Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003857.1 Hibiscus syriacus cultivar Beakdansim tig00008291_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: 276966
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:2801 original size:30 final size:30
Alignment explanation
Indices: 2767--2878 Score: 134
Period size: 30 Copynumber: 3.7 Consensus size: 30
2757 GCTAAACAAT
* *
2767 AATACATAAAGTTAAAGGACCAAAATAGCA
1 AATACATAAACTTAAAGGACTAAAATAGCA
*
2797 AATACAAAAACTTAAAGGACTAAAATAGCTA
1 AATACATAAACTTAAAGGACTAAAATAGC-A
* * * * *
2828 AAAATAGAAAGTTAAAGGACTAAAATAGAA
1 AATACATAAACTTAAAGGACTAAAATAGCA
*
2858 AATACATAAACTTAAAAGACT
1 AATACATAAACTTAAAGGACT
2879 CAACCATTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
30 43 0.63
31 25 0.37
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.19
Consensus pattern (30 bp):
AATACATAAACTTAAAGGACTAAAATAGCA
Found at i:3168 original size:107 final size:106
Alignment explanation
Indices: 2982--3191 Score: 357
Period size: 107 Copynumber: 2.0 Consensus size: 106
2972 TGAAATAAAA
* *
2982 AACAAATAAAGATTACAAACCAAAATACAATGGTCAAAATGAGAGTTCCTGAGAATTACAAGGAC
1 AACAAATAAAGATTACAAACCAAAATACAATGGTCAAAATGAGAGTACCTGAAAATTACAAGGAC
*
3047 TAACATGATAATAACAACAACAACTAAAAGGGCTACACATTT
66 TAAAATGATAATAACAACAACAA-TAAAAGGGCTACACATTT
*
3089 AACAAATGAAGATTACAAACCAAAATACAATGGTCAAAATGAGAGTACCTGAAAATTACAAGGAC
1 AACAAATAAAGATTACAAACCAAAATACAATGGTCAAAATGAGAGTACCTGAAAATTACAAGGAC
* *
3154 TAAAATGATAATAACAACAATAATTAAAGGGCTACACA
66 TAAAATGATAATAACAACAACAATAAAAGGGCTACACA
3192 GTAATTACAA
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
106 14 0.14
107 83 0.86
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.19
Consensus pattern (106 bp):
AACAAATAAAGATTACAAACCAAAATACAATGGTCAAAATGAGAGTACCTGAAAATTACAAGGAC
TAAAATGATAATAACAACAACAATAAAAGGGCTACACATTT
Found at i:4550 original size:21 final size:21
Alignment explanation
Indices: 4524--4564 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4514 ATATATGATT
*
4524 TAATAAAAAATATAATAATAA
1 TAATAAAAAATAAAATAATAA
*
4545 TAATAATAAATAAAATAATA
1 TAATAAAAAATAAAATAATA
4565 TTTTTTGTAG
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATAAAAAATAAAATAATAA
Found at i:4827 original size:2 final size:2
Alignment explanation
Indices: 4820--4847 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4810 AGTGAAAAAT
4820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4848 GAATATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7297 original size:2 final size:2
Alignment explanation
Indices: 7292--7318 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7282 AACTTAAAAT
7292 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 T
7319 TAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20022 original size:20 final size:19
Alignment explanation
Indices: 19995--20055 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
19985 CATTTTGGTG
19995 CAGAGGGAATCGATACCCC
1 CAGAGGGAATCGATACCCC
* *
20014 CATGAGGGAACCGATTCTCCC
1 CA-GAGGGAATCGATAC-CCC
*
20035 CACAGGGGAATCGATACCCC
1 CAGA-GGGAATCGATACCCC
20055 C
1 C
20056 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 15 0.44
ACGTcount: A:0.28, C:0.34, G:0.25, T:0.13
Consensus pattern (19 bp):
CAGAGGGAATCGATACCCC
Found at i:26406 original size:23 final size:23
Alignment explanation
Indices: 26364--26439 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
26354 CAGAGAGAAT
*
