Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
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: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:341 original size:15 final size:15
Alignment explanation
Indices: 321--356 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
311 ATTATTTTTC
321 TTTTTTCATTTCATT
1 TTTTTTCATTTCATT
*
336 TTTTTTCATTTCCTT
1 TTTTTTCATTTCATT
351 TTTTTT
1 TTTTTT
357 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCATTTCATT
Found at i:13719 original size:3 final size:3
Alignment explanation
Indices: 13711--13766 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13701 GCAAAAATTG
*
13711 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13755 TAA TAA AAA TAA
1 TAA TAA TAA TAA
13767 CGGAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.87
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:21664 original size:28 final size:27
Alignment explanation
Indices: 21613--21675 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
21603 TTCCTTTCCC
* *
21613 TTTCTTTTCTTTTCTTTTCAAGTTTTCA
1 TTTCTTTTATTTTATTTTCAAGTTTT-A
21641 TTTCATTTTATTTTATTTT-AAGTTTTA
1 TTTC-TTTTATTTTATTTTCAAGTTTTA
21668 TTT-TTTTA
1 TTTCTTTTA
21676 AACATGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 5 0.16
27 4 0.12
28 11 0.34
29 12 0.38
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (27 bp):
TTTCTTTTATTTTATTTTCAAGTTTTA
Found at i:27500 original size:18 final size:18
Alignment explanation
Indices: 27474--27514 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
27464 CAGATCACGT
27474 GTTAAACCTGAAGGGAGA
1 GTTAAACCTGAAGGGAGA
*
27492 GTTACACCTGAAGGGAGA
1 GTTAAACCTGAAGGGAGA
27510 GTTAA
1 GTTAA
27515 GGATTTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.20
Consensus pattern (18 bp):
GTTAAACCTGAAGGGAGA
Found at i:31908 original size:201 final size:201
Alignment explanation
Indices: 31563--31964 Score: 786
Period size: 201 Copynumber: 2.0 Consensus size: 201
31553 TTCAACAAGT
31563 GCATGAATGCTTAGATAAAAAGGCTAGTGCTTTAGTTTTTCCAAATCTGATTACTGATTTGTGTC
1 GCATGAATGCTTAGATAAAAAGGCTAGTGCTTTAGTTTTTCCAAATCTGATTACTGATTTGTGTC
31628 GAAAGAAAAAGGTATGTGAAAATTCTTTTGATGAAATTTTATCTGAAGTTTCAGGTATTACTAGG
66 GAAAGAAAAAGGTATGTGAAAATTCTTTTGATGAAATTTTATCTGAAGTTTCAGGTATTACTAGG
31693 GCCTGGTTACCATTATTGTTGGGTTTTGAAAACCCAAAATCTAATGCCCAAGAAAAGTTTGGAGA
131 GCCTGGTTACCATTATTGTTGGGTTTTGAAAACCCAAAATCTAATGCCCAAGAAAAGTTTGGAGA
31758 TGATGC
196 TGATGC
31764 GCATGAATGCTTAGATAAAAAGGCTAGTGCTTTAGTTTTTCCAAATCTGATTACTGATTTGTGTC
1 GCATGAATGCTTAGATAAAAAGGCTAGTGCTTTAGTTTTTCCAAATCTGATTACTGATTTGTGTC
*
31829 GAAAGAAAAATGTATGTGAAAATTCTTTTGATGAAATTTTATCTGAAGTTTCAGGTATTACTAGG
66 GAAAGAAAAAGGTATGTGAAAATTCTTTTGATGAAATTTTATCTGAAGTTTCAGGTATTACTAGG
*
31894 GCCTGGTTACCATTATTGTTGGGTTTTGAAAACCCAAAATCTAATGCCCATGAAAAGTTTGGAGA
131 GCCTGGTTACCATTATTGTTGGGTTTTGAAAACCCAAAATCTAATGCCCAAGAAAAGTTTGGAGA
31959 TGATGC
196 TGATGC
31965 ACAATCTAAT
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 199 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (201 bp):
GCATGAATGCTTAGATAAAAAGGCTAGTGCTTTAGTTTTTCCAAATCTGATTACTGATTTGTGTC
GAAAGAAAAAGGTATGTGAAAATTCTTTTGATGAAATTTTATCTGAAGTTTCAGGTATTACTAGG
GCCTGGTTACCATTATTGTTGGGTTTTGAAAACCCAAAATCTAATGCCCAAGAAAAGTTTGGAGA
TGATGC
Found at i:41886 original size:14 final size:14
Alignment explanation
Indices: 41869--41905 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
41859 ACATCAATTC
41869 GAAAAGAAAAAAAA
1 GAAAAGAAAAAAAA
41883 GAAAAG-AAAAAAA
1 GAAAAGAAAAAAAA
41896 GAAAAGAAAA
1 GAAAAGAAAA
41906 CAGAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAAAAA
Found at i:41887 original size:5 final size:5
Alignment explanation
Indices: 41869--41905 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
41859 ACATCAATTC
41869 GAAAA GAAAA -AAAA GAAAA G-AAA -AAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
41906 CAGAAAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 10 0.34
5 19 0.66
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:43023 original size:12 final size:13
Alignment explanation
Indices: 42983--43028 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
42973 CTTCATTTTC
*
42983 TTTTCATTTCAAG
1 TTTTCATTTTAAG
*
42996 TTTTCATTTTTA-
1 TTTTCATTTTAAG
43008 TTTT-ATTTTAAG
1 TTTTCATTTTAAG
43020 TTTT-ATTTT
1 TTTTCATTTT
43029 TTTAAACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 6 0.21
12 13 0.45
13 10 0.34
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTAAG
Found at i:43030 original size:24 final size:25
Alignment explanation
Indices: 42968--43029 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
42958 TAGTTTGATA
*
42968 AAGTTCTTCA-TTTTCTTTTCATTTC
1 AAGTT-TTCATTTTTATTTTCATTTC
*
42993 AAGTTTTCATTTTTATTTT-ATTTT
1 AAGTTTTCATTTTTATTTTCATTTC
43017 AAGTTTT-ATTTTT
1 AAGTTTTCATTTTT
43030 TTAAACATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 6 0.18
24 15 0.44
25 13 0.38
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.66
Consensus pattern (25 bp):
AAGTTTTCATTTTTATTTTCATTTC
Found at i:45344 original size:22 final size:22
Alignment explanation
Indices: 45319--45369 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
45309 ATTATACTTC
45319 AAGAAGAGAAAAGAA-AAAGAAA
1 AAGAAGAGAAAA-AAGAAAGAAA
* *
45341 AAGAAAATAAAAAAGAAAGAAA
1 AAGAAGAGAAAAAAGAAAGAAA
*
45363 ATGAAGA
1 AAGAAGA
45370 TGAGGGTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AAGAAGAGAAAAAAGAAAGAAA
Found at i:45352 original size:16 final size:16
Alignment explanation
Indices: 45319--45364 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
45309 ATTATACTTC
*
45319 AAGAAGAGAAAAGAAAA
1 AAGAA-AGAAAATAAAA
*
45336 AGAAAAAGAAAATAAAA
1 A-AGAAAGAAAATAAAA
45353 AAGAAAGAAAAT
1 AAGAAAGAAAAT
45365 GAAGATGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 10 0.40
17 12 0.48
18 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAGAAAGAAAATAAAA
Found at i:47345 original size:74 final size:74
Alignment explanation
Indices: 47238--47403 Score: 332
Period size: 74 Copynumber: 2.2 Consensus size: 74
47228 ACACTCTTAA
47238 GGGTGCATCGGTACACTATGTGTCAAAATTCAAATATTTCGACCGTTATAAGACCTAGTGCATCG
1 GGGTGCATCGGTACACTATGTGTCAAAATTCAAATATTTCGACCGTTATAAGACCTAGTGCATCG
47303 GTACACTTG
66 GTACACTTG
47312 GGGTGCATCGGTACACTATGTGTCAAAATTCAAATATTTCGACCGTTATAAGACCTAGTGCATCG
1 GGGTGCATCGGTACACTATGTGTCAAAATTCAAATATTTCGACCGTTATAAGACCTAGTGCATCG
47377 GTACACTTG
66 GTACACTTG
47386 GGGTGCATCGGTACACTA
1 GGGTGCATCGGTACACTA
47404 ATTACATTCG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 92 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (74 bp):
GGGTGCATCGGTACACTATGTGTCAAAATTCAAATATTTCGACCGTTATAAGACCTAGTGCATCG
GTACACTTG
Found at i:47460 original size:65 final size:65
Alignment explanation
Indices: 47388--47543 Score: 187
Period size: 65 Copynumber: 2.4 Consensus size: 65
47378 TACACTTGGG
* * *
47388 GTGCATCGGTACACTAA-TTACATTCGATG-TTTAA-AAAGATCCTGGAGTGCATCGATGTATGG
1 GTGCATCGGTACACTAAGATACATTCGATGTTTTAATAAA-ATCAT-GAGTGCATCGATGCATGG
47450 TCT
64 T-T
* *
47453 GTGCATCGGTACA-TAAGATGCATTCGATGTTTTAATAAAATCATGAGTGCATTGATGCATGGTT
1 GTGCATCGGTACACTAAGATACATTCGATGTTTTAATAAAATCATGAGTGCATCGATGCATGGTT
* *
47517 GTGCATCGGTACAC-AAAATGCATTCGA
1 GTGCATCGGTACACTAAGATACATTCGA
47544 ATTAGGGTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
64 29 0.36
65 40 0.49
66 9 0.11
67 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGGTACACTAAGATACATTCGATGTTTTAATAAAATCATGAGTGCATCGATGCATGGTT
Found at i:47929 original size:14 final size:14
Alignment explanation
Indices: 47910--47937 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47900 GAAATCAATT
47910 TTGAAAATTACTCC
1 TTGAAAATTACTCC
47924 TTGAAAATTACTCC
1 TTGAAAATTACTCC
47938 ACCTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
TTGAAAATTACTCC
Found at i:49707 original size:13 final size:13
Alignment explanation
Indices: 49672--49709 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
49662 TCCTAAAGGG
49672 CAATGTTTGAAAA
1 CAATGTTTGAAAA
*
49685 TAAT-TTTGAAAA
1 CAATGTTTGAAAA
*
49697 CACTGTTTGAAAA
1 CAATGTTTGAAAA
49710 AGTATGATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTTTGAAAA
Found at i:50277 original size:44 final size:44
Alignment explanation
Indices: 50202--50305 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
50192 TAGACTGCAG
* *
50202 AGTGTATCGATGCACATTCAAGGCATGCATCGGTACA-TCTCCAT
1 AGTGTATCGATGCATATTCAAGGAATGCATCGGTACACT-TCCAT
* * *
50246 AGTGCATCGATGCATATTCAAGGAATTCATCGGTACACTTTCAT
1 AGTGTATCGATGCATATTCAAGGAATGCATCGGTACACTTCCAT
50290 AGTGTATCGATGCATA
1 AGTGTATCGATGCATA
50306 GTGCACAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 52 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AGTGTATCGATGCATATTCAAGGAATGCATCGGTACACTTCCAT
Found at i:53982 original size:20 final size:21
Alignment explanation
Indices: 53943--53982 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
53933 GATGCTTTAA
* *
53943 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
53964 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
53983 AACTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:55912 original size:65 final size:65
Alignment explanation
Indices: 55839--55993 Score: 165
Period size: 65 Copynumber: 2.4 Consensus size: 65
55829 CTCTTAAGGG
*
55839 TGCATCGGTACACTAA-TTACATTCGATG-TTTAAAAAAAGCCAGGAGTGCATCAATGCATGGTC
1 TGCATCGGTACACTAAGATACATTCGATGTTTTAAAAAAA-CCAGGAGTGCATCAATGCATGGT-
55902 TA
64 TA
* * * * * * *
55904 TGCATCGGTACA-TAAGATGCATTCGATGTTTTAATAAAATCATGAGTGTATCGATGCATGGTTG
1 TGCATCGGTACACTAAGATACATTCGATGTTTTAAAAAAACCAGGAGTGCATCAATGCATGGTTA
* * *
55968 TGCATCGATACAC-AAAATAAATTCGA
1 TGCATCGGTACACTAAGATACATTCGA
55994 ATTAGGGTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 25 0.33
65 41 0.55
66 9 0.12
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (65 bp):
TGCATCGGTACACTAAGATACATTCGATGTTTTAAAAAAACCAGGAGTGCATCAATGCATGGTTA
Found at i:59810 original size:11 final size:11
Alignment explanation
Indices: 59794--59842 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
59784 GCAGTTTAAA
59794 AAAGAGAAAAG
1 AAAGAGAAAAG
*
59805 AAAGAGAGAAG
1 AAAGAGAAAAG
59816 AAAGAGAGAAGAG
1 AAAGAGA-AA-AG
*
59829 AAGAAAGAAAAG
1 AA-AGAGAAAAG
59841 AA
1 AA
59843 GAATTAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 17 0.53
12 5 0.16
13 6 0.19
14 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (11 bp):
AAAGAGAAAAG
Found at i:59844 original size:24 final size:22
Alignment explanation
Indices: 59791--59885 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 22
59781 ACTGCAGTTT
*
59791 AAAAAAGAGAAAAGAAAGAGAG
1 AAAAAAGAGAAAAGAAAGAAAG
* *
59813 AAGAAAGAGAGAAGAGAAGAAAG
1 AAAAAAGAGAAAAGA-AAGAAAG
**
59836 AAAAGAAGA-ATTAGAAAG-AAG
1 AAAA-AAGAGAAAAGAAAGAAAG
* *
59857 ACAAAACA-AAAAGAAATAGAAAG
1 AAAAAAGAGAAAAG-AA-AGAAAG
59880 AAAAAA
1 AAAAAA
59886 CCAAAGTGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 6 0.11
21 8 0.14
22 18 0.32
23 21 0.37
24 4 0.07
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (22 bp):
AAAAAAGAGAAAAGAAAGAAAG
Found at i:61307 original size:23 final size:23
Alignment explanation
Indices: 61280--61345 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
61270 TCATACAGTG
*
61280 TATAATAATTGCATGAGCTAGTA
1 TATAATAATTGCATGAGATAGTA
*
61303 TATAATAATTGCATGAGATAGTT
1 TATAATAATTGCATGAGATAGTA
61326 TATAATAATTGCATGAGATA
1 TATAATAATTGCATGAGATA
61346 TAATTGCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (23 bp):
TATAATAATTGCATGAGATAGTA
Found at i:61350 original size:15 final size:15
Alignment explanation
Indices: 61330--61361 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61320 ATAGTTTATA
61330 ATAATTGCATGAGAT
1 ATAATTGCATGAGAT
*
61345 ATAATTGCATGTGAT
1 ATAATTGCATGAGAT
61360 AT
1 AT
61362 TACATCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (15 bp):
ATAATTGCATGAGAT
Found at i:62920 original size:22 final size:22
