGACATTTGTGTCCCAATATAATTTTTT
196 CTGACTTTTCAATTTTCTCGAATTATATATTTATTAATGACATTTGTGTCCCAATATAATTTTTT
61554826 TAATTTAATAATTGAGAGAATATATTTTATAAATGACTTTCATGTCCAAATATAATTTTTAGGAT
261 TAATTTAATAATTGAGAGAATATATTTTATAAATGACTTTCATGTCCAAATATAATTTTTAGGAT
61554891 TTAAATTTCTAAAAGTAAAAATA
326 TTAAATTTCTAAAAGTAAAAATA
61554914 GTAAATGAATGCATGTTTAAAGATGTTTATATGCAGATCATTGCATCATCTTTAAAAGGCGCATT
1 GTAAATGAATGCATGTTTAAAGATGTTTATATGCAGATCATTGCATCATCTTTAAAAGGCGCATT
61554979 AATGTTTTGGGTTCAAATCCTAACCTTTGTAATTCCCGATTTATGGGCTTTTTTGTATATAAAAA
66 AATGTTTTGGGTTCAAATCCTAACCTTTGTAATTCCCGATTTATGGGCTTTTTTGTATATAAAAA
61555044 AAACGAAAAAAAAATCTCCAAAATCACAAAAGCATAGAAATACGAGAGAGAGTGAGTACGATATT
131 AAACGAAAAAAAAATCTCCAAAATCACAAAAGCATAGAAATACGAGAGAGAGTGAGTACGATATT
61555109 CTGACTTTTCAATTTTCTCGAATTATATATTTATTAATGACATTTGTGTCCCAATATAATTTTTT
196 CTGACTTTTCAATTTTCTCGAATTATATATTTATTAATGACATTTGTGTCCCAATATAATTTTTT
*
61555174 TAATTTAATAATTGAGAGAATATATTTTATAAATGGCTTTCATGTCCAAATATAATTTTTAGGAT
261 TAATTTAATAATTGAGAGAATATATTTTATAAATGACTTTCATGTCCAAATATAATTTTTAGGAT
*
61555239 TTAAATTTCTAAAAGTAGAAATA
326 TTAAATTTCTAAAAGTAAAAATA
61555262 G
1 G
61555263 GGGACAAAAT
Statistics
Matches: 347, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
348 347 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (348 bp):
GTAAATGAATGCATGTTTAAAGATGTTTATATGCAGATCATTGCATCATCTTTAAAAGGCGCATT
AATGTTTTGGGTTCAAATCCTAACCTTTGTAATTCCCGATTTATGGGCTTTTTTGTATATAAAAA
AAACGAAAAAAAAATCTCCAAAATCACAAAAGCATAGAAATACGAGAGAGAGTGAGTACGATATT
CTGACTTTTCAATTTTCTCGAATTATATATTTATTAATGACATTTGTGTCCCAATATAATTTTTT
TAATTTAATAATTGAGAGAATATATTTTATAAATGACTTTCATGTCCAAATATAATTTTTAGGAT
TTAAATTTCTAAAAGTAAAAATA
Found at i:61558212 original size:21 final size:21
Alignment explanation
Indices: 61558186--61558232 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
61558176 ATGGAGGCGA
*
61558186 TCTCCATGTAGATCA-TCAAGG
1 TCTCCAGGTAGAT-ATTCAAGG
61558207 TCTCCAGGTAGATATTCAAGG
1 TCTCCAGGTAGATATTCAAGG
61558228 TCTCC
1 TCTCC
61558233 TTCTGGGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (21 bp):
TCTCCAGGTAGATATTCAAGG
Found at i:61560134 original size:22 final size:22
Alignment explanation
Indices: 61560106--61560148 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61560096 AGTTAAAATT
*
61560106 AAATACGTTATAT-TTATTTATC
1 AAATACGCTATATATT-TTTATC
61560128 AAATACGCTATATATTTTTAT
1 AAATACGCTATATATTTTTAT
61560149 ATGTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
AAATACGCTATATATTTTTATC
Found at i:61569435 original size:101 final size:101
Alignment explanation
Indices: 61569257--61569469 Score: 300
Period size: 101 Copynumber: 2.1 Consensus size: 101
61569247 TTGAAGTATT
** * * *
61569257 TAAGACCATGGTTGGACCATGGTAGTGTATATATGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTATATATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
* * ** *
61569322 TGATAAGGCCATAACTCGGTTATGGCACTATGGACG
66 TGACAAGACCATAACTAAGTTATGACACTATGGACG
* * *
61569358 TATGACCATGGTTGGACCATGACAGTATTTATATGTAAGACCATAGCTGGGTTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGACAGTATATATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
*
61569423 TGACAAGACCATAACTAAGTTATGACACTATGTACG
66 TGACAAGACCATAACTAAGTTATGACACTATGGACG
61569459 TAAGACCATGG
1 TAAGACCATGG
61569470 CAGGGCTGTG
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATATATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGACAAGACCATAACTAAGTTATGACACTATGGACG
Found at i:61571206 original size:51 final size:50
Alignment explanation
Indices: 61571151--61571448 Score: 258
Period size: 51 Copynumber: 5.9 Consensus size: 50
61571141 GTGAAAGTGT
*
61571151 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * * ** * * * * *
61571202 TGGTCACATGCGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATA
* * *
61571253 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGG
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * * * * * *
61571304 TGGTCACATGTGTAGTACTAAGTGAAGCCTACTATGTGTACCGAAAAACTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-TA
* * * *
61571355 TAGTCACGTATGTAGTACTATGTGAAGGCTATTACGTGAAAT-G-TAAAAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AATCGATAAATA
* * *
61571404 TTGATCACGTGTGTAGTACTATGTGAAGACTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
61571449 ATGATAGTAG
Statistics
Matches: 187, Mismatches: 53, Indels: 14
0.74 0.21 0.06
Matches are distributed among these distances:
49 2 0.01
50 38 0.20
51 144 0.77
52 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA
Found at i:61571309 original size:102 final size:102
Alignment explanation
Indices: 61571150--61571436 Score: 373
Period size: 102 Copynumber: 2.8 Consensus size: 102
61571140 AGTGAAAGTG
61571150 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGT
* * *
61571215 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGCCTACAATATGTACCGAAAAACT
* ** *
61571252 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGGTGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGT
* *
61571317 AGTACTAAGTGAAGCCTACTATGTGTACCGAAAAACT
66 AGTACTAAGTGAAGCCTACAATATGTACCGAAAAACT
* * * * * * *