26364 CGATACCCCC-TTGAAGGGGAAC
1 CGATTCCCCCTTTGAAGGGGAAC
* *
26386 CGATTCGCCCTTTGAATGGGAAC
1 CGATTCCCCCTTTGAAGGGGAAC
*
26409 CGATTCCCCCTTT--AGGGGAAT
1 CGATTCCCCCTTTGAAGGGGAAC
*
26430 CGATACCCCC
1 CGATTCCCCC
26440 CAAGGGTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 15 0.33
22 8 0.17
23 23 0.50
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (23 bp):
CGATTCCCCCTTTGAAGGGGAAC
Found at i:27160 original size:21 final size:22
Alignment explanation
Indices: 27125--27167 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27115 AAACCCTCCT
*
27125 CCAAATCCTCCTCCT-ATCCCA
1 CCAAATCCTACTCCTAATCCCA
*
27146 CCAAATCCTATTCCTAATCCCA
1 CCAAATCCTACTCCTAATCCCA
27168 TTGATCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.26
Consensus pattern (22 bp):
CCAAATCCTACTCCTAATCCCA
Found at i:28648 original size:12 final size:12
Alignment explanation
Indices: 28631--28657 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28621 TAAAGGGGAG
28631 AAGTGTTAGAGT
1 AAGTGTTAGAGT
28643 AAGTGTTAGAGT
1 AAGTGTTAGAGT
28655 AAG
1 AAG
28658 GGGGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (12 bp):
AAGTGTTAGAGT
Found at i:29800 original size:31 final size:32
Alignment explanation
Indices: 29751--29852 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 32
29741 TTAACTCAAC
* * **
29751 ATGATTTAATCATTATTAAAT-TTTAAATTTA
1 ATGATTTAATAATAATTAAATAGATAAATTTA
* *
29782 ATGATTTGATAATAATT-AATAGATAACTTTA
1 ATGATTTAATAATAATTAAATAGATAAATTTA
* *
29813 ATGATTTAATAATAATT-AGTAGTTAAATTTA
1 ATGATTTAATAATAATTAAATAGATAAATTTA
*
29844 ATAATTTAA
1 ATGATTTAA
29853 CTTTAATGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 3 0.05
31 56 0.95
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (32 bp):
ATGATTTAATAATAATTAAATAGATAAATTTA
Found at i:29854 original size:45 final size:45
Alignment explanation
Indices: 29805--30005 Score: 207
Period size: 45 Copynumber: 4.5 Consensus size: 45
29795 AATTAATAGA
*
29805 TAACTTTAATGATTTAATAATAATTAGTAGTTAAATTTAATAATT
1 TAACTTTAATAATTTAATAATAATTAGTAGTTAAATTTAATAATT
* * * * * *
29850 TAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAATGATT
1 TAACTTTAATAATTTAATAATAATTAGTAGTTAAATTTAATAATT
* *
29895 TAACTTTAATAATTTAATAATAATTAGTAGTTAACTTTAATGATT
1 TAACTTTAATAATTTAATAATAATTAGTAGTTAAATTTAATAATT
* * * *
29940 TAA-TAATAATAATTTAACT-TTAA-T-G-A-TTTAATAATAATAATT
1 TAACT-TTAATAATTTAA-TAATAATTAGTAGTTAAAT-TTAATAATT
*
29982 TAACTTTAATTATTTAATAATAAT
1 TAACTTTAATAATTTAATAATAAT
30006 AATTTAATAA
Statistics
Matches: 132, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.04
42 24 0.18
43 2 0.02
44 2 0.02
45 98 0.74
46 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (45 bp):
TAACTTTAATAATTTAATAATAATTAGTAGTTAAATTTAATAATT
Found at i:29857 original size:14 final size:14
Alignment explanation
Indices: 29835--30012 Score: 105
Period size: 14 Copynumber: 12.3 Consensus size: 14
29825 TAATTAGTAG
*
29835 TTAAATTTAATAAT
1 TTAACTTTAATAAT
*
29849 TTAACTTTAATGAT
1 TTAACTTTAATAAT
* *
29863 TTGATACTAATT-ATTAG
1 TT-A-ACT--TTAATAAT
*
29880 TTAACTTTAATGAT
1 TTAACTTTAATAAT
29894 TTAACTTTAATAAT
1 TTAACTTTAATAAT
* *
29908 TTAA-TAATAATTAGTAG
1 TTAACT-TTAA-TA--AT
*
29925 TTAACTTTAATGAT
1 TTAACTTTAATAAT
*
29939 TTAA-TAATAATAAT
1 TTAACT-TTAATAAT
*
29953 TTAACTTTAATGAT
1 TTAACTTTAATAAT
*
29967 TTAA-TAATAATAAT
1 TTAACT-TTAATAAT
*
29981 TTAACTTTAATTAT
1 TTAACTTTAATAAT
*
29995 TTAA-TAATAATAAT
1 TTAACT-TTAATAAT
30009 TTAA
1 TTAA