Alignment explanation
Indices: 62895--62937 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
62885 AGTCATCAAT
*
62895 TTCATCCCAATTGT-TTTAATTG
1 TTCA-CCCAAATGTGTTTAATTG
*
62917 TTCACTCAAATGTGTTTAATT
1 TTCACCCAAATGTGTTTAATT
62938 ACTAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (22 bp):
TTCACCCAAATGTGTTTAATTG
Found at i:65531 original size:3 final size:3
Alignment explanation
Indices: 65517--65546 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
65507 ATAAAAATTT
65517 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
65547 GTTCATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66559 original size:84 final size:84
Alignment explanation
Indices: 66418--66584 Score: 280
Period size: 84 Copynumber: 2.0 Consensus size: 84
66408 CTTGCCTTTG
* *
66418 TGTTTGCTTGTCTCACAAATTTGATTACGATCTACAGAAGCATCCATATTCACACATACAAATAT
1 TGTTTGCTTGTCTCAAAAATTTGATTACAATCTACAGAAGCATCCATATTCACACATACAAATAT
66483 AAAATACAATGTTAGTATT
66 AAAATACAATGTTAGTATT
* ***
66502 TGTTTGCTTGTCTCAAAAATTTGATTACAATCTATAGAATTTTCCATATTCACACATACAAATAT
1 TGTTTGCTTGTCTCAAAAATTTGATTACAATCTACAGAAGCATCCATATTCACACATACAAATAT
66567 AAAATACAATGTTAGTAT
66 AAAATACAATGTTAGTAT
66585 CCTTACTAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (84 bp):
TGTTTGCTTGTCTCAAAAATTTGATTACAATCTACAGAAGCATCCATATTCACACATACAAATAT
AAAATACAATGTTAGTATT
Found at i:69227 original size:2 final size:2
Alignment explanation
Indices: 69220--69260 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
69210 TTTAATTATG
69220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69261 TATGATTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69469 original size:2 final size:2
Alignment explanation
Indices: 69397--69450 Score: 90
Period size: 2 Copynumber: 26.0 Consensus size: 2
69387 ATATTCTTAC
69397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
69440 AT AT CAT AT AT
1 AT AT -AT AT AT
69451 TAGGCGTGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 46 0.92
3 4 0.08
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69850 original size:35 final size:35
Alignment explanation
Indices: 69828--69923 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 35
69818 TATTCTTATA
*
69828 CAAAGGACATGATGCTTCACCAAAAGATGCTTTAC
1 CAAAGGACATGATGCTTCACCAAGAGATGCTTTAC
* * *
69863 CAAATGACATGATGCTTCATCAAGAGATG-TATTTC
1 CAAAGGACATGATGCTTCACCAAGAGATGCT-TTAC
*
69898 C-AAGAGACATGATGTTTCACCAAGAG
1 CAAAG-GACATGATGCTTCACCAAGAG
69924 GTACCTTCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 3 0.06
35 49 0.94
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (35 bp):
CAAAGGACATGATGCTTCACCAAGAGATGCTTTAC
Found at i:76672 original size:24 final size:26
Alignment explanation
Indices: 76645--76705 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
76635 ATATATATAT
*
76645 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
76669 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
76693 AT-ATATATATATA
1 ATAATATAAATATA
76706 ACCGGCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:76687 original size:19 final size:19
Alignment explanation
Indices: 76663--76702 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
76653 AATAAATTTA
76663 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
76682 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
76701 AT
1 AT
76703 ATAACCGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:76748 original size:12 final size:11
Alignment explanation
Indices: 76723--76766 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
76713 CGATTCCCAG
76723 CCCAATACCGA
1 CCCAATACCGA
76734 CCCAATACTCGA
1 CCCAATAC-CGA
*
76746 CCCAATACCTA
1 CCCAATACCGA
76757 GCCCAATACC
1 -CCCAATACC
76767 CATTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.34, C:0.45, G:0.07, T:0.14
Consensus pattern (11 bp):
CCCAATACCGA
Found at i:77666 original size:26 final size:26
Alignment explanation
Indices: 77635--77763 Score: 120
Period size: 26 Copynumber: 5.4 Consensus size: 26
77625 TTAGTAATTA
*
77635 TTCATTTATGGCATTCTTTCATGCAT
1 TTCATTTATGGCATCCTTTCATGCAT
77661 TTCATTTATGGCATCCTTTCATGC--
1 TTCATTTATGGCATCCTTTCATGCAT
*
77685 --C-TTAATGG-ATCCTTTCATGCAT
1 TTCATTTATGGCATCCTTTCATGCAT
**
77707 TTCATTTATAACAT-CTTT--T-CAT
1 TTCATTTATGGCATCCTTTCATGCAT
* *
77729 GTC-TTAAT-GCATCCTTTCATGCAT
1 TTCATTTATGGCATCCTTTCATGCAT
77753 TTCATTTATGG
1 TTCATTTATGG
77764 ATTCGTTTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
20 15 0.19
21 14 0.17
22 6 0.07
23 2 0.02
24 6 0.07
25 12 0.15
26 26 0.32
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (26 bp):
TTCATTTATGGCATCCTTTCATGCAT
Found at i:77701 original size:46 final size:46
Alignment explanation
Indices: 77645--77763 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
77635 TTCATTTATG
*
77645 GCATTCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
* ** * *
77691 GGATCCTTTCATGCATTTCATTTATAACATCTTTTCATGTCTTAAT
1 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
77737 GCATCCTTTCATGCATTTCATTTATGG
1 GCATCCTTTCATGCATTTCATTTATGG
77764 ATTCGTTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
Found at i:77746 original size:20 final size:20
Alignment explanation
Indices: 77671--77749 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
77661 TTCATTTATG
*
77671 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGTCTTAAT
* *
77691 GGATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATG----TC-TTAAT
* *
77716 AACATCTTTTCATGTCTTAAT
1 -GCATCCTTTCATGTCTTAAT
77737 GCATCCTTTCATG
1 GCATCCTTTCATG
77750 CATTTCATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
20 23 0.52
21 4 0.09
22 2 0.05
24 1 0.02
25 4 0.09
26 10 0.23
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGTCTTAAT
Found at i:78241 original size:42 final size:41
Alignment explanation
Indices: 78195--78286 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 41
78185 CCTACTATGG
* * **
78195 TATCGATACTTCTATACTATGGTACCGATACCTTTCTCTCAA
1 TATCGATACTACTACACTATGGTACCGATA-CTCCCTCTCAA
*
78237 TATCGATACTACTACACTATGGTACCGATACTCCCTTTCAA
1 TATCGATACTACTACACTATGGTACCGATACTCCCTCTCAA
78278 TATCGATAC
1 TATCGATAC
78287 CTTTTTGGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 17 0.38
42 28 0.62
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (41 bp):
TATCGATACTACTACACTATGGTACCGATACTCCCTCTCAA
Found at i:89279 original size:42 final size:41
Alignment explanation
Indices: 89198--89297 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
89188 AGGTTTTATG
* * * *
89198 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* *
89239 GATGACCCGAAGGATTTATGCATCATGCTCGAAATACTTACTA
1 GATGACCCGAAGGACTTAT-CATCATGCTCGAAAGACTTAC-A
* *
89282 -ATGGCCCGATGGACTT
1 GATGACCCGAAGGACTT
89298 TTAAATTGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 17 0.35
42 30 0.62
43 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:89941 original size:42 final size:42
Alignment explanation
Indices: 89845--89950 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
89835 AGGTCATATG
* * *
89845 GATGGCCCGAAGGACTT-ATCATCTTGCTCTAAAGACTTACA
1 GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACA
* * * * *
89886 GGTGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACA
* *
89928 GATGGCCTGAAGGACTTATACAT
1 GATGGCCCGAAGGACTTAAACAT
89951 TGTGAAATTT
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
41 13 0.26
42 37 0.74
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAACATCATGCTCGAAAGACTTACA
Found at i:90100 original size:41 final size:41
Alignment explanation
Indices: 90049--90149 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
90039 AGGTCTTATG
* * * *
90049 GATGGCCCGAAGGACTTAACATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTAACATCATGCTCGAAAGACTTACA
* * *
90090 GATGATCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AACATCATGCTCGAAAGACTTACA
* *
90132 GATGGCCCGAGGGACTTA
1 GATGACCCGAAGGACTTA
90150 TAAATTGTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAACATCATGCTCGAAAGACTTACA
Found at i:90362 original size:20 final size:20
Alignment explanation
Indices: 90295--90364 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
90285 TCTTGCTCTA
*
90295 AAGG-CTTACCGATGACCCG
1 AAGGACTTACTGATGACCCG
* * *
90314 AAGGATTTAAACATCATG-CTCG
1 AAGGACTT--AC-TGATGACCCG
*
90336 AAAGACTTACTGATGACCCG
1 AAGGACTTACTGATGACCCG
90356 AAGGACTTA
1 AAGGACTTA
90365 TAAATTGTGA
Statistics
Matches: 37, Mismatches: 9, Indels: 9
0.67 0.16 0.16
Matches are distributed among these distances:
19 8 0.22
20 15 0.41
22 11 0.30
23 3 0.08
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGGACTTACTGATGACCCG
Found at i:90588 original size:214 final size:215
Alignment explanation
Indices: 89015--91198 Score: 3335
Period size: 215 Copynumber: 10.3 Consensus size: 215
89005 CTCTCTTGTG
* * * * *
89015 AAGGCTTAAAAATTACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
** *
89080 ACTTATAAATTGTGAAATTTTGAAAATCATATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
89145 ATCA-TTTTTCATTTTCAAATTC-TTGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGA
131 ATCATTTTTTCATTTTCAAATTCATT-TGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGA
89208 AGGACTTATCATCTTGCTCTA
195 AGGACTTATCATCTTGCTCTA
** * * *
89229 AAGGCTTACAGATGACCCGAAGGATTTATGCATCATGCTCGAAATACTTACTAATGGCCCGATGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * * * *
89294 ACTTTTAAATTGTGAAATTTTGAAAATCACATTATTCGTTTTCAAAAATTCCATCTTCTTGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
89359 GTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCAAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
89424 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* ** * *
89444 GAGGCTTACAGATGAGTCGAAGGATTTAAACATCATGCTCGAAAGACATACTGATGGCCCGATGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
89509 ACTTATAAATTATGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* *
89574 ATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCAAAGGTTTTATGGATGGCCCG
131 ATCA-TTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
*
89638 AAGGACTTACCATCTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* * *
89660 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAGACTTACTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
89725 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
89790 ATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCATATGGATGGCCCG
131 ATCA-TTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
89854 AAGGACTTATCATCTTGCTCTA
194 AAGGACTTATCATCTTGCTCTA
* * * *
89876 AAGACTTACAGGTGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCTGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
89941 ACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTCTTCAAAAA--T--TC--C----AAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* *
89996 ATCA-TTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
90060 GGACTTAACATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
90080 AAGGCTTACAGATGATCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
90145 ACTTATAAATTGTGAACTTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
90210 ATCATTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGACCCAAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
90275 AGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
90295 AAGGCTTACCGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
90360 ACTTATAAATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTTATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
90425 ATCA-TTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
90489 GGACTCATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* * *
90509 AAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* **
90574 ACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAA--T--TC--C----AGT
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