61571354 TTAGTCACGTATGTAGTACTATGTGAAGGCTATTACGTGAAAT-G-TAAA-AATTGATCACGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTG-AATCGATAAATAA-TGGTCACATGC
* *
61571416 GTAGTACTATGTGAAGACTAC
64 GTAGTACTAAGTGAAGCCTAC
61571437 TACGTGTATC
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
101 32 0.20
102 129 0.79
103 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGT
AGTACTAAGTGAAGCCTACAATATGTACCGAAAAACT
Found at i:61576052 original size:18 final size:17
Alignment explanation
Indices: 61576031--61576066 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
61576021 TTTCAATTGG
*
61576031 AAAAAATGAAAGAGAAA
1 AAAAAATGAAAAAGAAA
61576048 AAAAAA-GAAAAAGAAA
1 AAAAAATGAAAAAGAAA
61576064 AAA
1 AAA
61576067 TAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAATGAAAAAGAAA
Found at i:61591545 original size:101 final size:101
Alignment explanation
Indices: 61591367--61591579 Score: 286
Period size: 101 Copynumber: 2.1 Consensus size: 101
61591357 CTGAAGTATT
* * * * ** *
61591367 TAAGACCATGGTTGGACCATGGCAGTGTACATATGTAAGACTATAGTTGGGTTGTGGCATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTGTACATATGTAAGACCATAGCTGGGCTACGACATTCTGA
*
61591432 TGATAAGACCATAACTG-GTTTTTGACACTATAG-ACG
66 TGATAAGACCATAACTGAG-TTATGACACTAT-GCACG
* ** *
61591468 TATGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTACGATATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTGTACATATGTAAGACCATAGCTGGGCTACGACATTCTGA
61591533 TGATAAGACCATAACTGAGTTATGACACTATGCACG
66 TGATAAGACCATAACTGAGTTATGACACTATGCACG
61591569 TAAGACCATGG
1 TAAGACCATGG
61591580 CAGGGCTGCG
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 1 0.01
101 95 0.98
102 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTGTACATATGTAAGACCATAGCTGGGCTACGACATTCTGA
TGATAAGACCATAACTGAGTTATGACACTATGCACG
Found at i:61591602 original size:101 final size:99
Alignment explanation
Indices: 61591425--61591612 Score: 218
Period size: 101 Copynumber: 1.9 Consensus size: 99
61591415 GGGTTGTGGC
* * ** *
61591425 ATTCTGATGATAAGACCATAACTGGTTTTTGACACTATAGACGTATGACCATGGTTGGACCATGA
1 ATTCTGATGATAAGACCATAACTGGTTTATGACACTATAGACGTAAGACCATGGCAGGACCACGA
* * *
61591490 CAGTGTTTATATGTAAGACCATAGCTGGGCTACGAT
66 CAATG--CATATATAAGACCATAGCTGGGCTACGAT
* **
61591526 ATTCTGATGATAAGACCATAACTGAG-TTATGACACTAT-GCACGTAAGACCATGGCAGGGCTGC
1 ATTCTGATGATAAGACCATAACTG-GTTTATGACACTATAG-ACGTAAGACCATGGCAGGACCAC
*
61591589 GGCAATGCATATATAAGACCATAG
64 GACAATGCATATATAAGACCATAG
61591613 TTGGATTATG
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
99 15 0.21
100 1 0.01
101 56 0.77
102 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (99 bp):
ATTCTGATGATAAGACCATAACTGGTTTATGACACTATAGACGTAAGACCATGGCAGGACCACGA
CAATGCATATATAAGACCATAGCTGGGCTACGAT
Found at i:61598313 original size:56 final size:56
Alignment explanation
Indices: 61598236--61598343 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
61598226 AAATGGTATG
*
61598236 TTTTTTTAATGGCGCCTATCTGATAGGCGCCAATAAATTTTTTATAATAAAAAATA
1 TTTTTTTAATGACGCCTATCTGATAGGCGCCAATAAATTTTTTATAATAAAAAATA
* * *
61598292 TTTTTTTGATGACGCCTATCTGATAGGCGCCAATGAATTTTTTATATTAAAA
1 TTTTTTTAATGACGCCTATCTGATAGGCGCCAATAAATTTTTTATAATAAAA
61598344 TTTTTTCTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (56 bp):
TTTTTTTAATGACGCCTATCTGATAGGCGCCAATAAATTTTTTATAATAAAAAATA
Found at i:61598454 original size:27 final size:26
Alignment explanation
Indices: 61598424--61598498 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
61598414 GCGAGTAGTT
* *
61598424 GCGCCTATCTCAGAGGCGCCAATGGTG
1 GCGCTTATCT-AGAGGCGCCAATGATG
*
61598451 GCGCTTATCTGGCAGGCGCCAATGATG
1 GCGCTTATCTAG-AGGCGCCAATGATG
* *
61598478 GAGCTTATCTGACAGGCGCCA
1 GCGCTTATCT-AGAGGCGCCA
61598499 CTGCTTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.20
Consensus pattern (26 bp):
GCGCTTATCTAGAGGCGCCAATGATG
Found at i:61620452 original size:44 final size:43
Alignment explanation
Indices: 61620337--61620502 Score: 158
Period size: 44 Copynumber: 3.8 Consensus size: 43
61620327 GTTTATTATT
* * *
61620337 CAGAG-TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAG
1 CAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
* * * *
61620379 AATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 CA---GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
*
61620425 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 -CAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
** *
61620469 ACA-CTATCCTATCTCCCTGA-AGTTACAGTGGAGC
1 -CAGAGATCTTATCTCCCTGAGA-TTACAGTGGAGC
61620503 GGATTAAAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.02
43 25 0.25
44 39 0.39
45 2 0.02
46 32 0.32
47 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (43 bp):
CAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG
Found at i:61620500 original size:87 final size:87
Alignment explanation
Indices: 61620337--61620507 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 87
61620327 GTTTATTATT
* * * *
61620337 CAGAGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTTCAGATCTTATCTCCCTGA
1 CAGAGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAA--TCAGATCCTATCTCCCTGA