30013 TAATAGTAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
13 6 0.05
14 92 0.72
15 8 0.06
16 5 0.04
17 13 0.10
18 3 0.02
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (14 bp):
TTAACTTTAATAAT
Found at i:29859 original size:76 final size:73
Alignment explanation
Indices: 29754--29977 Score: 242
Period size: 76 Copynumber: 3.0 Consensus size: 73
29744 ACTCAACATG
* * * *
29754 ATTTAATCATTATTAA-ATTTTAAATTTAATGATTTGATAATAATTAATAGATAACTTTAATGAT
1 ATTTAATAATAATTAATA-TTTAACTTTAATGATTTGATAATAATTAATAGTTAACTTTAATGAT
29818 TTAATAATA
65 TTAATAATA
* * * *
29827 ATTAGTAGTTAA-ATTTAATAATTTAACTTTAATGATTTGATACTAATTATTAGTTAACTTTAAT
1 ATT--TA-ATAATAATTAAT-ATTTAACTTTAATGATTTGATAATAATTAATAGTTAACTTTAAT
29891 GATTTAACTTTAATA
62 GATTTAA---TAATA
* * *
29906 ATTTAATAATAATTAGTAGTTAACTTTAATGATTTAATAATAA-TAAT--TTAACTTTAATGATT
1 ATTTAATAATAATTAATATTTAACTTTAATGATTTGATAATAATTAATAGTTAACTTTAATGATT
29968 TAATAATA
66 TAATAATA
29976 AT
1 AT
29978 AATTTAACTT
Statistics
Matches: 127, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
70 7 0.06
73 21 0.17
75 9 0.07
76 74 0.58
77 8 0.06
79 8 0.06
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (73 bp):
ATTTAATAATAATTAATATTTAACTTTAATGATTTGATAATAATTAATAGTTAACTTTAATGATT
TAATAATA
Found at i:29932 original size:31 final size:28
Alignment explanation
Indices: 29887--30012 Score: 189
Period size: 28 Copynumber: 4.4 Consensus size: 28
29877 TAGTTAACTT
* *
29887 TAATGATTTAACTTTAATAATTTAATAA
1 TAATAATTTAACTTTAATGATTTAATAA
*
29915 TAATTAGTAGTTAACTTTAATGATTTAATAA
1 TAA-TA--ATTTAACTTTAATGATTTAATAA
29946 TAATAATTTAACTTTAATGATTTAATAA
1 TAATAATTTAACTTTAATGATTTAATAA
*
29974 TAATAATTTAACTTTAATTATTTAATAA
1 TAATAATTTAACTTTAATGATTTAATAA
30002 TAATAATTTAA
1 TAATAATTTAA
30013 TAATAGTAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
28 63 0.70
29 1 0.01
30 2 0.02
31 24 0.27
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (28 bp):
TAATAATTTAACTTTAATGATTTAATAA
Found at i:30002 original size:11 final size:13
Alignment explanation
Indices: 29937--30022 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 13
29927 AACTTTAATG
29937 ATTTAATAATAATA
1 ATTTAATAAT-ATA
* *
29951 ATTTAACT-TTAATG
1 ATTTAA-TAAT-ATA
29965 ATTTAATAATAATA
1 ATTTAATAAT-ATA
29979 ATTTAACTTTAAT-T-
1 ATTTAA---TAATATA
29993 ATTTAATAATAATA
1 ATTTAATAAT-ATA
30007 ATTTAATAATAGTA
1 ATTTAATAATA-TA
30021 AT
1 AT
30023 AATATTCGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.07
13 3 0.05
14 46 0.78
15 2 0.03
17 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTAATAATATA
Found at i:33059 original size:21 final size:21
Alignment explanation
Indices: 33033--33077 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33023 GATTTCTGGG
* *
33033 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
33054 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
33075 CAA
1 CAA
33078 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:34464 original size:148 final size:149
Alignment explanation
Indices: 34192--34495 Score: 583
Period size: 148 Copynumber: 2.0 Consensus size: 149
34182 AGAGTCGAGG
34192 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
*
34257 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
34322 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
34341 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGAC-CA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
34405 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