90629 ATCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCTGAAGGTCTTGTGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
*
90694 GGACATATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* *
90714 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCTCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
90779 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTAAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
90844 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCTTATGGATGGCCCGA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCGA
*
90908 ATGACTTATCATCTTGCTCTA
195 AGGACTTATCATCTTGCTCTA
* * *
90929 AAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * * *
90994 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTCCATCTTCTTACAAT
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
91059 ATCA-TTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
131 ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
91123 GGACTTATCATCTTGCTCTA
196 GGACTTATCATCTTGCTCTA
* ** *
91143 AAGGCTTACAGATGACCCGAATGATTTAAGTATCATGCTTGAAAGACTTACTGATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATG
91199 TAGTTGCTTC
Statistics
Matches: 1810, Mismatches: 131, Indels: 58
0.91 0.07 0.03
Matches are distributed among these distances:
203 3 0.00
204 180 0.10
205 182 0.10
206 8 0.00
207 1 0.00
208 3 0.00
209 2 0.00
210 4 0.00
211 1 0.00
212 3 0.00
213 3 0.00
214 435 0.24
215 595 0.33
216 387 0.21
217 3 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (215 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
ATCATTTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
GGACTTATCATCTTGCTCTA
Found at i:90838 original size:634 final size:634
Alignment explanation
Indices: 89015--91198 Score: 3505
Period size: 634 Copynumber: 3.4 Consensus size: 634
89005 CTCTCTTGTG
* * * * *
89015 AAGGCTTAAAAATTACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
**
89080 ACTTATAAATTGTGAAATTTTGAAAATCATATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
89145 ATCATTTTTCATTTTCAAATTC-TTGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
131 ATCATTTTTCATTTTCAAATTCATT-TGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
* * *
89209 GGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTATGCATCATGCTCGAAAT
195 GGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAG
* * * * * *
89274 ACTTACTAATGGCCCGATGGACTTTTAAATTGTGAAATTTTGAAAATCACATTATTCGTTTTCAA
260 ACTTACTGATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAA
* * *
89339 AAATTCCATCTTCTTGAAACGTCATTTTCTCATTTTCAAATTCATTTGAAAACATCCTACCCGAA
325 AAATTCCA-------G-AA--TCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAA
* * * **
89404 GGTTTTATGGATGGCCCAAAGGACTTATCATCTTGCTCTAGAGGCTTACAGATGAGTCGAAGGAT
380 GGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGAT
* * *
89469 TTAAACATCATGCTCGAAAGACATACTGATGGCCCGATGGACTTATAAATTATGAAATTTTGAAA
445 TTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAGGGACTTATAAATTGTGAAATTTTGAAA
*
89534 ATCACATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCA
510 ATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TTTTTTCATTTTCAAATTCA
* * *
89599 TTTGAAAACATCCCTCCCAAAGGTTTTATGGATGGCCCGAAGGACTTACCATCTTGCTCTA
574 TTTGAAAACATCCCTCCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTA
* * *
89660 AAGGCTTACAGATGACTCGAAGGATTTAAACATCATACTCGAAAGACTTACTGATGGCCCGAGGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
89725 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
89790 ATCATTTTTTTCATTTTCAAATTCATTTGAAAACATCCCT-CCCGAAGGTCATATGGATGGCCCG
131 ATCA--TTTTTCATTTTCAAATTCATTTGAAAACAT-CCTACCCGAAGGTCTTATGGATGGCCCG
* * *
89854 AAGGACTTATCATCTTGCTCTAAAGACTTACAGGTGACCCAAAGGATTTAAACATCATGCTCGAA
193 AAGGACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAA
* *
89919 AGACTTACTGATGGCCTGAAGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTCTTC
258 AGACTTACTGATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTC
89984 AAAAATTCCA-ACATCA-TTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
323 AAAAATTCCAGA-ATCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
* *
90047 TGGATGGCCCGAAGGACTTAACATCTTGCTCTAAAGGCTTACAGATGATCCGAAGGATTTAAACA
387 TGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACA
*
90112 TCATGCTCGAAAGACTTACTGATGGCCCGAGGGACTTATAAATTGTGAACTTTTGAAAATCGCAT
452 TCATGCTCGAAAGACTTACTGATGGCCCGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCAT
* *
90177 TCTTTGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATGTGAAAA
517 TCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATTTGAAAA
* *
90242 CAT-CCTACCCGAAGGTTTTATGGATGACCCAAAAGACTTATCATCTTGCTCTA
582 CATCCCT-CCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTA
* *
90295 AAGGCTTACCGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGACCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* **
90360 ACTTATAAATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTTATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
90425 ATCATTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
131 ATCATTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
*
90490 GACTCATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
196 GACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
*
90555 CTTACTGATGGCCCGAGGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
261 CTTACTGATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
* * *
90620 AATTCCAGTATCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCTGAAGGTCTTGTGGA
326 AATTCCAGAATCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGA
*
90685 TGGCCCGAAGGACATATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCAT
391 TGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCAT
*
90750 GCTCGAAAGACTTACTGATGGCTCGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT
456 GCTCGAAAGACTTACTGATGGCCCGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT
*
90815 CGTTTTAAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATC
521 CGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATC
* *
90880 CCTCCCGAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCTA
586 CCTCCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTA
* * *
90929 AAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
90994 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTCCATCTTCTTACAAT
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
91059 ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
131 ATCATTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
* * * *
91124 GACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAATGATTTAAGTATCATGCTTGAAAGA
196 GACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
91189 CTTACTGATG
261 CTTACTGATG
91199 TAGTTGCTTC
Statistics
Matches: 1434, Mismatches: 95, Indels: 31
0.92 0.06 0.02
Matches are distributed among these distances:
632 3 0.00
633 190 0.13
634 533 0.37
635 201 0.14
636 199 0.14
637 3 0.00
638 1 0.00
639 1 0.00
645 123 0.09
647 175 0.12
648 5 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (634 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
ATCATTTTTCATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
GACTTATCATCTTGCTCTAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
CTTACTGATGGCCCGAAGGACTTATACATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
AATTCCAGAATCATTTTTTCATTCTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGA
TGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCAT
GCTCGAAAGACTTACTGATGGCCCGAGGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT
CGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTCATTTTCAAATTCATTTGAAAACATC
CCTCCCGAAGGTTTTATGGATGGCCCGAAAGACTTATCATCTTGCTCTA
Found at i:92303 original size:16 final size:18
Alignment explanation
Indices: 92271--92310 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
92261 CAGTAAACTC
*
92271 CATTGTCACTACTTCAT-
1 CATTTTCACTACTTCATA
92288 CATTTTCACT-CTTCATA
1 CATTTTCACTACTTCATA
92305 CATTTT
1 CATTTT
92311 TATCCCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.47
Consensus pattern (18 bp):
CATTTTCACTACTTCATA
Found at i:92957 original size:123 final size:125
Alignment explanation
Indices: 92746--92973 Score: 311
Period size: 123 Copynumber: 1.8 Consensus size: 125
92736 TTTGACAACA
* * * *
92746 TCACAAGGAAATGTTACCAGTTCTCATTCTTCATCAATTCTGATTTCTTGGACCATCTGCTTCAA
1 TCACAAGGAAATATTACCAATTCTCATTCTTCATCAACTCTGATCTCTTGGACCATCTGCTTCAA
* *
92811 CATCGCGAAATGCTTCATGTTCTGG-CATCGCTTATTCTTCCTGACGGGTTGCTGATAACG
66 CATCGCGAAATGCTTCATATTCTGGAAAT-GCTTATTCTTCCTGACGGGTTGCTGATAACG
* *
92871 TCACAAGGAAATATTA-CAATT-TC-TTCCTTCATCCACTCTGATCTCTTGGACCGTCTGCTTCA
1 TCACAAGGAAATATTACCAATTCTCATT-CTTCATCAACTCTGATCTCTTGGACCATCTGCTTCA
* * *
92933 AGATTGCGGAATGCTTCATATTCTGGAAATGCTTATTCTTC
65 ACATCGCGAAATGCTTCATATTCTGGAAATGCTTATTCTTC
92974 TTTTCCAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.02
123 67 0.74
124 6 0.07
125 15 0.17
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (125 bp):
TCACAAGGAAATATTACCAATTCTCATTCTTCATCAACTCTGATCTCTTGGACCATCTGCTTCAA
CATCGCGAAATGCTTCATATTCTGGAAATGCTTATTCTTCCTGACGGGTTGCTGATAACG
Found at i:93799 original size:2 final size:2
Alignment explanation
Indices: 93792--93828 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
93782 AGCTTTATTG
93792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93829 ATCACCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:95989 original size:13 final size:13
Alignment explanation
Indices: 95971--95996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95961 TTATGCAATT
95971 CAAATGCAAATGC
1 CAAATGCAAATGC
95984 CAAATGCAAATGC
1 CAAATGCAAATGC
95997 AAAAGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CAAATGCAAATGC
Found at i:101585 original size:20 final size:19
Alignment explanation
Indices: 101562--101608 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
101552 CGATATACCA
101562 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
101582 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
101602 GGTAAAA
1 GGTAAAA
101609 CGTTACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:101648 original size:181 final size:181
Alignment explanation
Indices: 101351--101822 Score: 694
Period size: 181 Copynumber: 2.6 Consensus size: 181
101341 GATCCAAATT
* ** * **
101351 AAAAATGTGTCGATCCAAAACGATATAACA-GTAAATTTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
101415 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACATTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATAC-TTTATATAAGGATCGACACTTC
* * *
101480 GTGAATTTAAAAGAGACGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
101532 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
101597 AAACCGGTAAAACGTTACCGAATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
** *
101662 TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
101713 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
101778 AAACCGGTAAAACGATACCGGATATATTGAAACTGACGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
101823 CGTAAGTAAG
Statistics
Matches: 262, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
181 197 0.75
182 65 0.25
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:101766 original size:20 final size:19
Alignment explanation
Indices: 101743--101789 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
101733 CGATATAACA
101743 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
101763 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
101783 GGTAAAA
1 GGTAAAA
101790 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:101794 original size:17 final size:19
Alignment explanation
Indices: 101754--101794 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
101744 GTAAAAATAT
*
101754 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
101774 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
101791 GATA