*
61620402 GGTTACAGTGGAGCAGATTGAAGC
64 AGTTACAGTGGAGCAGATTGAAGC
* *
61620426 CAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGA
1 CAGAG-TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCA-GATCCTATCTCCCTGA
*
61620489 AGTTACAGTGGAGCGGATT
64 AGTTACAGTGGAGCAGATT
61620508 AAAATAAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
86 2 0.03
87 31 0.43
89 6 0.08
90 33 0.46
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (87 bp):
CAGAGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAGATCCTATCTCCCTGAAG
TTACAGTGGAGCAGATTGAAGC
Found at i:61620521 original size:87 final size:88
Alignment explanation
Indices: 61620338--61620527 Score: 208
Period size: 87 Copynumber: 2.2 Consensus size: 88
61620328 TTTATTATTC
* * * *
61620338 AGAG-TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGGAGAATTTCAGATCTTATCTCCCTGA
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAA--TCAGATCCTATCTCCCTGA
* * **
61620402 GGTTACAGTGGAGCAGATTGAAGCC
64 AGTTACAGTGGAGCAGATTAAAGAA
* *
61620427 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAA
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCA-GATCCTATCTCCCTGAA
* *
61620490 GTTACAGTGGAGCGGATTAAAATAA
65 GTTACAGTGGAGCAGATT-AAAGAA
61620515 AG-GATCTTATCTC
1 AGAGATCTTATCTC
61620528 TCTAAAGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
86 2 0.02
87 42 0.49
88 4 0.05
89 5 0.06
90 33 0.38
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (88 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAGATCCTATCTCCCTGAAG
TTACAGTGGAGCAGATTAAAGAA
Found at i:61622130 original size:28 final size:26
Alignment explanation
Indices: 61622080--61622140 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
61622070 TAATCAACTT
* *
61622080 TATTTTTATTATTAATTCTATTATTGC
1 TATTATTATTATTAATTCCATTATT-C
61622107 TACTTATTATTATT-ATTGCCATTATTC
1 TA-TTATTATTATTAATT-CCATTATTC
61622134 TATTATT
1 TATTATT
61622141 TCTTATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.17
27 8 0.27
28 17 0.57
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (26 bp):
TATTATTATTATTAATTCCATTATTC
Found at i:61638259 original size:25 final size:23
Alignment explanation
Indices: 61638231--61638288 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
61638221 TTTTAAAGTT
* *
61638231 AAATACTAATGGACAATAAATAATA
1 AAATACTAATAGAAAAT-AA-AATA
*
61638256 AAATAATAATAGAAAATAAAATA
1 AAATACTAATAGAAAATAAAATA
*
61638279 AAAAACTAAT
1 AAATACTAAT
61638289 CTTCATCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 12 0.43
24 2 0.07
25 14 0.50
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (23 bp):
AAATACTAATAGAAAATAAAATA
Found at i:61638741 original size:20 final size:18
Alignment explanation
Indices: 61638716--61638754 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
61638706 CAATTAATTA
61638716 ATTTTTAGAATATTTTATAT
1 ATTTTTA-AATATTTT-TAT
61638736 ATTTTTAAATATTTTTAT
1 ATTTTTAAATATTTTTAT
61638754 A
1 A
61638755 AAATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTTAAATATTTTTAT
Found at i:61638761 original size:20 final size:20
Alignment explanation
Indices: 61638718--61638761 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
61638708 ATTAATTAAT
* *
61638718 TTTTAGAATATTTTATATAT
1 TTTTAGAATATTTTATAAAA
61638738 TTTTA-AATATTTTTATAAAA
1 TTTTAGAATA-TTTTATAAAA
61638758 TTTT
1 TTTT
61638762 CAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTAGAATATTTTATAAAA
Found at i:61642711 original size:41 final size:41
Alignment explanation
Indices: 61642651--61642888 Score: 287
Period size: 41 Copynumber: 5.7 Consensus size: 41
61642641 CTAACTTTTT
* *
61642651 GCGGCGCTTACAGAAAAAACGCCGCTAAAGGTCATGTTCTTTA
1 GCGGCGCTT--AGAAAAAACGCCACTAAAGATCATGTTCTTTA
* *
61642694 TCGGCGCTTAGAAAAAACGCCACTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
*
61642735 GCGGCGCTTAGGAAAAAAATGCCACTAAAGATCATGTTCTTTA
1 GCGGCGCTTA-G-AAAAAACGCCACTAAAGATCATGTTCTTTA
* * *
61642778 GCGGCGCTTAGAAAAAAAGCCAATAAAGATCATGATCTTTA
1 GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
* * * * *
61642819 GCGGCGCTTGTGCAACAAACGCCGCTAAAGACCATGATCTTTA
1 GCGGCGCTT-AG-AAAAAACGCCACTAAAGATCATGTTCTTTA
* *
61642862 GCGGCGCTTATAGAAAACGCCACTAAA
1 GCGGCGCTTAGAAAAAACGCCACTAAA
61642889 TTACATGATC
Statistics
Matches: 170, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 87 0.51
42 3 0.02
43 80 0.47
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
Found at i:61642792 original size:84 final size:84
Alignment explanation
Indices: 61642651--61642953 Score: 337
Period size: 84 Copynumber: 3.6 Consensus size: 84
61642641 CTAACTTTTT
* * *
61642651 GCGGCGCTTA-CAGAAAAAACGCCGCTAAAGGTCATGTTCTTTATCGGCGCTTAGAAAAAACGCC
1 GCGGCGCTTAGGA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCC
*
61642715 ACTAAATATCATGTTCTTTA
65 ACTAAATATCATGATCTTTA
* * *
61642735 GCGGCGCTTAGGAAAAAAATGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAGCCA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCA
* *
61642800 ATAAAGATCATGATCTTTA
66 CTAAATATCATGATCTTTA
* * * * * *
61642819 GCGGCGCTT-GTGCAACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTATAGAAAACGCC
1 GCGGCGCTTAG-GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCC
61642883 ACTAAAT-TACATGATCTTTA
65 ACTAAATAT-CATGATCTTTA
* * * * * **
61642903 GCTGCACTT-GGGAATAAACGCCGCTAAA-AGTAAAATTCTTTAGCGGCGCTT
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
61642954 TATCTACAAA
Statistics
Matches: 186, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
82 1 0.01
83 34 0.18
84 150 0.81
85 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (84 bp):
GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCA
CTAAATATCATGATCTTTA
Found at i:61642973 original size:43 final size:43
Alignment explanation
Indices: 61642918--61643058 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
61642908 ACTTGGGAAT
* * *
61642918 AAACGCCGCTAAAAGTAAAATTCTTTAGCGGCGCTTTATCTAC
1 AAACGCCACTAAAAGTAAAATTCTTTAGCGGCGCTTTATTTAA
*** * * *
61642961 AAACGCCACTAAAAGTAGTGTGCTTTAGCGGCAC-TTATTTCAG
1 AAACGCCACTAAAAGTAAAATTCTTTAGCGGCGCTTTATTT-AA
* * * * *
61643004 AAACGCCACTATATGATATAACT-TTTAGCGGCGCTTTTTTTAA
1 AAACGCCACTAAAAG-TAAAATTCTTTAGCGGCGCTTTATTTAA
61643047 AAACGCCACTAA
1 AAACGCCACTAA
61643059 TTTTGGGATT
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
42 5 0.07
43 64 0.84
44 7 0.09
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACGCCACTAAAAGTAAAATTCTTTAGCGGCGCTTTATTTAA
Found at i:61643413 original size:66 final size:66
Alignment explanation
Indices: 61643328--61643460 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
61643318 CATCATCATC
* * * *
61643328 TGAAGTTGCTGTTGAAGTTCGTCATACTTTCTGCT-CTGCTCTGCTTCTCTCGATGCCGCATCTG
1 TGAAGTCGCTGTTGAAGTTCGTCATA-TTTCTGCTGATCCTCTGCTTCTCTCGATGCAGCATCTG
61643392 CT
65 CT
* * * ** * *
61643394 TGAAGTCGTTGTTGTAGTTCTTCATATTTCTTTTGATCCTCTGCTTCTCTCGCTGCAGCCTCTGC
1 TGAAGTCGCTGTTGAAGTTCGTCATATTTCTGCTGATCCTCTGCTTCTCTCGATGCAGCATCTGC
61643459 T
66 T
61643460 T
1 T
61643461 CCCTCGCTGC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 6 0.11
66 49 0.89
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (66 bp):
TGAAGTCGCTGTTGAAGTTCGTCATATTTCTGCTGATCCTCTGCTTCTCTCGATGCAGCATCTGC
T
Found at i:61643455 original size:21 final size:21
Alignment explanation
Indices: 61643431--61643478 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
61643421 TTCTTTTGAT
*
61643431 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
61643452 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
61643473 CCTCTG
1 CCTCTG
61643479 TTTTAAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.48, G:0.19, T:0.31
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:61643534 original size:87 final size:87
Alignment explanation
Indices: 61643366--61643525 Score: 203
Period size: 87 Copynumber: 1.8 Consensus size: 87
61643356 TTCTGCTCTG
* * * *
61643366 CTCTGCTTCTCTCGATGCCGCATCTGCTTGAAGTCGTTGTTGTAGTTCTTCATATTTCTTTTGAT
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTGAAGTCGTTGCTGAAGTTCTTCATATTTCTTTTGAA
*** *
61643431 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAAATTCGCTCGCTGCAGC
* * * * *
61643453 CTCTGCTTCCCTCGCTGCCGCCTCTGTTTTAAGTTGTTGCTGAAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTGAAGTCGTTGCTGAAGTTCTTCATATTTCTTTTGAA
61643518 CCTCAAAT
66 CCTCAAAT
61643526 GTGGTCGCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.12, C:0.28, G:0.17, T:0.42
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATGCCGCATCTGCTTGAAGTCGTTGCTGAAGTTCTTCATATTTCTTTTGAA
CCTCAAATTCGCTCGCTGCAGC
Found at i:61648862 original size:33 final size:33
Alignment explanation
Indices: 61648793--61648890 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
61648783 CTATACCCAT
* * *
61648793 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
61648830 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
61648863 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
61648891 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:61649291 original size:41 final size:41
Alignment explanation
Indices: 61649107--61649303 Score: 290
Period size: 41 Copynumber: 4.8 Consensus size: 41
61649097 ACCGGCTCTT
*
61649107 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
61649148 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
61649189 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
61649230 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGACGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
61649271 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
61649304 TAACGATAAA
Statistics
Matches: 144, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 135 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:61651884 original size:9 final size:9
Alignment explanation
Indices: 61651870--61651997 Score: 81
Period size: 9 Copynumber: 14.8 Consensus size: 9
61651860 TTTTTATGTA
61651870 TTATGTAAG
1 TTATGTAAG
*
61651879 TTATGTAAC
1 TTATGTAAG
*
61651888 TTACGTAAG
1 TTATGTAAG
** *
61651897 TTATCAAAC
1 TTATGTAAG
* *
61651906 TAATGTATG
1 TTATGTAAG
*
61651915 TTATGTATG
1 TTATGTAAG
61651924 -T-TGTAAG
1 TTATGTAAG
*
61651931 TTAT-TATG
1 TTATGTAAG
61651939 TATTATGTAAG
1 --TTATGTAAG
61651950 TTATGT-A-