34470 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
34489 TTCTACG
1 GTCTACG
34496 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
148 91 0.59
149 62 0.41
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:34518 original size:23 final size:23
Alignment explanation
Indices: 34474--34518 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
34464 ATCATTATAT
*
34474 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* * *
34497 GGCACTTCGGTTCATTTATACG
1 GGCACTACGGTGCAATTATACG
34519 AGATGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:37804 original size:21 final size:21
Alignment explanation
Indices: 37778--37822 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
37768 GATTTCTGGG
* *
37778 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
37799 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
37820 CAA
1 CAA
37823 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:38274 original size:2 final size:2
Alignment explanation
Indices: 38260--38301 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
38250 AAGTATGTGC
*
38260 TA TA TA -A TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38301 T
1 T
38302 GTGAAACTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39136 original size:149 final size:149
Alignment explanation
Indices: 38956--39260 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
38946 AGAGTCGAGG
38956 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
*
39021 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
39086 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
39105 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
39170 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
39235 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
39254 TTCTACG
1 GTCTACG
39261 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:39283 original size:23 final size:23
Alignment explanation
Indices: 39239--39283 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
39229 ATCATTATAT
*
39239 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* * *
39262 GGCACTTCGGTTCATTTATACG
1 GGCACTACGGTGCAATTATACG
39284 AGATGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:40601 original size:23 final size:23
Alignment explanation
Indices: 40574--40682 Score: 157
Period size: 23 Copynumber: 4.8 Consensus size: 23
40564 TTGCATGATA
*
40574 CAGACGTGCAGGCCCCCCACATA
1 CAGACGTGCAGGCCCCCCACATG
*
40597 CAGACGTGCAGGCCCCCTACATG
1 CAGACGTGCAGGCCCCCCACATG
* * * *
40620 CAGATGTGTAAGCCCCCTACATG
1 CAGACGTGCAGGCCCCCCACATG
40643 CAGACGTGCAGGCCCCCCACATG
1 CAGACGTGCAGGCCCCCCACATG
40666 CAGACGTGCA-GCCCCCC
1 CAGACGTGCAGGCCCCCC
40683 TGCTTAACCC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
22 7 0.09
23 70 0.91
ACGTcount: A:0.23, C:0.41, G:0.24, T:0.12
Consensus pattern (23 bp):
CAGACGTGCAGGCCCCCCACATG
Found at i:41220 original size:60 final size:59
Alignment explanation
Indices: 41124--41297 Score: 231
Period size: 60 Copynumber: 2.9 Consensus size: 59
41114 AGTTCCCCGC
* * * *
41124 ATTATTGGATGATACTTTGTTGAGTCCTTCGACTATTAAAAGTTATAAAATGGTCCCCTA
1 ATTATAGGATGTTGCTTTGTTGAGT-CTTCGACTATTAAAAGTTATAAAATGGTCCCCCA
* * *
41184 ATTATAGGATGTTGCTTTGTTGAGTCATTCGGCTATTAAAAGTTACAAAATGATCCCCCA
1 ATTATAGGATGTTGCTTTGTTGAGTC-TTCGACTATTAAAAGTTATAAAATGGTCCCCCA
* * *
41244 ACTATAGGGTGTTGCTTTGTTGAGTCTCCCGACTATTAAAAGTTATAAAATGGT