1 GATA
101795 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:104047 original size:21 final size:21
Alignment explanation
Indices: 104021--104061 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104011 AAGACAATCA
104021 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
104042 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
104062 GAGGCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:104140 original size:33 final size:33
Alignment explanation
Indices: 104098--104163 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
104088 AAATAGATGG
*
104098 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
104131 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
104164 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:105978 original size:19 final size:19
Alignment explanation
Indices: 105954--106002 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
105944 AATGTAGGGT
105954 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
105973 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
105992 TAATTTTGTAT
1 TAATTTTGTAT
106003 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:106463 original size:200 final size:200
Alignment explanation
Indices: 106115--106549 Score: 798
Period size: 200 Copynumber: 2.2 Consensus size: 200
106105 AATTTACAAT
* * * *
106115 ATGGCAAACAGGATGCAACCATAAAATGTCGATCCATATATAAAAAGTGTCAATCTCATAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCATAAACAT
106180 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
106245 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
106310 AATGA
196 AATGA
* *
106315 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCATAAACAT
*
106380 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
106445 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
106510 AATGA
196 AATGA
*
106515 ATTGAAAACAGGGTGCAACCATAAAGTGTCGATCC
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCC
106550 CATAAACATC
Statistics
Matches: 227, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 227 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (200 bp):
ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:108162 original size:6 final size:6
Alignment explanation
Indices: 108151--108256 Score: 104
Period size: 6 Copynumber: 17.7 Consensus size: 6
108141 CAAGCGGTCA
* * * * *
108151 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * *
108199 ATGACG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
108247 ATGATG ATGA
1 ATGAAG ATGA
108257 TGATCCAAAC
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 82 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (6 bp):
ATGAAG
Found at i:108260 original size:6 final size:6
Alignment explanation
Indices: 108164--108256 Score: 105
Period size: 6 Copynumber: 15.5 Consensus size: 6
108154 AAGATGAAGC
* * * * *
108164 TGACGA TGAAGA TGACGA TGAAGA TGACGA TGATGA TGACGA TGAAGC
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
* * * *
108212 TGACGA TGAAGA TGACGA TGAAGA TGACGA TGATGA TGATGA TGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGA
108257 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.20
Consensus pattern (6 bp):
TGACGA
Found at i:108260 original size:12 final size:12
Alignment explanation
Indices: 108151--108256 Score: 158
Period size: 12 Copynumber: 8.8 Consensus size: 12
108141 CAAGCGGTCA
*
108151 ATGAAGATGAAG
1 ATGACGATGAAG
*
108163 CTGACGATGAAG
1 ATGACGATGAAG
108175 ATGACGATGAAG
1 ATGACGATGAAG
*
108187 ATGACGATGATG
1 ATGACGATGAAG
108199 ATGACGATGAAG
1 ATGACGATGAAG
*
108211 CTGACGATGAAG
1 ATGACGATGAAG
108223 ATGACGATGAAG
1 ATGACGATGAAG
*
108235 ATGACGATGATG
1 ATGACGATGAAG
*
108247 ATGATGATGA
1 ATGACGATGA
108257 TGATCCAAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 85 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:109783 original size:183 final size:183
Alignment explanation
Indices: 109470--110408 Score: 1709
Period size: 183 Copynumber: 5.1 Consensus size: 183
109460 CAAAGTTTTC
* * * * *
109470 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCATAATGGAATAAAAATGTGTCAATACCATT-
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACC-TTG
*
109534 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
109599 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
109653 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATAACTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
109718 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
109783 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATTG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
109836 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCGATACCATGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
109901 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
109966 AACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
110019 ACACTTTTTAATATTGTGTCGGTACTTTAGGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
110084 CAAAAAGTGTTGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
110149 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
110202 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
110267 CAACAAGTGTCGACATTTACATATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
110332 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
110385 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
110409 ATTTTAAGTA
Statistics
Matches: 729, Mismatches: 26, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
182 2 0.00
183 727 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:113248 original size:23 final size:23
Alignment explanation
Indices: 113217--113289 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
113207 ATAGGTAAAA
*
113217 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
113240 ATATAATGTAATAGGTAGCG-TGT
1 ATATAATGTAATAGGTAGCGCT-T
*
113263 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
113286 ATAT
1 ATAT
113290 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:113717 original size:23 final size:23
Alignment explanation
Indices: 113691--113755 Score: 105
Period size: 22 Copynumber: 2.9 Consensus size: 23
113681 TAAAATATGA
113691 GTAATAGGTAGCGCTTATATAAT
1 GTAATAGGTAGCGCTTATATAAT
*
113714 GTAATAGGTAACG-TTATATAAT
1 GTAATAGGTAGCGCTTATATAAT
*
113736 GTAATAGGTAGTGCTTATAT
1 GTAATAGGTAGCGCTTATAT
113756 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (23 bp):
GTAATAGGTAGCGCTTATATAAT
Found at i:114049 original size:472 final size:472
Alignment explanation
Indices: 112875--114130 Score: 2041
Period size: 473 Copynumber: 2.6 Consensus size: 472
112865 AGATATGTAC
* *
112875 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATTTATCTAATGATTTATGTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
112940 GTTACGGTATATTATCATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTGG
66 GTTACGGTATATTATCATTAAATTAAAAACAATAAACATATATTAC--A--TATTATTAT-TTGG
*
113005 TTAATATTGTTAAATTTAAATTCTAAATAAAATTTTATAAAATATCAAAACAATCAAATAATCTT
126 TTAATATTGTTAAATTTAAATTCTAAAT-AAATTTTATAAAATATCAAAACAATCAAATAATTTT
* *
113070 TTGTGCAAATGAAATTATTAAATTAATATTGTAGATAGAAAACATGAAACACTATTAAAAAAATT
190 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
113135 GAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTTATAAAAAGTATGAACACTTT
255 GAAACATAAATTACATAACTTT-AAAAAAGTATCGATC--TTTTTAT-AAAAGTATGAACACTTT
*
113200 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTGTAT
316 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTGTAT
*
113265 ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTTTAAAAGTGTCCATACTTTT
381 ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTATAAAAGTGTCCATACTTTT
*
113330 CACTGTGGAAAACATTAATTTAAGGTT
446 CAATGTGGAAAACATTAATTTAAGGTT
113357 ATCTTTTGAGTGAG-TTTAAGATATCAATTTAGTAATTATATGTATCTAATG----ATTTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
*
113417 GTTACGGTATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTTAGTT
66 GTTACGGTATATTATCATTAAATTAAAAACAATAAAC--ATATATTACATA-TTATTATTTGGTT
113482 AATATTGTTAAATTTAAATTCT-AATAAATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
128 AATATTGTTAAATTTAAATTCTAAATAAATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
113546 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
193 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
113611 ACATAAATTACATAACTTTAAAAAAGTATCGATCTTTTTATAAAAGTATGAACACTTTCAATATA
258 ACATAAATTACATAACTTTAAAAAAGTATCGATCTTTTTATAAAAGTATGAACACTTTCAATATA
113676 ATAGGT-AAAATATGA-GTAATAGGTAGCGCTTATATAATGTAATAGGTAACGT-TATATAATGT
323 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTGTATATAATGT
113738 AATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCAAT
388 AATAGGTAGTGCTTATATTGTAAAGTATCTATC-TTTTTATAAAAGTGTCCATAC--TTTTCAAT
113803 GTGGAAAACATTAATTTAAGGTT
450 GTGGAAAACATTAATTTAAGGTT
* * ** *
113826 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
* * *
113891 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATA-TA-ATATTA-TCTTTGGTTA
66 GTTACG--GTATATTATCATTAAATTAAAAACAATAAACATATATTACATATTATTATTTGGTTA
*
113953 ATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
129 ATATTGTTAAATTTAAATTCTAAATA-AATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
114018 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAAATTGA
193 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
* *
114083 AACATAAATTACATAACTTTAAAAAGAGCATTGATCCTTTTTATAAAA
257 AACATAAATTACATAACTTTAAAAA-AGTATCGAT-CTTTTTATAAAA
114131 AAATATAGAC
Statistics
Matches: 734, Mismatches: 22, Indels: 43
0.92 0.03 0.05
Matches are distributed among these distances:
466 43 0.06
467 56 0.08
468 9 0.01
469 74 0.10
470 69 0.09
471 7 0.01
472 107 0.15
473 158 0.22
474 29 0.04
475 41 0.06
476 36 0.05
477 46 0.06
479 9 0.01
481 36 0.05
482 14 0.02
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (472 bp):
ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
GTTACGGTATATTATCATTAAATTAAAAACAATAAACATATATTACATATTATTATTTGGTTAAT
ATTGTTAAATTTAAATTCTAAATAAATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
TAAATTACATAACTTTAAAAAAGTATCGATCTTTTTATAAAAGTATGAACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACGTGTATATAATGTAAT
AGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTATAAAAGTGTCCATACTTTTCAATGTGGAA
AACATTAATTTAAGGTT
Found at i:115798 original size:10 final size:9
Alignment explanation
Indices: 115774--115813 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
115764 TGACTCCATC
115774 TAATCATATA
1 TAAT-ATATA
115784 TAATATATA
1 TAATATATA
115793 TCAATATATA
1 T-AATATATA
115803 T-ATATATA
1 TAATATATA
115811 TAA
1 TAA
115814 ATAGGGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.29
9 7 0.25
10 13 0.46
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATATATA
Found at i:118256 original size:21 final size:22
Alignment explanation
Indices: 118214--118256 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
118204 CATGACACAT
*
118214 GTCATTTAACGTTTTTTTAACC
1 GTCATTTAACGTTTTTTGAACC
118236 GTCATTTAACG-TTTTTGAACC
1 GTCATTTAACGTTTTTTGAACC
118257 TAAAGGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (22 bp):
GTCATTTAACGTTTTTTGAACC
Found at i:120804 original size:21 final size:21
Alignment explanation
Indices: 120771--120829 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
120761 ATTATCCAAT
*
120771 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
120792 AAACTAGAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
120813 AAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
120830 TAATAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:124898 original size:58 final size:59
Alignment explanation
Indices: 124836--124949 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 59
124826 ATTACCAAAT
*
124836 GGCAC-TAAGTGTGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTTAA-TGTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * *
124894 GGCACTTTATGTGCTAAAATATTAAGAATTTCATACTAAGTGTATGAATTTTCGTA
1 GGCACTTAATGTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTA
124950 CGGTCACTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 10 0.20
59 40 0.80
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (59 bp):
GGCACTTAATGTGCTAAAATATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:125338 original size:69 final size:68
Alignment explanation
Indices: 125216--125372 Score: 215
Period size: 69 Copynumber: 2.3 Consensus size: 68
125206 AAAGATTAAT
* * *
125216 AGGCCTAACTGTGTATTTGACAGAAAAATGCCATTTATGCCAGTTATATGAAAGGCTAAATGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAATGCCATTTAAGCCAGTTAGATGAAAGGCTAAATGCCT
125281 TTG
66 TTG
* * * * *
125284 AGGCCTAACTGTGCATTTTACAGAAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGTC
1 AGGCCTAACTGTGCATTTGACAGAAAA-ATGCCATTTAAGCCAGTTAGATGAAAGGCTAAATGCC
125349 TTTG
65 TTTG
* *
125353 AGGCCTTATTGTGCATTTGA
1 AGGCCTAACTGTGCATTTGA
125373 TGTAATACCC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 25 0.32
69 52 0.68
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAAATGCCATTTAAGCCAGTTAGATGAAAGGCTAAATGCCT
TTG
Found at i:128491 original size:68 final size:68
Alignment explanation
Indices: 128382--128556 Score: 296
Period size: 68 Copynumber: 2.6 Consensus size: 68
128372 TATGGTATTA
* * *
128382 CATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCT
1 CATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
128447 GTG
66 GTG
128450 CATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
1 CATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
128515 GTG
66 GTG
* * *
128518 CAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 CATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
128557 CGATTAAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 101 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (68 bp):
CATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
GTG
Found at i:128955 original size:81 final size:81
Alignment explanation
Indices: 128507--128910 Score: 639
Period size: 81 Copynumber: 5.0 Consensus size: 81
128497 TGCCTTTGAG
* * * *
128507 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATATCGTT
128572 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * *
128588 GCTTAACTGTGCAATTGGCAAAAAGGTGTCAATTAT-ACTAGTTAGATGAACGGTTAAATATCGT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTC-AGTTAGATGAACGGTTAAATATCGT
*
128652 TGTGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* *
128669 GCCTAACTGTGCAATTGGCATAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATATCGTT
128734 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * *
128750 GCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGTCAGTTAGATGAATGATTAAATATCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATATCGTT
128815 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * * *
128831 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGGTGAAAGGTTAAACATTGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATATCGTT
128896 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
128911 GGATTAGCTG
Statistics
Matches: 298, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
80 1 0.00
81 296 0.99
82 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATATCGTT
GAGTAAAAGAATAATA
Found at i:128972 original size:243 final size:243
Alignment explanation
Indices: 128507--128990 Score: 650
Period size: 243 Copynumber: 2.0 Consensus size: 243
128497 TGCCTTTGAG
128507 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
*
128572 GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCAAAAAGGTGTCAATTATACTAGTTAGATGA
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATACTAGTTAGATGA
* * * * * * * * *
128637 ACGGTTAAATATCGTTGTGTAAAAGAATAATAGCCTAACTGTGCAATTGGCATAAAGGTGTCAAT
131 AAGGTTAAACATCGTTGAGTAAAAGAATAATAGACTAACTGTGCAATTGACAGAAAAGTGCCAAA
* ** *
128702 TATGTCAGTTAGATGAACGGTTAAATACCGTTG-AGTAAAAGAATAATA
196 TATGTCAGTTAAATGAAAAGCTAAATA-CGTTGAAGTAAAAGAATAATA
* * * * *
128750 GCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGTCAGTTAGATGAATGATTAAATATCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
* * *
128815 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTAT-GTCAGTTAGGTG
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATACT-AGTTAGATG
* * * * * *
128879 AAAGGTTAAACATTGTTGAGTAAAAGAATAATGGATTAGCTGTGTATTTGACAGAAAAGTGCCAA
130 AAAGGTTAAACATCGTTGAGTAAAAGAATAATAGACTAACTGTGCAATTGACAGAAAAGTGCCAA
* *
128944 ATATG-CAAGTTAAATGAAAAGCTAAATACTTTGAAGTAGAAGAATAA
195 ATATGTC-AGTTAAATGAAAAGCTAAATACGTTGAAGTAAAAGAATAA
128991 ATGAATTATA
Statistics
Matches: 208, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
242 6 0.03
243 202 0.97
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (243 bp):
GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAAAAAGGTGTCAATTATACTAGTTAGATGA
AAGGTTAAACATCGTTGAGTAAAAGAATAATAGACTAACTGTGCAATTGACAGAAAAGTGCCAAA
TATGTCAGTTAAATGAAAAGCTAAATACGTTGAAGTAAAAGAATAATA
Found at i:128989 original size:162 final size:161
Alignment explanation
Indices: 128507--128990 Score: 632
Period size: 162 Copynumber: 3.0 Consensus size: 161
128497 TGCCTTTGAG
* * *
128507 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
*
128572 GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCA-AAAAGGTGTCAATTATACTAGTTAGATG
66 GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCAGAAAA-GTGTCAATTATGC-AGTTAGATG
** *
128636 AACGGTTAAATATCGTTGTGTAAAAGAATAATA
129 AAAAGTTAAATATCGTTGAGTAAAAGAATAATA
*
128669 GCCTAACTGTGCAATTGGCATAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
* * *
128734 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGTCAGTTAGATG-
66 GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCAGAAAAGTGTCAATTATG-CAGTTAGATGA
*
128798 AATGATTAAATATCGTTGAGTAAAAGAATAATA
130 AAAG-TTAAATATCGTTGAGTAAAAGAATAATA
* * * **
128831 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGGTGAAAGGTTAAACATTGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
* * * * * * * * *
128896 GAGTAAAAGAATAATGGATTAGCTGTGTATTTGACAGAAAAGTGCCAAATATGCAAGTTAAATGA
66 GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGC-AGTTAGATGA
* * *
128961 AAAGCTAAATA-CTTTGAAGTAGAAGAATAA
130 AAAGTTAAATATCGTTG-AGTAAAAGAATAA
128991 ATGAATTATA
Statistics
Matches: 283, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
161 7 0.02
162 269 0.95
163 7 0.02
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.29
Consensus pattern (161 bp):
GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGTT
GAGTAAAAGAATAATAGCTTAACTGTGCAATTGGCAGAAAAGTGTCAATTATGCAGTTAGATGAA
AAGTTAAATATCGTTGAGTAAAAGAATAATA
Found at i:134026 original size:14 final size:14
Alignment explanation
Indices: 133990--134042 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
133980 CCGAAAACTG
133990 AAGCAAAAAAAA-A
1 AAGCAAAAAAAAGA
*
134003 AA-CAGGAAAAAAGA
1 AAGCA-AAAAAAAGA
134017 AAGC-AAAAAAAGTA
1 AAGCAAAAAAAAG-A
134031 AAG-AAAAAAAAG
1 AAGCAAAAAAAAG
134043 TCAGAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 2 0.06
13 15 0.45
14 15 0.45
15 1 0.03
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (14 bp):
AAGCAAAAAAAAGA
Found at i:134043 original size:14 final size:14
Alignment explanation
Indices: 134009--134043 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
133999 AAAAAACAGG
*
134009 AAAAAAG-AAAGCA
1 AAAAAAGTAAAGAA
134022 AAAAAAGTAAAGAA
1 AAAAAAGTAAAGAA
134036 AAAAAAGT
1 AAAAAAGT
134044 CAGAGAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (14 bp):
AAAAAAGTAAAGAA
Found at i:134723 original size:33 final size:37
Alignment explanation
Indices: 134652--134725 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 37
134642 AAGGTTGAAC
134652 AAGAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGG
1 AAGAGTTCTTCTCATTATGAA--TCTTCTCCCTCATTGG
134691 AAGAGTTCTTCTCATTATGAA-C-TCT-CC-CATTGG
1 AAGAGTTCTTCTCATTATGAATCTTCTCCCTCATTGG
134724 AA
1 AA
134726 ATGTTGATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
33 8 0.23
34 2 0.06
35 3 0.09
36 1 0.03
39 21 0.60
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (37 bp):
AAGAGTTCTTCTCATTATGAATCTTCTCCCTCATTGG
Found at i:134881 original size:136 final size:134
Alignment explanation
Indices: 134643--135677 Score: 785
Period size: 136 Copynumber: 7.5 Consensus size: 134
134633 AAACGAGTTA
* * *
134643 AGGTTGAACAAGAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATTGGAAGAGTTCTTCTCATT
1 AGGTTGAAC-A-AGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATT
* *
134707 ATGAACTCTCCCAT-TGGAAATGTTGATCCCTCAAGTGAGGTGTTACTAATTTAAAGTGTTGTGA
64 ATGAACTCT-CCATCTGGAAATG-TGATCCCTCAAGTGAGGTGTTACTAATTGAAA-TATTGTGA
134771 ATCGAGTAAT
126 ATCGAGT-AT
* * *
134781 AGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCTCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * * * * * *
134846 GAATTCTTCATCT-GAAATGTCATTCCCTTAAGTGAGGCGTCATTAATTCGAAATATCGTTAATA
66 GAACTCTCCATCTGGAAATGTGA-TCCCTCAAGTGAGGTGTTACTAATT-GAAATATTGTGAATC
* *
134910 AAATGAT
129 GAGT-AT
* * * *
134917 AGGTCT-AGCAAGCTCTTCTCATTATGAACTTCTTCTCCTTTTGTCGGATGAGTTCTTCTCATTA
1 AGGT-TGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTA
* * * * ** * * ** *
134981 TGAACTCTCTAT-TTGAAATATTGATCCCTCAAGCGAGGCATCACTAATTCGAAATGTCATGGAT
65 TGAACTCTCCATCTGGAAAT-GTGATCCCTCAAGTGAGGTGTTACTAATT-GAAATATTGTGAAT
135045 CGAGTGAT
128 CGAGT-AT
* * * *
135053 AGGTTGAACAAGCTCTTCTCATTATGAACCTCTTATCCCTTTATCAGATGAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * *
135118 GAACTCTCCA-CTGGAAATGTTAATCCCTCGAGTTAGGTGTTATTGATTAAACTCCATATGTGAT
66 GAACTCTCCATCTGGAAATG-TGATCCCTCAAGTGAGGTGTTACTAATTGAA----ATAT-TG-T
135182 GAATCGAGCTA-
124 GAATCGAG-TAT
* * * ** * *
135193 AGATTGAACAAGTTCTTCTAATTATGAACTTCTTCTATCT-TATAGGATGAGTTATTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* *
135257 GAACTCTCCA-CTGGAAATGTTGATCCCTCAAGTGAGGTGTTGCTAATTCAACTCCATATGTGAT
66 GAACTCTCCATCTGGAAATG-TGATCCCTCAAGTGAGGTGTTACTAATTGAA----ATAT-TG-T
*
135321 GAACCGAGCTA-
124 GAATCGAG-TAT
* * * *
135332 AGGTTGAACAAGTTCTTCTTATTATGAACTTCTTATCCCTC-ATCGGATGAGTTTTTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * *
135396 GAAAC-CTCCCAT-TGGAAATGTTGATCCCTCGAGTGAGGTGTCACTGATTCAACTCCATTTGTG
66 G-AACTCT-CCATCTGGAAATG-TGATCCCTCAAGTGAGGTGTTACTAATTGAA----ATAT-TG
*
135459 ATGAATTGAGCTA-
123 -TGAATCGAG-TAT
* * * * *
135472 A-GTTTAACAAGTTATTCTCATTTTGAACTTCTTCTCCCTC-ATCGGATAAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
* * * * * *
135535 GAACTCTCCA-CTAGAAATGTTGATCTCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGAT
66 GAACTCTCCATCTGGAAATG-TGATCCCTCAAGTGAGGTGTTACTAATTGAA----ATAT-TG-T
*
135599 GAATGGAGCTA-
124 GAATCGAG-TAT
* * * *
135610 AGGTTGAATATGCTCTTTTCATTATGAACTTCTTCTCCCT-TATCGGATGAGTTCTTATCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
135674 GAAC
66 GAAC
135678 CCTCTACTGG
Statistics
Matches: 751, Mismatches: 121, Indels: 49
0.82 0.13 0.05
Matches are distributed among these distances:
135 6 0.01
136 267 0.36
137 34 0.05
138 73 0.10
139 264 0.35
140 97 0.13
141 9 0.01
142 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (134 bp):
AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCATCTGGAAATGTGATCCCTCAAGTGAGGTGTTACTAATTGAAATATTGTGAATCGA
GTAT
Found at i:135262 original size:139 final size:139
Alignment explanation
Indices: 134636--135688 Score: 997
Period size: 139 Copynumber: 7.6 Consensus size: 139
134626 GAGATGGAAA
* * * *
134636 CGAGTTAAGGTTGAACAAGAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGAAGAGTTCTT
1 CGAGCTAAGGTTGAAC-A-AGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTT
* * * *
134701 CTCATTATGAACTCTCCCATTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTAATTTAA----A
64 CTCATTATGAACTCT-CCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCA
*
134762 -GTGTTG-TGAAT
128 TATG-TGATGAAT