1 TTATGTAAG
61651957 TTATGT-AG
1 TTATGTAAG
*
61651965 -TGTGTAAG
1 TTATGTAAG
* *
61651973 ATATTTAAG
1 TTATGTAAG
61651982 TTATGTAAG
1 TTATGTAAG
61651991 TTATGTA
1 TTATGTA
61651998 TGCTATGTAT
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
7 16 0.18
8 8 0.09
9 59 0.66
10 4 0.04
11 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61651939 original size:19 final size:20
Alignment explanation
Indices: 61651915--61652039 Score: 75
Period size: 19 Copynumber: 6.0 Consensus size: 20
61651905 CTAATGTATG
61651915 TTATGTATGT-TGTAAGTTA
1 TTATGTATGTATGTAAGTTA
61651934 TTATGTAT-TATGTAAGTTA
1 TTATGTATGTATGTAAGTTA
61651953 TGTAT-TATGTAGTGTGTAAG--A
1 T-TATGTATGTA---TGTAAGTTA
* *
61651974 -TATTTAAGTTATGTAAGTTA
1 TTATGTATG-TATGTAAGTTA
*
61651994 TGTATGCTATGTATAATGTAAGTTG
1 T-TATG-TATG--T-ATGTAAGTTA
61652019 TTATGCTAT-TATGTAAGTTA
1 TTATG-TATGTATGTAAGTTA
61652039 T
1 T
61652040 GAAAGTTTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
18 7 0.08
19 24 0.28
20 19 0.22
21 4 0.05
22 3 0.04
23 9 0.11
24 9 0.11
25 10 0.12
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.49
Consensus pattern (20 bp):
TTATGTATGTATGTAAGTTA
Found at i:61655079 original size:20 final size:20
Alignment explanation
Indices: 61655054--61655100 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
61655044 AATAAGAAAG
61655054 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
61655074 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
61655094 ATATAAA
1 ATATAAA
61655101 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:61656605 original size:17 final size:17
Alignment explanation
Indices: 61656571--61656605 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
61656561 TTACCTTTGC
**
61656571 CTTGCCTTGTTCTTGTT
1 CTTGCCTTGTTCCAGTT
61656588 CTTGCCTTGTTCCAGTT
1 CTTGCCTTGTTCCAGTT
61656605 C
1 C
61656606 AAACAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.29, G:0.17, T:0.51
Consensus pattern (17 bp):
CTTGCCTTGTTCCAGTT
Found at i:61657324 original size:27 final size:27
Alignment explanation
Indices: 61657292--61657343 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
61657282 TCTTACTTTT
* *
61657292 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
61657319 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
61657344 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:61657428 original size:10 final size:10
Alignment explanation
Indices: 61657413--61657449 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
61657403 ATAACTATAT
61657413 ATATATATCC
1 ATATATATCC
*
61657423 ATATATATTC
1 ATATATATCC
61657433 ATATATATCC
1 ATATATATCC
61657443 ATATATA
1 ATATATA
61657450 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:61659191 original size:14 final size:14
Alignment explanation
Indices: 61659172--61659239 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
61659162 ATGACCGTTG
61659172 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
61659186 AAACCCCCTAAACCTC
1 AAA--CCCTAAATCTC
*
61659202 CAACCCTAAAT-T-
1 AAACCCTAAATCTC
* *
61659214 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
61659227 AAACCTTAAATCT
1 AAACCCTAAATCT
61659240 ATACCCAGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 9 0.21
13 1 0.02
14 21 0.49
16 12 0.28
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:61659837 original size:41 final size:41
Alignment explanation
Indices: 61659726--61660043 Score: 231
Period size: 41 Copynumber: 7.8 Consensus size: 41
61659716 TTTTGTTACT
*
61659726 ATTAGCGGCGCTTCAG-CAAAAACGCCGCTAAAGG-T--AGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGCTAGAGC
* * *
61659764 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCTAGAGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGCTAGAGC
* * * ** *
61659806 ATTAGTGGCGCTCAAATAAAAACGCCACTAAAAAC-ACGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCTA-GAGC
* * * *
61659847 TTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAAC-AGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCTAGAGC
* * * * * *
61659887 ATTAGTGGCGCTCAGACAATAACGCCACT-AATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCTA-GAGC
* * * *
61659928 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAAC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCTAGAGC
* * * * *
61659969 ATTAGTGGCGCTCAGATAAAAACGCCGTTAAA-GATCGGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCT-AGAGC
* * *
61660010 ATTAGCGGCGCTAAAATAAAAACGCCACTAAAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
61660044 TTTAAAAATC
Statistics
Matches: 216, Mismatches: 51, Indels: 22
0.75 0.18 0.08
Matches are distributed among these distances:
37 2 0.01
38 12 0.06
39 16 0.07
40 35 0.16
41 129 0.60
42 22 0.10
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCTAGAGC
Found at i:61659891 original size:81 final size:81
Alignment explanation
Indices: 61659763--61659994 Score: 288
Period size: 81 Copynumber: 2.8 Consensus size: 81
61659753 CTAAAGGTAG
* * * * *
61659763 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCTAGAGTATTAGTGGCGCTCAAATAAAAA
1 CATTAGCGGCGCTTAGACA-AAAACGCCGCTAAAGAC-AGAGAATTAGTGGCGCTCAGATAAAAA