1 ATTATAGGATGTTGCTTTGTTGAGTCT-TCGACTATTAAAAGTTATAAAATGGT
41298 AACCCCACTA
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.02
60 97 0.98
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (59 bp):
ATTATAGGATGTTGCTTTGTTGAGTCTTCGACTATTAAAAGTTATAAAATGGTCCCCCA
Found at i:42597 original size:11 final size:11
Alignment explanation
Indices: 42583--42608 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42573 TAAATTTTTT
42583 TTAAGTTATGG
1 TTAAGTTATGG
42594 TTAAGTTATGG
1 TTAAGTTATGG
42605 TTAA
1 TTAA
42609 CAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (11 bp):
TTAAGTTATGG
Found at i:66521 original size:80 final size:80
Alignment explanation
Indices: 66388--66552 Score: 303
Period size: 80 Copynumber: 2.1 Consensus size: 80
66378 TTATGAGAAA
* *
66388 GAAGTCGTTTTAAAATTAAATATAAGATTAGTGATGCGTTGTATAATGTCAATGCATTAGAGTGC
1 GAAGTCATTTTAAAATTAAATATAAGATTAGTGATGCGTTGTATAATATCAATGCATTAGAGTGC
66453 AAGCATATACGTAAC
66 AAGCATATACGTAAC
66468 GAAGTCATTTTAAAATTAAATATAAGATTAGTGATGCGTTGTATAATATCAATGCATTAGAGTGC
1 GAAGTCATTTTAAAATTAAATATAAGATTAGTGATGCGTTGTATAATATCAATGCATTAGAGTGC
*
66533 AAGCATATACGTAAT
66 AAGCATATACGTAAC
66548 GAAGT
1 GAAGT
66553 GTCATGCATG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (80 bp):
GAAGTCATTTTAAAATTAAATATAAGATTAGTGATGCGTTGTATAATATCAATGCATTAGAGTGC
AAGCATATACGTAAC
Found at i:75494 original size:13 final size:13
Alignment explanation
Indices: 75478--75502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75468 CATATAGTTT
75478 ATCCAATTCTGTA
1 ATCCAATTCTGTA
75491 ATCCAATTCTGT
1 ATCCAATTCTGT
75503 CGAACCTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
ATCCAATTCTGTA
Found at i:76253 original size:117 final size:118
Alignment explanation
Indices: 76104--76342 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
76094 CAGTTAAGAT
*
76104 AATTAAATTATAACTTTTTAAAAAGAGACTCATTATAACTGAACCAATAA-TTTGTGGCATTTAT
1 AATTAAATTATAACTTTTTAAAAAGAGACTCATTATAACTGAACCAATAATTTTGTGACATTTAT
*
76168 TTATAATGAGTCTATATAAAATCTGATCCGAATTAATCAATTAATAGATTGAA
66 TTATAATGAATCTATATAAAATCTGATCCGAATTAATCAATTAATAGATTGAA
** * *
76221 AATTAAATTATAACTTTTTAGGAAGAGACTCATTATAACTGAACCAATAATTTTGTGATATTTCT
1 AATTAAATTATAACTTTTTAAAAAGAGACTCATTATAACTGAACCAATAATTTTGTGACATTTAT
* * *
76286 TTATAATGAATCTTTATAAAATCTGATTCGAATTAATCATTTAATAGATTGAA
66 TTATAATGAATCTATATAAAATCTGATCCGAATTAATCAATTAATAGATTGAA
76339 AATT
1 AATT
76343 GAGGGCTATA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 48 0.43
118 64 0.57
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (118 bp):
AATTAAATTATAACTTTTTAAAAAGAGACTCATTATAACTGAACCAATAATTTTGTGACATTTAT
TTATAATGAATCTATATAAAATCTGATCCGAATTAATCAATTAATAGATTGAA
Found at i:78239 original size:104 final size:104
Alignment explanation
Indices: 78059--78267 Score: 391
Period size: 104 Copynumber: 2.0 Consensus size: 104
78049 TCTCTCTCAC
*
78059 ACACACACACATAGATACAACTAAAAGTCTAAAACAGACGCACACACATGTACCGCGTCTTTAGA
1 ACACACACACATAGATACAACTAAAAGTCTAAAACAGACGCACACACATGTACCACGTCTTTAGA
78124 AAGATTAAGCAAACACTTTTTATGTTCCTCAGGAAACAT
66 AAGATTAAGCAAACACTTTTTATGTTCCTCAGGAAACAT
78163 ACACACACACATAGATACAACTAAAAGTCTAAAACAGACGCACACACATGTACCACGTCTTTAGA
1 ACACACACACATAGATACAACTAAAAGTCTAAAACAGACGCACACACATGTACCACGTCTTTAGA
* *
78228 AAGATTAAGCAAGCACTTTTTTTGTTCCTCAGGAAACAT
66 AAGATTAAGCAAACACTTTTTATGTTCCTCAGGAAACAT
78267 A
1 A
78268 TCTAGCTTCT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (104 bp):