* * * *
134773 CGAG-TAATAGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCTCTCTATCGGATGAGTTCT
1 CGAGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TATCGGATGAGTTCT
* * * ** * * * *
134837 TCTCATTATGAATTCTTCATCT-GAAATG-TCATTCCCTTAAGTGAGGCGTCATTAATTCGAA--
63 TCTCATTATGAACTCTCCA-CTGGAAATGTTGA-TCCCTCGAGTGAGGTGTTACTGATTC-AACT
* *
134898 --ATATCGTTAATAAAAT
125 CCATAT-G-TGAT-GAAT
* * * *
134914 -GA--T-AGGTCT-AGCAAGCTCTTCTCATTATGAACTTCTTCTCCTTTTGTCGGATGAGTTCTT
1 CGAGCTAAGGT-TGAACAAGTTCTTCTCATTATGAACTTCTTCTCC-CTTATCGGATGAGTTCTT
* * * * * * ** * * *
134974 CTCATTATGAACTCTCTATTTGAAATATTGATCCCTCAAGCGAGGCATCACTAATTCGA----A-
64 CTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCAT
* *
135034 ATGTCATGGAT
129 ATGTGATGAAT
* * * *
135045 CGAG-TGATAGGTTGAACAAGCTCTTCTCATTATGAACCTCTTATCCCTTTATCAGATGAGTTCT
1 CGAGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC-TTATCGGATGAGTTCT
* * * *
135109 TCTCATTATGAACTCTCCACTGGAAATGTTAATCCCTCGAGTTAGGTGTTATTGATTAAACTCCA
63 TCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCA
135174 TATGTGATGAAT
128 TATGTGATGAAT
* * ** * *
135186 CGAGCTAAGATTGAACAAGTTCTTCTAATTATGAACTTCTTCTATCTTATAGGATGAGTTATTCT
1 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCT
* * *
135251 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTGCTAATTCAACTCCATAT
66 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATAT
*
135316 GTGATGAAC
131 GTGATGAAT
* * * *
135325 CGAGCTAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTATCCCTCATCGGATGAGTTTTTCT
1 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCT
* *
135390 CATTATGAAAC-CTCCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTCACTGATTCAACTCCAT
66 CATTATG-AACTCT-CCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCAT
*
135454 TTGTGATGAAT
129 ATGTGATGAAT
* * * * * *
135465 TGAGCTAA-GTTTAACAAGTTATTCTCATTTTGAACTTCTTCTCCCTCATCGGATAAGTTCTTCT
1 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCT
* * *
135529 CATTATGAACTCTCCACTAGAAATGTTGATCTCTCGAGTGAGGTGTTGCTGATTCAACTCCATAT
66 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATAT
135594 GTGATGAAT
131 GTGATGAAT
* * * * * *
135603 GGAGCTAAGGTTGAATATGCTCTTTTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTAT
1 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCT
* *
135668 CATTATGAACCCTCTACTGGA
66 CATTATGAACTCTCCACTGGA
135689 TATATTGACT
Statistics
Matches: 762, Mismatches: 123, Indels: 60
0.81 0.13 0.06
Matches are distributed among these distances:
131 2 0.00
132 5 0.01
133 2 0.00
134 2 0.00
135 6 0.01
136 239 0.31
137 40 0.05
138 74 0.10
139 274 0.36
140 100 0.13
141 17 0.02
142 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (139 bp):
CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCT
CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATAT
GTGATGAAT
Found at i:139093 original size:17 final size:17
Alignment explanation
Indices: 139068--139186 Score: 91
Period size: 17 Copynumber: 6.6 Consensus size: 17
139058 TTTCCCCTTT
*
139068 TTTTCTCTTTCTTTTTTA
1 TTTT-TCTTTCTTTTTTC
139086 TTTTTCTTTCTTTTTTC
1 TTTTTCTTTCTTTTTTC
139103 TCTTTT-TTCTCTTTTTCTC
1 T-TTTTCTT-TCTTTTT-TC
*
139122 TTTTT-TCTCTTTTTTC
1 TTTTTCTTTCTTTTTTC
* *
139138 TTTTTTCTTTTTTTTTTG
1 -TTTTTCTTTCTTTTTTC
*
139156 TATTT-TTTCTATATCTCTTC
1 TTTTTCTTTCT-T-T-T-TTC
139176 TTTTTCTTTCT
1 TTTTTCTTTCT
139187 GTGTTGTCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
16 6 0.07
17 32 0.39
18 29 0.35
19 4 0.05
20 6 0.07
21 5 0.06
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:139106 original size:9 final size:9
Alignment explanation
Indices: 139066--139151 Score: 92
Period size: 9 Copynumber: 9.7 Consensus size: 9
139056 CTTTTCCCCT
139066 TTTTTTCTC
1 TTTTTTCTC
*
139075 TTTCTTT-TT
1 TTT-TTTCTC
139084 TATTTTTCTTTC
1 T-TTTTTC--TC
139096 TTTTTTCTC
1 TTTTTTCTC
139105 TTTTTTCTC
1 TTTTTTCTC
139114 -TTTTTCTC
1 TTTTTTCTC
139122 TTTTTTCTC
1 TTTTTTCTC
139131 -TTTTT-TC
1 TTTTTTCTC
139138 TTTTTTCT-
1 TTTTTTCTC
139146 TTTTTT
1 TTTTTT
139152 TTTGTATTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
7 2 0.03
8 24 0.36
9 28 0.42
10 5 0.07
11 6 0.09
12 2 0.03
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:139108 original size:8 final size:8
Alignment explanation
Indices: 139034--139149 Score: 80
Period size: 8 Copynumber: 14.4 Consensus size: 8
139024 ATCAGTTTTC
139034 TTTCTTCTT
1 TTTC-TCTT
139043 TATT-TCTT
1 T-TTCTCTT
*
139051 TTCCTCTT
1 TTTCTCTT
* *
139059 TTCCCCTT
1 TTTCTCTT
* *
139067 TTTTTCTC
1 TTTCTCTT
139075 TTTCT-TT
1 TTTCTCTT
*
139082 TTTAT-TT
1 TTTCTCTT
*
139089 TTCTTTCTTT
1 TT-TCTC-TT
139099 TTTCTCTTT
1 TTTCTC-TT
139108 TTTCTCTT
1 TTTCTCTT
139116 TTTCTCTTT
1 TTTCTC-TT
139125 TTTCTCTT
1 TTTCTCTT
139133 TTT-TCTT
1 TTTCTCTT
139140 TTT-TCTT
1 TTTCTCTT
139147 TTT
1 TTT
139150 TTTTTGTATT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
7 24 0.27
8 39 0.43
9 21 0.23
10 6 0.07
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTCTCTT
Found at i:139123 original size:26 final size:25
Alignment explanation
Indices: 139077--139152 Score: 107
Period size: 26 Copynumber: 3.0 Consensus size: 25
139067 TTTTTCTCTT
* *
139077 TCTTTTTTATTTTTCTTTCTTTTTTC
1 TCTTTTTTCTTTTT-TCTCTTTTTTC
139103 TCTTTTTTCTCTTTTTCTCTTTTTTC
1 TCTTTTTTCT-TTTTTCTCTTTTTTC
*
139129 TCTTTTTTCTTTTTTCTTTTTTTT
1 TCTTTTTTCTTTTTTCTCTTTTTT
139153 TTGTATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.28
26 29 0.63
27 4 0.09
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (25 bp):
TCTTTTTTCTTTTTTCTCTTTTTTC
Found at i:139152 original size:9 final size:9
Alignment explanation
Indices: 139064--139165 Score: 75
Period size: 9 Copynumber: 11.2 Consensus size: 9
139054 CTCTTTTCCC
139064 CTTTTTTTCT
1 CTTTTTTT-T
*
139074 CTTTCTTTT
1 CTTTTTTTT
*
139083 -TTATTTTT
1 CTTTTTTTT
139091 CTTTCTTTTTT
1 C-TT-TTTTTT
*
139102 CTCTTTTTT
1 CTTTTTTTT
*
139111 C-TCTTTTT
1 CTTTTTTTT
*
139119 CTCTTTTTT
1 CTTTTTTTT
*
139128 CTCTTTTTT
1 CTTTTTTTT
139137 CTTTTTTCTT
1 CTTTTTT-TT
139147 -TTTTTTTT
1 CTTTTTTTT
* *
139155 GTATTTTTT
1 CTTTTTTTT
139164 CT
1 CT
139166 ATATCTCTTC
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
8 14 0.19
9 42 0.57
10 12 0.16
11 6 0.08
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:139153 original size:26 final size:27
Alignment explanation
Indices: 139065--139186 Score: 113
Period size: 30 Copynumber: 4.3 Consensus size: 27
139055 TCTTTTCCCC
*
139065 TTTTTTTCTCTTTCTTTTTTATTTTTCTT
1 TTTTTTTCTC-TT-TTTTCTATTTTTCTT
*
139094 TCTTTTTTCTCTTTTTTCTCTTTTTC-T
1 T-TTTTTTCTCTTTTTTCTATTTTTCTT
*
139121 CTTTTTTCTCTTTTTTCT-TTTTTCTTT
1 TTTTTTTCTCTTTTTTCTATTTTTC-TT
* *
139148 TTTTTTTGTATTTTTTCTATATCTCTTCTT
1 TTTTTTTCTCTTTTTTCTAT-T-T-TTCTT
*
139178 TTTCTTTCT
1 TTTTTTTCT
139187 GTGTTGTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
25 6 0.08
26 17 0.22
27 17 0.22
28 12 0.15
29 4 0.05
30 19 0.24
31 3 0.04
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTTTTCTCTTTTTTCTATTTTTCTT
Found at i:143837 original size:23 final size:25
Alignment explanation
Indices: 143811--143861 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
143801 CCTGAAACTT
143811 AAGCAAAAAA-ACAAG-GAAAAAGA
1 AAGCAAAAAATACAAGAGAAAAAGA
**
143834 AAGCAAAAAATAGTAGAGAAAAAGA
1 AAGCAAAAAATACAAGAGAAAAAGA
143859 AAG
1 AAG
143862 TTAGAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
24 3 0.12
25 11 0.46
ACGTcount: A:0.71, C:0.06, G:0.20, T:0.04
Consensus pattern (25 bp):
AAGCAAAAAATACAAGAGAAAAAGA
Found at i:149194 original size:59 final size:59
Alignment explanation
Indices: 149102--149222 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
149092 AATAGATAGA
149102 TAAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGGAAAACTCGATAATATGACTC
1 TAAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGGAAAACTCGATAATATGACTC
* * * * *
149161 TAAGTGTCCTATCGAACCCTCCTAGTCGCAATGAAAATGTAAACTCGATAATATGGCTC
1 TAAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGGAAAACTCGATAATATGACTC
149220 TAA
1 TAA
149223 CCAAATCTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATCAAACCCTCCTAGTCACAATGAAAAGGAAAACTCGATAATATGACTC
Found at i:149297 original size:10 final size:10
Alignment explanation
Indices: 149282--149308 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
149272 TCTCCCTCAC
149282 AAGAACTTGA
1 AAGAACTTGA
149292 AAGAACTTGA
1 AAGAACTTGA
149302 AAGAACT
1 AAGAACT
149309 CCAGGAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (10 bp):
AAGAACTTGA
Found at i:151865 original size:35 final size:35
Alignment explanation
Indices: 151826--152070 Score: 124
Period size: 35 Copynumber: 7.1 Consensus size: 35
151816 ACTAAATTAA
*
151826 ATTTA-TATCTTTTTAAATATTTCACATTAGAAGAT
1 ATTTATTATCTTTTTAAATATTTCAAATTA-AAGAT
*
151861 ATTTATTAT-TTATTT-AA-ATTTGAATATTAATAGGAT
1 ATTTATTATCTT-TTTAAATATTTCAA-ATTAA-A-GAT
* ** * *
151897 AATTA-TATCTTTTTACTTATCTCAAACTAAAAGAT
1 ATTTATTATCTTTTTAAATATTTCAAA-TTAAAGAT
* *
151932 ATTTATTATCTTTTT-AA-ATTTGAATATTAAA-AA
1 ATTTATTATCTTTTTAAATATTTCAA-ATTAAAGAT
* *
151965 ATTTCAATAT-TTTTT-TATATTTCAAATTAAAAAGAT
1 ATTT-ATTATCTTTTTAAATATTTCAAATT--AAAGAT
* *
152001 ATTTAATATC-TTTT-AA-ATTTGAATATTAAA-A-
1 ATTTATTATCTTTTTAAATATTTCAA-ATTAAAGAT
** * *
152032 AGATAATATCTTTTTGAATATTTCAAATTAAAAGAT
1 ATTTATTATCTTTTTAAATATTTCAAATT-AAAGAT
152068 ATT
1 ATT
152071 ATCTTTTTAG
Statistics
Matches: 160, Mismatches: 26, Indels: 47
0.69 0.11 0.20
Matches are distributed among these distances:
31 8 0.05
32 5 0.03
33 22 0.14
34 40 0.25
35 45 0.28
36 32 0.20
37 8 0.05
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (35 bp):
ATTTATTATCTTTTTAAATATTTCAAATTAAAGAT
Found at i:151931 original size:71 final size:67
Alignment explanation
Indices: 151828--152070 Score: 262
Period size: 71 Copynumber: 3.5 Consensus size: 67
151818 TAAATTAAAT
* *
151828 TTATATCTTTTTAAATATTTCACATTAGAAGATATTTATTATTTATTTAAATTTGAATATTAATA
1 TTATATCTTTTT-AATATTTCAAATTAAAAGATATTTATTATTT-TTTAAATTTGAATATTAA-A
151893 GGATAA
63 -GATAA
* * *
151899 TTATATCTTTTTACTTATCTCAAACTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAAA-
1 TTATATCTTTTTA-ATATTTCAAATTAAAAGATATTTATTAT-TTTTTAAATTTGAATATTAAAG
151963 A-AA
64 ATAA
* * *
151966 TTTCAATAT-TTTTTTATATTTCAAATTAAAAAGATATTTAATATCTTTTAAATTTGAATATTAA
1 -TT--ATATCTTTTTAATATTTCAAATT-AAAAGATATTTATTATTTTTTAAATTTGAATATTAA
152030 A-A-AGA
62 AGATA-A
*
152035 TAATATCTTTTTGAATATTTCAAATTAAAAGATATT
1 TTATATCTTTTT-AATATTTCAAATTAAAAGATATT
152071 ATCTTTTTAG
Statistics
Matches: 150, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
66 4 0.03
67 17 0.11
68 47 0.31
69 21 0.14
70 6 0.04
71 53 0.35
72 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (67 bp):
TTATATCTTTTTAATATTTCAAATTAAAAGATATTTATTATTTTTTAAATTTGAATATTAAAGAT
AA
Found at i:152018 original size:68 final size:65
Alignment explanation
Indices: 151824--152070 Score: 246
Period size: 68 Copynumber: 3.6 Consensus size: 65
151814 ATACTAAATT
* * * * *
151824 AAATTTATATCTTTTTAAATATTTCACATTAGAAGATATTTATTATTTATTTAAATTTGAATATT
1 AAATTAATAT-TTTTT-TATATTTCAAATTAAAAGATATTTATTATCT-TTTAAATTTGAATATT
151889 AATA
63 AA-A
* * *
151893 GGATAATT-ATATCTTTTTACTTATCTCAAACTAAAAGATATTTATTATCTTTTTAAATTTGAAT
1 --A-AATTAATATTTTTTTA--TATTTCAAATTAAAAGATATTTATTATC-TTTTAAATTTGAAT
151957 ATTAAA
60 ATTAAA
*
151963 AAATTTCAATATTTTTTTATATTTCAAATTAAAAAGATATTTAATATCTTTTAAATTTGAATATT
1 AAA-TT-AATATTTTTTTATATTTCAAATT-AAAAGATATTTATTATCTTTTAAATTTGAATATT
152028 AAA
63 AAA
*
152031 AAGA-TAATATCTTTTTGAATATTTCAAATTAAAAGATATT
1 AA-ATTAATAT-TTTTT-TATATTTCAAATTAAAAGATATT
152071 ATCTTTTTAG
Statistics
Matches: 153, Mismatches: 12, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
66 5 0.03
67 18 0.12
68 46 0.30
69 18 0.12
70 15 0.10
71 46 0.30
72 5 0.03
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (65 bp):
AAATTAATATTTTTTTATATTTCAAATTAAAAGATATTTATTATCTTTTAAATTTGAATATTAAA
Found at i:152074 original size:32 final size:32