61659828 CGCCACTAAAAACACGAA
64 CGCCACTAAAAACACGAA
* * *
61659846 CTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATAAC
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG-ACAGAGAATTAGTGGCGCTCAGATAAAAAC
** * *
61659910 GCCACTAATGATACGAG
65 GCCACTAAAAACACGAA
*
61659927 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGA-ACATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAA-GACAGAGA-ATTAGTGGCGCTCAGATAAAAA
61659991 CGCC
64 CGCC
61659995 GTTAAAGATC
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
81 69 0.53
82 45 0.35
83 16 0.12
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (81 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAGAGAATTAGTGGCGCTCAGATAAAAACG
CCACTAAAAACACGAA
Found at i:61659981 original size:82 final size:81
Alignment explanation
Indices: 61659761--61660043 Score: 327
Period size: 82 Copynumber: 3.5 Consensus size: 81
61659751 CGCTAAAGGT
* * * *
61659761 AGCATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCTAGAGTATTAGTGGCGCTCAAATAAA
1 AGCATTAGCGGCGCTTAGATA-AAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAA
* *
61659826 AACGCCACTAAAAACACG
64 AACGCCACTAAAGATACG
* * ** * *
61659844 AACTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAAA
*
61659908 ACGCCACTAATGATACG
65 ACGCCACTAAAGATACG
*
61659925 AGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATAAAA
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAA-ATTAGTGGCGCTCAGATAAAA
**
61659990 ACGCCGTTAAAGAT-CGG
65 ACGCCACTAAAGATAC-G
* * * *
61660007 AGAATTAGCGGCGCTAAAATAAAAACGCCACTAAAGG
1 AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
61660044 TTTAAAAATC
Statistics
Matches: 170, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
81 70 0.41
82 84 0.49
83 16 0.09
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAAATTAGTGGCGCTCAGATAAAAA
CGCCACTAAAGATACG
Found at i:61661020 original size:15 final size:15
Alignment explanation
Indices: 61661000--61661039 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
61660990 ACAGGAGTAT
61661000 AATAAAATATTAAAA
1 AATAAAATATTAAAA
*
61661015 AAT-AAATATTTAAA
1 AATAAAATATTAAAA
61661029 AATAAATATAT
1 AATAAA-ATAT
61661040 ATATAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 5 0.23
16 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAAATATTAAAA
Found at i:61661023 original size:14 final size:14
Alignment explanation
Indices: 61661004--61661037 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
61660994 GAGTATAATA
61661004 AAATATTAAAAAAT
1 AAATATTAAAAAAT
*
61661018 AAATATTTAAAAAT
1 AAATATTAAAAAAT
61661032 AAATAT
1 AAATAT
61661038 ATATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:61677629 original size:43 final size:42
Alignment explanation
Indices: 61677581--61677670 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
61677571 AAATATATAA
61677581 AATAAGAATTGAA-AGGAAAACTTAAAATTAAATACTAATAAAC
1 AATAAGAATTGAATA-G-AAACTTAAAATTAAATACTAATAAAC
* ** * *
61677624 AATAAGAATTTAATAGAAGTTTTAAATTAAATACTAATAGAC
1 AATAAGAATTGAATAGAAACTTAAAATTAAATACTAATAAAC
61677666 AATAA
1 AATAA
61677671 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.66
43 13 0.32
44 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.28
Consensus pattern (42 bp):
AATAAGAATTGAATAGAAACTTAAAATTAAATACTAATAAAC
Found at i:61685251 original size:27 final size:28
Alignment explanation
Indices: 61685219--61685272 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
61685209 CATAATTTAG
**
61685219 ATGAGTTAAAGT-GTAATTTTTTTATTA
1 ATGAGTTAAAGTAACAATTTTTTTATTA
*
61685246 ATGAGTTCAAGTAACAATTTTTTTATT
1 ATGAGTTAAAGTAACAATTTTTTTATT
61685273 TTAAGAGGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (28 bp):
ATGAGTTAAAGTAACAATTTTTTTATTA
Found at i:61688746 original size:21 final size:21
Alignment explanation
Indices: 61688717--61688757 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61688707 TAATAGTAGC
* *
61688717 AAAATAACAACATAACAGCAA
1 AAAACAACAACATAAAAGCAA
*
61688738 AAAACAACAACGTAAAAGCA
1 AAAACAACAACATAAAAGCA
61688758 GTAAACAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAACAACAACATAAAAGCAA
Found at i:61694021 original size:616 final size:616
Alignment explanation
Indices: 61692837--61694068 Score: 2392
Period size: 616 Copynumber: 2.0 Consensus size: 616
61692827 AGATAGTGGG
* *
61692837 TTGCAATTGCTTAAGGGACATAATACTTGCAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTT
1 TTGCAAGTGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTT
* *
61692902 GTTTCCATCGATTAAACTCCCTGCGTATAAGTCGTCTTCCAAACCTCATCTTCTTCAAGTCAGGA
66 GTTTCCATCGATTAAACTCCCTGCATATAAATCGTCTTCCAAACCTCATCTTCTTCAAGTCAGGA
61692967 AACCACAATATTGAGTTCCCATTGTTGAAAGAGCTAAAGATTGAGCATTGCCCCAAGTTAATAGA
131 AACCACAATATTGAGTTCCCATTGTTGAAAGAGCTAAAGATTGAGCATTGCCCCAAGTTAATAGA
61693032 ATTCATTAGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATT
196 ATTCATTAGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATT
61693097 TCATTAGTCTTACACTCCTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTCTGCCTTCATT
261 TCATTAGTCTTACACTCCTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTCTGCCTTCATT
61693162 ATTTGAGCTAACCTTATTATGGGCATGGATTATATATATATATGAATAGGTTGCAGTTCCTAGCT
326 ATTTGAGCTAACCTTATTATGGGCATGGATTATATATATATATGAATAGGTTGCAGTTCCTAGCT
61693227 TGGAAGACATGAATATCTCGGACTTGAGTAATGTGAGGATGATATTTTATAATGACCTAGCACCA
391 TGGAAGACATGAATATCTCGGACTTGAGTAATGTGAGGATGATATTTTATAATGACCTAGCACCA
61693292 GGTTCCTTTAAAAATCTACGAAAAATAAGTGTTTGGGGATGTGGGAGTTTGAAAAATCTATTTCC
456 GGTTCCTTTAAAAATCTACGAAAAATAAGTGTTTGGGGATGTGGGAGTTTGAAAAATCTATTTCC
* *
61693357 AGTATCAATAGCCAAAGATCTTCCACAACTTGAACATTTACGCATCGCTTATTGTGGAGTTGAGG
521 AGTATCAATAGCCAAAGATCTTCCACAACTTGAACATTTACACATCGCTGATTGTGGAGTTGAGG
61693422 AGATTGTATCGAAAGGGGATGGAGTGGAGGA
586 AGATTGTATCGAAAGGGGATGGAGTGGAGGA
61693453 TTGCAAGTGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTT
1 TTGCAAGTGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTT
* *
61693518 GTTTCCCTCGATTAAATTCCCTGCATATAAATCGTCTTCCAAACCTCATCTTCTTCAAGTCAGGA
66 GTTTCCATCGATTAAACTCCCTGCATATAAATCGTCTTCCAAACCTCATCTTCTTCAAGTCAGGA
61693583 AACCACAATATTGAGTTCCCATTGTTGAAAGAGCTAAAGATTGAGCATTGCCCCAAGTTAATAGA
131 AACCACAATATTGAGTTCCCATTGTTGAAAGAGCTAAAGATTGAGCATTGCCCCAAGTTAATAGA
61693648 ATTCATTAGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATT
196 ATTCATTAGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATT
61693713 TCATTAGTCTTACACTCCTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTCTGCCTTCATT
261 TCATTAGTCTTACACTCCTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTCTGCCTTCATT
61693778 ATTTGAGCTAACCTTATTATGGGCATGGATTATATATATATATGAATAGGTTGCAGTTCCTAGCT
326 ATTTGAGCTAACCTTATTATGGGCATGGATTATATATATATATGAATAGGTTGCAGTTCCTAGCT
61693843 TGGAAGACATGAATATCTCGGACTTGAGTAATGTGAGGATGATATTTTATAATGACCTAGCACCA
391 TGGAAGACATGAATATCTCGGACTTGAGTAATGTGAGGATGATATTTTATAATGACCTAGCACCA
61693908 GGTTCCTTTAAAAATCTACGAAAAATAAGTGTTTGGGGATGTGGGAGTTTGAAAAATCTATTTCC
456 GGTTCCTTTAAAAATCTACGAAAAATAAGTGTTTGGGGATGTGGGAGTTTGAAAAATCTATTTCC
61693973 AGTATCAATAGCCAAAGATCTTCCACAACTTGAACATTTACACATCGCTGATTGTGGAGTTGAGG
521 AGTATCAATAGCCAAAGATCTTCCACAACTTGAACATTTACACATCGCTGATTGTGGAGTTGAGG
61694038 AGATTGTATCGAAAGGGGATGGAGTGGAGGA
586 AGATTGTATCGAAAGGGGATGGAGTGGAGGA
61694069 GCAGCCTGTG
Statistics
Matches: 608, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
616 608 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (616 bp):
TTGCAAGTGCTTAAGGGACATAATACTTACAGAGGAAATTGAAGAAGAAAGGAAAGATGTGATTT
GTTTCCATCGATTAAACTCCCTGCATATAAATCGTCTTCCAAACCTCATCTTCTTCAAGTCAGGA
AACCACAATATTGAGTTCCCATTGTTGAAAGAGCTAAAGATTGAGCATTGCCCCAAGTTAATAGA
ATTCATTAGTCAGAATAGTAATCAGTCCGGCATGCACGCTCTCTTCAGTGAGAAGGTGATTTATT
TCATTAGTCTTACACTCCTGCATAAATCTGTTGATTTGTCCTTGTTTTTTTTTTCTGCCTTCATT
ATTTGAGCTAACCTTATTATGGGCATGGATTATATATATATATGAATAGGTTGCAGTTCCTAGCT
TGGAAGACATGAATATCTCGGACTTGAGTAATGTGAGGATGATATTTTATAATGACCTAGCACCA
GGTTCCTTTAAAAATCTACGAAAAATAAGTGTTTGGGGATGTGGGAGTTTGAAAAATCTATTTCC
AGTATCAATAGCCAAAGATCTTCCACAACTTGAACATTTACACATCGCTGATTGTGGAGTTGAGG
AGATTGTATCGAAAGGGGATGGAGTGGAGGA
Found at i:61695413 original size:30 final size:30
Alignment explanation
Indices: 61695377--61695469 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
61695367 CCAAATTAGA
* *
61695377 GGAACTTGAGTTTCGAAATCTTGATGATAT
1 GGAACTTGAGTTACGAAATCTTGGTGATAT
* *
61695407 GGAACTTAAGTTACCAAATCTTGGTGATAT
1 GGAACTTGAGTTACGAAATCTTGGTGATAT
* * *
61695437 GTAATTTGAGTTACGAAATTTTGGTGATAT
1 GGAACTTGAGTTACGAAATCTTGGTGATAT
61695467 GGA
1 GGA
61695470 CCAATTTCCA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.37
Consensus pattern (30 bp):
GGAACTTGAGTTACGAAATCTTGGTGATAT
Found at i:61702318 original size:41 final size:41
Alignment explanation
Indices: 61702258--61702495 Score: 287
Period size: 41 Copynumber: 5.7 Consensus size: 41
61702248 CTAACTTTTT
* *
61702258 GCGGCGCTTACAGAAAAAACGCCGCTAAAGGTCATGTTCTTTA
1 GCGGCGCTT--AGAAAAAACGCCACTAAAGATCATGTTCTTTA
* *
61702301 TCGGCGCTTAGAAAAAACGCCACTAAATATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
*
61702342 GCGGCGCTTAGGAAAAAAATGCCACTAAAGATCATGTTCTTTA
1 GCGGCGCTTA-G-AAAAAACGCCACTAAAGATCATGTTCTTTA
* * *
61702385 GCGGCGCTTAGAAAAAAAGCCAATAAAGATCATGATCTTTA
1 GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
* * * * *
61702426 GCGGCGCTTGTGCAACAAACGCCGCTAAAGACCATGATCTTTA
1 GCGGCGCTT-AG-AAAAAACGCCACTAAAGATCATGTTCTTTA
* *
61702469 GCGGCGCTTATAGAAAACGCCACTAAA
1 GCGGCGCTTAGAAAAAACGCCACTAAA
61702496 TTACATGATC
Statistics
Matches: 170, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 87 0.51
42 3 0.02
43 80 0.47
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTAGAAAAAACGCCACTAAAGATCATGTTCTTTA
Found at i:61702399 original size:84 final size:84
Alignment explanation
Indices: 61702258--61702560 Score: 337
Period size: 84 Copynumber: 3.6 Consensus size: 84
61702248 CTAACTTTTT
* * *
61702258 GCGGCGCTTA-CAGAAAAAACGCCGCTAAAGGTCATGTTCTTTATCGGCGCTTAGAAAAAACGCC
1 GCGGCGCTTAGGA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCC
*
61702322 ACTAAATATCATGTTCTTTA
65 ACTAAATATCATGATCTTTA
* * *
61702342 GCGGCGCTTAGGAAAAAAATGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAGCCA
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCA
* *
61702407 ATAAAGATCATGATCTTTA
66 CTAAATATCATGATCTTTA
* * * * * *
61702426 GCGGCGCTT-GTGCAACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTATAGAAAACGCC
1 GCGGCGCTTAG-GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCC
61702490 ACTAAAT-TACATGATCTTTA
65 ACTAAATAT-CATGATCTTTA
* * * * * **
61702510 GCTGCACTT-GGGAATAAACGCCGCTAAA-AGTAAAATTCTTTAGCGGCGCTT
1 GCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT
61702561 TATCTACAAA
Statistics
Matches: 186, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
82 1 0.01
83 34 0.18
84 150 0.81
85 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (84 bp):
GCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCA
CTAAATATCATGATCTTTA
Found at i:61703060 original size:21 final size:21
Alignment explanation
Indices: 61703036--61703083 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
61703026 TTCTTTTGAT
*
61703036 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
61703057 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
61703078 CCTCTG
1 CCTCTG
61703084 TTTTAAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.48, G:0.19, T:0.31
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:61715372 original size:51 final size:51
Alignment explanation
Indices: 61715317--61715432 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
61715307 CTCAAAGTTG
* *
61715317 ACACATTCTATCAATTTG-TTATTGATTTAAC-TAATTTAACCCACAATATTT
1 ACACATTCTATCAATTTGATCA-TGATTTAACAT-ATTTAACCCACAATAATT
* * **
61715368 ACACATTTTGTCAATTTGATCATGATTTAACATATTTAACCCGTAATAATT
1 ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
61715419 ACACATTCTATCAA
1 ACACATTCTATCAA
61715433 CATTTACACA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (51 bp):
ACACATTCTATCAATTTGATCATGATTTAACATATTTAACCCACAATAATT
Found at i:61716057 original size:16 final size:16
Alignment explanation
Indices: 61716038--61716078 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
61716028 AATTTGATAC
61716038 AATTTTAATAACAATT
1 AATTTTAATAACAATT
61716054 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
61716070 AGTTTTAAT
1 AATTTTAAT
61716079 TTTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:61719811 original size:2 final size:2
Alignment explanation
Indices: 61719804--61719831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61719794 AAGAGGAGTA
61719804 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
61719832 ATTTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:61722011 original size:53 final size:52
Alignment explanation
Indices: 61721935--61722115 Score: 199
Period size: 53 Copynumber: 3.7 Consensus size: 52
61721925 TTAGATTTTG
61721935 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT-ATATAATTTGATAATT
* * *
61721987 TTACTAACAATTAATACAATTAACAATTAATAATTT-TACTAA---AAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATA-TAATTTGATAATT
* *
61722036 TTAGTAACAATTAAT--AATT---AA-TAAT--TTAATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
*
61722080 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
61722116 TACTAATAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
41 5 0.05
42 2 0.02
43 4 0.04
44 21 0.20
46 4 0.04
47 4 0.04
49 20 0.19
50 4 0.04
51 2 0.02
52 9 0.08
53 31 0.29
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (52 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
Found at i:61722057 original size:93 final size:93
Alignment explanation
Indices: 61721949--61722132 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
61721939 AACAATTAAT
*
61721949 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
61722014 TAATAATTTTACTAAAAAAATGTTAGTA
66 TAATAATTTTACTAAAAAAATGTTAGTA
* *
61722042 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
61722107 TAATAATTTTACTAATAAAATGTTAG
66 TAATAATTTTACTAAAAAAATGTTAG
61722133 ATTTTACAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAAAAAAATGTTAGTA
Found at i:61722204 original size:22 final size:23
Alignment explanation
Indices: 61722179--61722238 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
61722169 AATTTGATAC
* *
61722179 AATTTTAATAACAAT-TAGTTTT
1 AATTTTAATAAAAATATAATTTT
61722201 AATTTTAATAAAAATATAATTTT
1 AATTTTAATAAAAATATAATTTT
61722224 AATTTTAATTAAAAA
1 AATTTTAA-TAAAAA
61722239 ATGGACCTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 14 0.41
23 14 0.41
24 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTTTAATAAAAATATAATTTT
Found at i:61725530 original size:4 final size:4
Alignment explanation
Indices: 61725521--61725570 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
61725511 CAGCTTCAAC
61725521 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
61725569 CA
1 CA
61725571 AATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:61734606 original size:15 final size:15
Alignment explanation
Indices: 61734583--61734612 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61734573 TTACATTAAT
*
61734583 AATATAAAATAAATA
1 AATAAAAAATAAATA
61734598 AATAAAAAATAAATA
1 AATAAAAAATAAATA
61734613 CTTGAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAAATAAATA
Done.