Alignment explanation
Indices: 151935--152079 Score: 120
Period size: 32 Copynumber: 4.4 Consensus size: 32
151925 AAAAGATATT
*
151935 TATTATCTTTTTAA-ATTTGAATATTAAAAA-A
1 TATTATCTTTTTAATATTTCAA-ATTAAAAAGA
* *
151966 T-TTCAATATTTTTTTATATTTCAAATTAAAAAGA
1 TATT--AT-CTTTTTAATATTTCAAATTAAAAAGA
* *
152000 TATTTAATATCTTTTAA-ATTTGAATATTAAAAAGA
1 TA-TT-ATCT-TTTTAATATTTCAA-ATTAAAAAGA
*
152035 TAATATCTTTTTGAATATTTCAAATT-AAAAGA
1 TATTATCTTTTT-AATATTTCAAATTAAAAAGA
152067 TATTATCTTTTTA
1 TATTATCTTTTTA
152080 GAGTTCGAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
30 2 0.02
31 2 0.02
32 23 0.25
33 22 0.24
34 22 0.24
35 20 0.22
36 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (32 bp):
TATTATCTTTTTAATATTTCAAATTAAAAAGA
Found at i:152094 original size:32 final size:33
Alignment explanation
Indices: 152004--152094 Score: 86
Period size: 32 Copynumber: 2.9 Consensus size: 33
151994 AAAAGATATT
*
152004 TAATATC-TTTTAA-A-TTTGAATATTAAAAAGA
1 TAATATCTTTTTAAGAGTTCGAATATT-AAAAGA
* *
152035 TAATATCTTTTTGAATATTTC-AA-ATTAAAAGA
1 TAATATCTTTTT-AAGAGTTCGAATATTAAAAGA
*
152067 TATTATCTTTTT-AGAGTTCGAATATTAA
1 TAATATCTTTTTAAGAGTTCGAATATTAA
152095 TGAATAACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.10
31 9 0.18
32 26 0.52
33 5 0.10
34 3 0.06
35 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (33 bp):
TAATATCTTTTTAAGAGTTCGAATATTAAAAGA
Found at i:159563 original size:30 final size:30
Alignment explanation
Indices: 159529--159589 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
159519 TACAGTCCTT
159529 CAACATTTAGTCTATTTGCAATATGGTCCC
1 CAACATTTAGTCTATTTGCAATATGGTCCC
* *
159559 CAACATTTAGTGTGTTTGCAATATGGTCCC
1 CAACATTTAGTCTATTTGCAATATGGTCCC
159589 C
1 C
159590 GACCGTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (30 bp):
CAACATTTAGTCTATTTGCAATATGGTCCC
Found at i:161556 original size:31 final size:31
Alignment explanation
Indices: 161521--161585 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
161511 CAAATGGTCA
*
161521 GGGACCATATTGCAAACA-TACTAAATGTTGG
1 GGGACCATATTGCAAA-AGAACTAAATGTTGG
*
161552 GGGACCATTTTGCAAAAGAACTAAATGTTGG
1 GGGACCATATTGCAAAAGAACTAAATGTTGG
161583 GGG
1 GGG
161586 GACTGTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (31 bp):
GGGACCATATTGCAAAAGAACTAAATGTTGG
Found at i:178449 original size:20 final size:20
Alignment explanation
Indices: 178424--178461 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
178414 TTTTGGTGCA
*
178424 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
178444 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
178462 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:180496 original size:17 final size:17
Alignment explanation
Indices: 180463--180496 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
180453 TTGAATATTT
* *
180463 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
180480 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
180497 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:182882 original size:34 final size:35
Alignment explanation
Indices: 182815--182888 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
182805 GAAATTTTAG
182815 GAATTGATTAGCTGTTAAAGATAAGGCCCGAA-TT
1 GAATTGATTAGCTGTTAAAGATAAGGCCCGAATTT
** **
182849 GAATTGATTAGCTGTTGGAGATAAGGCTGGAATTT
1 GAATTGATTAGCTGTTAAAGATAAGGCCCGAATTT
182884 GAATT
1 GAATT
182889 TTAAACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 28 0.80
35 7 0.20
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (35 bp):
GAATTGATTAGCTGTTAAAGATAAGGCCCGAATTT
Found at i:198591 original size:3 final size:3
Alignment explanation
Indices: 198583--198607 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
198573 TGCTCCTTAA
198583 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
198608 TACTATGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:221224 original size:18 final size:18
Alignment explanation
Indices: 221197--221241 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
221187 GAAATATTCT
221197 TTTTACTTTA-TTCCTTTA
1 TTTTACTTTATTTCC-TTA
*
221215 TTTTATTTTATTTCCTTA
1 TTTTACTTTATTTCCTTA
221233 TTTTTACTT
1 -TTTTACTT
221242 CTCTCTCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTACTTTATTTCCTTA
Found at i:229512 original size:15 final size:16
Alignment explanation
Indices: 229483--229514 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
229473 CGATTTGAAT
229483 TTTTGATATCCTAAAA
1 TTTTGATATCCTAAAA
229499 TTTTGATA-CCTAAAA
1 TTTTGATATCCTAAAA
229514 T
1 T
229515 AATGATCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTTGATATCCTAAAA
Found at i:232870 original size:23 final size:23
Alignment explanation
Indices: 232857--232900 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
232847 TTCTTTCCTT
232857 TTTACTTTTAATTTACTTAATTG
1 TTTACTTTTAATTTACTTAATTG
232880 TTTACTTTTAATTTACTTAAT
1 TTTACTTTTAATTTACTTAAT
232901 GCAGCTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTACTTTTAATTTACTTAATTG
Found at i:234561 original size:54 final size:53
Alignment explanation
Indices: 234495--234972 Score: 618
Period size: 54 Copynumber: 8.8 Consensus size: 53
234485 AATACGGTCA
* * *** *
234495 TTCAT-AACCATATTATGAATTCTGTGGGTTTCACACATAGTGTAGAAATGGTTA
1 TTCATCAA-CATATGATGAATT-TGTGGGTTGCACACATAGTGCCTAAATGGTTG
* *
234549 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGGCTG
1 TTCATCAACATATGATGAATTT-GTGGGTTGCACACATAGTGCCTAAATGGTTG
*
234603 TTCATCAACATATGATGAATTCTGTGGGTTGCACACATAATGCCTAAATGGTTG
1 TTCATCAACATATGATGAATT-TGTGGGTTGCACACATAGTGCCTAAATGGTTG
* * * *
234657 CTCATCAACATATGATGAATTTCGTGGGTTGCATAGATAGTGCCGAAATGGTTG
1 TTCATCAACATATGATGAATTT-GTGGGTTGCACACATAGTGCCTAAATGGTTG
*
234711 TTCATCGACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTAAATGGTTG
1 TTCATCAACATATGATGAATTT-GTGGGTTGCACACATAGTGCCTAAATGGTTG
* ** * *
234765 TTCATTAGTATATGATGAATTACGTGGGTTGCACACATAGTGCCTAAATGGTAG
1 TTCATCAACATATGATGAATT-TGTGGGTTGCACACATAGTGCCTAAATGGTTG
* * * *
234819 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGT-TCTGAAACGGTTA
1 TTCATCAACATATGATGAATT-TGTGGGTTGCACACATAGTGCCT-AAATGGTTG
* *
234873 TTCATCAACATATGATGAATTTTGTGGGCTGCACACATAGTGCCTAAACGGTTG
1 TTCATCAACATATGATGAA-TTTGTGGGTTGCACACATAGTGCCTAAATGGTTG
234927 TTCATCAACATATGATGAATTTCGTGGGTTGCACACATAGTGCCTA
1 TTCATCAACATATGATGAATTT-GTGGGTTGCACACATAGTGCCTA
234973 TAATACACAT
Statistics
Matches: 375, Mismatches: 40, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
53 7 0.02
54 361 0.96
55 7 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (53 bp):
TTCATCAACATATGATGAATTTGTGGGTTGCACACATAGTGCCTAAATGGTTG
Found at i:234780 original size:162 final size:162
Alignment explanation
Indices: 234503--234972 Score: 694
Period size: 162 Copynumber: 2.9 Consensus size: 162
234493 CATTCATAAC
* * *
234503 CATATTATGAA-TTCTGTGGGTTTCACACATAGTGTAGAAATGGTTATTCATCAACATATGATGA
1 CATATGATGAATTTC-GTGGGTTGCACACATAGTGCAGAAATGGTTATTCATCAACATATGATGA
*
234567 ATTTCGTGGGTTGCACACATAGTGCCTAAACGGCTGTTCATCAACATATGATGAATTCTGTGGGT
65 ATTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
* *
234632 TGCACACATAATGCCTAAATGGTTGCTCATCAA
130 TGCACACATAGTGCCTAAATGGTAGCTCATCAA
* * * * *
234665 CATATGATGAATTTCGTGGGTTGCATAGATAGTGCCGAAATGGTTGTTCATCGACATATGATGAA
1 CATATGATGAATTTCGTGGGTTGCACACATAGTGCAGAAATGGTTATTCATCAACATATGATGAA
* * **
234730 TTTCGTGGGTTGCACACATAGTGCCTAAATGGTTGTTCATTAGTATATGATGAATTAC-GTGGGT
66 TTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATT-CTGTGGGT
*
234794 TGCACACATAGTGCCTAAATGGTAGTTCATCAA
130 TGCACACATAGTGCCTAAATGGTAGCTCATCAA
* * * *
234827 CATATGATGAATTCCGTGGGTTGCACACATAGTTCTGAAACGGTTATTCATCAACATATGATGAA
1 CATATGATGAATTTCGTGGGTTGCACACATAGTGCAGAAATGGTTATTCATCAACATATGATGAA
* *
234892 TTTTGTGGGCTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATT-TCGTGGGT
66 TTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCT-GTGGGT
234956 TGCACACATAGTGCCTA
130 TGCACACATAGTGCCTA
234973 TAATACACAT
Statistics
Matches: 274, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
162 270 0.99
163 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (162 bp):
CATATGATGAATTTCGTGGGTTGCACACATAGTGCAGAAATGGTTATTCATCAACATATGATGAA
TTTCGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGTT
GCACACATAGTGCCTAAATGGTAGCTCATCAA
Found at i:239734 original size:20 final size:21
Alignment explanation
Indices: 239705--239785 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 21
239695 CCATAACTAA
*
239705 AAGGCATGAACGGAT-TCATT
1 AAGGCATGAAAGGATGTCATT
*
239725 AAGGCGTGAAAGGATGTCATAACT
1 AAGGCATGAAAGGATGTCAT---T
* *
239749 AAAATGCATGAATGGATG-CATT
1 --AAGGCATGAAAGGATGTCATT
*
239771 AAGGCATGATAGGAT
1 AAGGCATGAAAGGAT
239786 TCCATAACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
20 25 0.53
21 4 0.09
22 1 0.02
24 1 0.02
25 3 0.06
26 13 0.28
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.23
Consensus pattern (21 bp):
AAGGCATGAAAGGATGTCATT
Found at i:239771 original size:46 final size:46
Alignment explanation
Indices: 239696--239918 Score: 252
Period size: 46 Copynumber: 4.9 Consensus size: 46
239686 AAACAGAATC
* * *
239696 CATAACTAAAAGGCATGAACGGATTCATTAAGGCGTGAAAGGATGT
1 CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
* *
239742 CATAACTAAAATGCATGAATGGATGCATTAAGGCATGATAGGAT-T
1 CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
* * ** *
239787 CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAATTATGA
1 -CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
* * * *
239834 CATAACT-AAATGAATGAAAGGATGCATTAGGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
* * * * *
239879 CATGATTAAAATGCATGGACGGATGTATTAATGCATGAAA
1 CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAA
239919 AGTGACCATA
Statistics
Matches: 146, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
45 36 0.25
46 110 0.75
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.24
Consensus pattern (46 bp):
CATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
Found at i:239890 original size:91 final size:92
Alignment explanation
Indices: 239695--239943 Score: 277
Period size: 91 Copynumber: 2.7 Consensus size: 92
239685 TAAACAGAAT
* * ** * *
239695 CCATAACTAAAAGGCATGAACGGATTCATTAAGGCGTGAAAGGATGTCATAACTAAAATGCATGA
1 CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAAGGATGACATAACTAAAATGAATGA
* * *
239760 ATGGATGCATTAAGGCATGATAGGATT
66 AAGGATGCATTAAGGCATGAAAGGATG
**
239787 CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAATTATGACATAACT-AAATGAATGA
1 CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAAGGATGACATAACTAAAATGAATGA
*
239851 AAGGATGCATTAGGGCATGAAAGGATG
66 AAGGATGCATTAAGGCATGAAAGGATG
* * * ** * * * * *
239878 CCATGATTAAAATGCATGGACGGATGTATTAATGCATGAAAAG-TGACCATAACTGAAATTAATG
1 CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAAGGATGA-CATAACTAAAATGAATG
239942 AA
65 AA
239944 TAATTACTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
90 3 0.02
91 73 0.55
92 57 0.43
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (92 bp):
CCATAACTAAAATGCATGAACGGATACATTAAGGAATGAAAGGATGACATAACTAAAATGAATGA
AAGGATGCATTAAGGCATGAAAGGATG
Found at i:246329 original size:20 final size:20
Alignment explanation
Indices: 246258--246330 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
246248 TAACTAAAAT
* *
246258 GCATGAACGGGTGCATTAAG
1 GCATGAACAGATGCATTAAG
* *
246278 GCATGAAAAGATGCCATAGCTAAAAT
1 GCATGAACAGATG-CAT---T--AAG
246304 GCATGAACAGATGCATTAAG
1 GCATGAACAGATGCATTAAG
246324 GCATGAA
1 GCATGAA
246331 AGGATTCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
20 19 0.46
21 3 0.07
22 1 0.02
24 1 0.02
25 3 0.07
26 14 0.34
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (20 bp):
GCATGAACAGATGCATTAAG
Found at i:246406 original size:26 final size:26
Alignment explanation
Indices: 246236--246409 Score: 98
Period size: 26 Copynumber: 7.4 Consensus size: 26
246226 ATTAAGGCAG
*
246236 GAAAGGTTGCCATAACTAAAATGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
* * *
246262 GAACGGGTG-CAT---T--AAGGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
* *
246282 GAAAAGATGCCATAGCTAAAATGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
*
246308 GAACA-GATG-CAT---T--AAGGCAT
1 GAA-AGGATGCCATAACTAAAATGCAT
*
246328 GAAAGGATTCCATAACTAAAATGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
* * * *
246354 GAACGAATG---T-A-T-TAAGGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
246374 GAAAGGATGCCATAACTAAAATGCAT
1 GAAAGGATGCCATAACTAAAATGCAT
246400 GAAAGGATGC
1 GAAAGGATGC
246410 TTTAGGGCAT
Statistics
Matches: 109, Mismatches: 19, Indels: 40
0.65 0.11 0.24
Matches are distributed among these distances:
19 1 0.01
20 37 0.34
21 7 0.06
22 3 0.03
23 2 0.02
24 3 0.03
25 7 0.06
26 48 0.44
27 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (26 bp):
GAAAGGATGCCATAACTAAAATGCAT
Found at i:246454 original size:46 final size:46
Alignment explanation
Indices: 246153--246469 Score: 391
Period size: 46 Copynumber: 6.9 Consensus size: 46
246143 TAAACTGAAT
* * * * * *
246153 CCATAAGTAAAATGCATGAACGAATTCATTAAGGCAAGAATGGAAG
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* ** * *
246199 CCATAACTAAAATGCATGAACGAATTTATTAAGGCAGGAAAGGTTG
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* *
246245 CCATAACTAAAATGCATGAACGGGTGCATTAAGGCATGAAAAGATG
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * *
246291 CCATAGCTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATT
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* *
246337 CCATAACTAAAATGCATGAACGAATGTATTAAGGCATGAAAGGATG
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * *
246383 CCATAACTAAAATGCATGAAAGGATGCTTTAGGGCATGAAAGGATG
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* * * * * *
246429 CCATGATTAAAATGCATGAATGGATGTATTAATGCGTGAAA
1 CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAA
246470 AAAGACCATA
Statistics
Matches: 235, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 235 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
CCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
Found at i:257677 original size:20 final size:21
Alignment explanation
Indices: 257639--257677 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
257629 CATCAAGGTC
* *
257639 TTTGTTGAAGCCTTGAAATCT
1 TTTGTCGAAGCCATGAAATCT
257660 TTTGTCGAAGCCAT-AAAT
1 TTTGTCGAAGCCATGAAAT
257678 TTCTGTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Found at i:257820 original size:21 final size:20
Alignment explanation
Indices: 257783--257824 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
257773 ATTCTGAAAA
*
257783 TGTTGATGGTCTGAATTATTC
1 TGTTGATGGCCTGAATT-TTC
257804 TGTTG-TGGCCTGTAATTTTC
1 TGTTGATGGCCTG-AATTTTC
257824 T
1 T
257825 ACTTTATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.14, C:0.12, G:0.24, T:0.50
Consensus pattern (20 bp):
TGTTGATGGCCTGAATTTTC
Found at i:260878 original size:23 final size:20
Alignment explanation
Indices: 260850--260910 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
260840 CATCGGTCGA
260850 CCACCGGTCGGTCACTATTAT
1 CCACC-GTCGGTCACTATTAT
*
260871 GGCCACCGTCGATCACTATTTAT
1 --CCACCGTCGGTCACTA-TTAT
260894 -CACCGTCGGTCACTATT
1 CCACCGTCGGTCACTATT
260911 TCACGGTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
22 10 0.29
23 9 0.26
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.30
Consensus pattern (20 bp):
CCACCGTCGGTCACTATTAT
Found at i:261566 original size:3 final size:3
Alignment explanation
Indices: 261545--261633 Score: 81
Period size: 3 Copynumber: 30.0 Consensus size: 3
261535 GTCTGGTTTG
* * * * * *
261545 TAA TAC TAA TAA TAT TAA TAA TAA TAT TAT TAT TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
261593 TAT TGA TAA -AA TAA TAA TAA TAT TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
261634 AAAATGGGAA
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:262253 original size:21 final size:22
Alignment explanation
Indices: 262229--262269 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
262219 TAATGAGAAG
*
262229 TTGTGAGT-TTTATAATCTTGA
1 TTGTGAATATTTATAATCTTGA
*
262250 TTGTGAATATTTATTATCTT
1 TTGTGAATATTTATAATCTT
262270 ATGATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (22 bp):
TTGTGAATATTTATAATCTTGA
Found at i:262900 original size:14 final size:14
Alignment explanation
Indices: 262880--262915 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
262870 AAGATAAATT
262880 GAAAATAAAGAA-A
1 GAAAATAAAGAAGA
262893 GCAAAATAAAGAAGA
1 G-AAAATAAAGAAGA
262908 GAAAATAA
1 GAAAATAA
262916 GTAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.86
15 2 0.10
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (14 bp):
GAAAATAAAGAAGA
Found at i:263067 original size:26 final size:26
Alignment explanation
Indices: 263002--263088 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
262992 AAAAATAAGG
263002 ACAAAATAGAATAAGAT-AAATAGAGAA
1 ACAAAATA-AATAA-ATAAAATAGAGAA
263029 ACAAAGATAAATAAATAAAATACGAG-A
1 ACAAA-ATAAATAAATAAAATA-GAGAA
*
263056 ACAAAATCAATAAA-AAAATA-A-AA
1 ACAAAATAAATAAATAAAATAGAGAA
*
263079 ATAAAATAAA
1 ACAAAATAAA
263089 CAAAAATGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
23 10 0.19
25 6 0.11
26 10 0.19
27 21 0.40
28 6 0.11
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (26 bp):
ACAAAATAAATAAATAAAATAGAGAA
Found at i:263195 original size:16 final size:16
Alignment explanation
Indices: 263162--263206 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
263152 AAATATTAAG
*
263162 AAATAAAATAATATAT
1 AAATAAAATAACATAT
*
263178 ATATATAATATAACATAT
1 A-A-ATAAAATAACATAT
263196 AAATAAAATAA
1 AAATAAAATAA
263207 ATAATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAAAATAACATAT
Found at i:263264 original size:3 final size:3
Alignment explanation
Indices: 263258--263282 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
263248 AAAAAACTAA
263258 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
263283 TAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:268155 original size:262 final size:258
Alignment explanation
Indices: 267678--268198 Score: 900
Period size: 262 Copynumber: 2.0 Consensus size: 258
267668 GATGTTTAAA
267678 TGCTTCTGAAACTTTCTTTTATATTTATTTCTAAAAATATGGGTAGAACCCACTGTTACATCACT
1 TGCTTCTGAAACTTTCTTTTATATTTATTTCTAAAAATATGGGTAGAACCCACTGTTACATCACT
* * * *
267743 TTTTTCGTTATCACGAAATCCCCCTCCTCGAATTGTTGCCTCTTCATTTGATATTGTTTTTTCAT
66 TTGTTCGTTACCACGAAATCCCCCTCCTCGAATGGTTGCCTCTTCATTTGATACTGTTTTTTCAT
*
267808 CACCAAGCACCCCCTGATCGTGAATTTTCTTTGTTGCTCACTGTTGGTCGAATCGTTCCCCTTTT
131 CACCAAGCACCCCCTGATCATGAATTTTCTTTGTTGCTCACTGTTGGTCGAATCGTTCCCCTTTT
267873 TTGTTGTTGAAAACCGAGAGCCCTCGCTCTTGTGTTTGTGATATTTTTTCTGGTT-TTTTTTT
196 TTGTTGTTGAAAACCGAGAGCCCTCGCTCTTGTGTTTGTGATATTTTTTCTGGTTCTTTTTTT
*
267935 TGCTTCTGAAACTTTCTTTTATATTTATTTCTAAAAATATGGGTAGAACCCACTGTTACATCGCT
1 TGCTTCTGAAACTTTCTTTTATATTTATTTCTAAAAATATGGGTAGAACCCACTGTTACATCACT
268000 TTGTTCGTTACCACGAAATCCCCCTTGATTCCTCGAATGGTTGCCTCTTCATTTGATACTGTTTT
66 TTGTTCGTTACCACGAAATCCCCC-----TCCTCGAATGGTTGCCTCTTCATTTGATACTGTTTT
268065 TTCATCACCAAGCACCCCCTGATCATGAATTTTCTTTGTTGCTCACTGTTGGTCGAATCGTTCCC
126 TTCATCACCAAGCACCCCCTGATCATGAATTTTCTTTGTTGCTCACTGTTGGTCGAATCGTTCCC
* * * *
268130 CTTTTTTTTTTTTTAAAATCGAGAGCCCTCGCTCTTGTGTTTGTGATATTTTTTCTGGTTCTTTT
191 CTTTTTTGTTGTTGAAAACCGAGAGCCCTCGCTCTTGTGTTTGTGATATTTTTTCTGGTTCTTTT
268195 TTT
256 TTT
268198 T
1 T
268199 TTCAATATGT
Statistics
Matches: 248, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
257 86 0.35
262 154 0.62
263 8 0.03
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.45
Consensus pattern (258 bp):
TGCTTCTGAAACTTTCTTTTATATTTATTTCTAAAAATATGGGTAGAACCCACTGTTACATCACT
TTGTTCGTTACCACGAAATCCCCCTCCTCGAATGGTTGCCTCTTCATTTGATACTGTTTTTTCAT
CACCAAGCACCCCCTGATCATGAATTTTCTTTGTTGCTCACTGTTGGTCGAATCGTTCCCCTTTT
TTGTTGTTGAAAACCGAGAGCCCTCGCTCTTGTGTTTGTGATATTTTTTCTGGTTCTTTTTTT
Found at i:269398 original size:129 final size:129
Alignment explanation
Indices: 268942--269450 Score: 465
Period size: 129 Copynumber: 4.0 Consensus size: 129
268932 GATTTGGAAA
* * * * *
268942 ATGACACTGCTCATACGTGATGAAGAGTTCGGGTCGTCTAAGGGTGATAACACGGTTCCTAAGTG
1 ATGACACTGCTCATACGTGATGAAGAGTTCAGGCCATCTAAGGGTGATAACACGATTCCTACGTG
* * * * * * *
269007 ATAAGGACGGTTGGTTTTC-TAGGTTGACATGGCTCATACATAATAAGGAAATCTAGTCGGGTG
66 ATGAGGACGGTTGGTTATCAAAGGTTGACACGGCTCCTACATAATGAGGAAATCTGGTCGGGTG
* * * * *
269070 ATGACA-TGGCTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGACTCATACGT
1 ATGACACT-GCTCATACGTGATGAAGAGTTCAGGCCATCTAAGGGTGATAACACGATTCCTACGT
* * * * * * * *
269134 GATGA-AAAGTTCTGGTTATCAATGATTGACACGGCTCCTACATAATGAGGAGATCAGGTCGAGT
65 GATGAGGACGGT-TGGTTATCAAAGGTTGACACGGCTCCTACATAATGAGGAAATCTGGTCGGGT
269198 G
129 G
* * * *** **
269199 ATGACACAGTTCCTACGTGATGAAGACAACATACCATCTATA-GGTGATAACACGATTCCTACGT
1 ATGACACTGCTCATACGTGATGAAGAGTTCAGGCCATCTA-AGGGTGATAACACGATTCCTACGT
* *** * *
269263 GATGAGGACGGTTGGTTATCAAAGGTTGACACGGTTCCTACGCGATGAGGACAGCTGGTCGGGTG
65 GATGAGGACGGTTGGTTATCAAAGGTTGACACGGCTCCTACATAATGAGGAAATCTGGTCGGGTG
* * *
269328 ATGACACTGTTCCTACGTGATGAGGACG-TCAGGCCATCTAAGGGTGATAACAC-AGTTCCTACG
1 ATGACACTGCTCATACGTGATGAAGA-GTTCAGGCCATCTAAGGGTGATAACACGA-TTCCTACG
* ** * ** * * *
269391 TGATGAGGATGACTGGCTATC-TGGGGTGACACGGTTCCTACATGATGAGGAAATCTGGTC
64 TGATGAGGACGGTTGGTTATCAAAGGTTGACACGGCTCCTACATAATGAGGAAATCTGGTC
269451 AGTGGATGAC
Statistics
Matches: 306, Mismatches: 66, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
127 4 0.01
128 98 0.32
129 200 0.65
130 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (129 bp):
ATGACACTGCTCATACGTGATGAAGAGTTCAGGCCATCTAAGGGTGATAACACGATTCCTACGTG
ATGAGGACGGTTGGTTATCAAAGGTTGACACGGCTCCTACATAATGAGGAAATCTGGTCGGGTG
Found at i:270768 original size:28 final size:28
Alignment explanation
Indices: 270727--270784 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
270717 CCAACCTTTT
* *
270727 CATGCTGATGTGAGCCTTCAAGATGCCC
1 CATGCTAATATGAGCCTTCAAGATGCCC
*
270755 CATGCTAATATGAGCTTTCAAGATGCCC
1 CATGCTAATATGAGCCTTCAAGATGCCC
270783 CA
1 CA
270785 CATGGATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
CATGCTAATATGAGCCTTCAAGATGCCC
Found at i:272240 original size:1 final size:1
Alignment explanation
Indices: 272231--272319 Score: 79
Period size: 1 Copynumber: 89.0 Consensus size: 1
272221 TCATCGTTTG
* * * * * * * * *
272231 TTTTCTTTTTTTTTTTTTTTCTTTTCTCTTTTTTCTTTTTTCTTTTTTCTTTTTTTTCTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
272296 TTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
272320 CTGATGGATG
Statistics
Matches: 66, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:272248 original size:14 final size:14
Alignment explanation
Indices: 272238--272319 Score: 101
Period size: 14 Copynumber: 5.6 Consensus size: 14
272228 TTGTTTTCTT
272238 TTTTTTTTTTTTTC
1 TTTTTTTTTTTTTC
* *
272252 TTTTCTCTTTTTTC
1 TTTTTTTTTTTTTC
*
272266 TTTTTTCTTTTTTC
1 TTTTTTTTTTTTTC
272280 TTTTTTTTCTTTTTTC
1 -TTTTTTT-TTTTTTC
272296 TTTTTTCTTTTTTTTC
1 -TTTTT-TTTTTTTTC
272312 TTTTTTTT
1 TTTTTTTT
272320 CTGATGGATG
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
14 28 0.46
15 11 0.18
16 20 0.33
17 2 0.03
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTTTTC
Found at i:272260 original size:23 final size:23
Alignment explanation
Indices: 272231--272317 Score: 142
Period size: 23 Copynumber: 3.9 Consensus size: 23
272221 TCATCGTTTG
*
272231 TTTTCTTTTTTTT-TTTTTT-TC
1 TTTTCTTTTTTTTCTTTTTTCTT
*
272252 TTTTCTCTTTTTTCTTTTTTCTT
1 TTTTCTTTTTTTTCTTTTTTCTT
272275 TTTTCTTTTTTTTCTTTTTTCTT
1 TTTTCTTTTTTTTCTTTTTTCTT
272298 TTTTCTTTTTTTTCTTTTTT
1 TTTTCTTTTTTTTCTTTTTT
272318 TTCTGATGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 12 0.20
22 6 0.10
23 43 0.70
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTCTTTTTTTTCTTTTTTCTT
Done.