ACACACACACATAGATACAACTAAAAGTCTAAAACAGACGCACACACATGTACCACGTCTTTAGA
AAGATTAAGCAAACACTTTTTATGTTCCTCAGGAAACAT
Found at i:111500 original size:51 final size:51
Alignment explanation
Indices: 111423--111523 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
111413 CCTTCCTCTG
* * * **
111423 TGGATTCTAATGGACCCGCATTCTATTTTACTTTGTACATGTATTTTACTC
1 TGGATTCTAATGGACCCACATACTATTTAACTTTGTACATAAATTTTACTC
*
111474 TGGATTCTAATGGACCCATATACTATTTAACTTTGTACATAAATTTTACT
1 TGGATTCTAATGGACCCACATACTATTTAACTTTGTACATAAATTTTACT
111524 TTTTTTATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.44
Consensus pattern (51 bp):
TGGATTCTAATGGACCCACATACTATTTAACTTTGTACATAAATTTTACTC
Found at i:119867 original size:20 final size:20
Alignment explanation
Indices: 119842--119882 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
119832 AGGTGTAATT
119842 TACCCGTATTTATATTACTA
1 TACCCGTATTTATATTACTA
119862 TACCCGTATTTATATTACTA
1 TACCCGTATTTATATTACTA
119882 T
1 T
119883 TCTTTTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (20 bp):
TACCCGTATTTATATTACTA
Found at i:127297 original size:131 final size:131
Alignment explanation
Indices: 127097--127333 Score: 325
Period size: 131 Copynumber: 1.8 Consensus size: 131
127087 ATAATTGTAA
* * * * * *
127097 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACATTTCATGCCTTAAAACG
1 GAGAGAAAACGACAATATCAAATTATTTCCAATCGAGAATAAATGACATCTCATACCTTAAAACA
* * * * *
127162 ATCATTTATTACTCCA-ATCGGAATGAAGAGATATTATTATTTCGTCTTAAAATTCAATATTAAT
66 ATCATTTATCACT-CATACCGAAATGAAAAGATATTACTATTTCGTCTTAAAATTCAATATTAAT
127226 TC
130 TC
* *
127228 GAGAGAAAACGACAATATCAAATTATTTCCAAAT-GAGAATAAATGACCTCTCATACCTTAAATC
1 GAGAGAAAACGACAATATCAAATTATTTCC-AATCGAGAATAAATGACATCTCATACCTTAAAAC
127292 AATCATTTATCACTCATACCGAAATGAAAAGATATTACTATT
65 AATCATTTATCACTCATACCGAAATGAAAAGATATTACTATT
127334 CTCAATATCG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
130 2 0.02
131 86 0.95
132 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGACAATATCAAATTATTTCCAATCGAGAATAAATGACATCTCATACCTTAAAACA
ATCATTTATCACTCATACCGAAATGAAAAGATATTACTATTTCGTCTTAAAATTCAATATTAATT
C
Found at i:128272 original size:109 final size:109
Alignment explanation
Indices: 128170--128371 Score: 246
Period size: 109 Copynumber: 1.8 Consensus size: 109
128160 GCAAAACATG
* *
128170 CATAAATATACAGGGA-TCAAACAACAAATAATCCTAAAAATATATAACATGCATAA-AAATGGG
1 CATAAA-ATACAGGGACT-AAACAACAAATAAACC-AAAAATATATAACATGCATAAGAAATAGG
128233 TAAATAATAAAAACAATCCCTACAAGTGACTAACATGCAAAAACACA
63 TAAATAATAAAAACAATCCCTACAAGTGACTAACATGCAAAAACACA
* ** * * *
128280 CGTAAAATAGGGGGACTAAACAATAATTAAACCAAAAATATATAACATGCATAAGAAATATGTAA
1 CATAAAATACAGGGACTAAACAACAAATAAACCAAAAATATATAACATGCATAAGAAATAGGTAA
* * ** *
128345 ATTATAAAATCGGTCCCTACAGGTGAC
66 ATAATAAAAACAATCCCTACAAGTGAC
128372 CATTTTGCAA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
108 21 0.27
109 50 0.65
110 6 0.08
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (109 bp):
CATAAAATACAGGGACTAAACAACAAATAAACCAAAAATATATAACATGCATAAGAAATAGGTAA
ATAATAAAAACAATCCCTACAAGTGACTAACATGCAAAAACACA
Found at i:129119 original size:14 final size:14
Alignment explanation
Indices: 129100--129130 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
129090 TGCTTCGAAT
129100 GAGGAAGAAGGGAA
1 GAGGAAGAAGGGAA
129114 GAGGAAGAAGGGAA
1 GAGGAAGAAGGGAA
129128 GAG
1 GAG
129131 ATGAGTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (14 bp):
GAGGAAGAAGGGAA
Found at i:129545 original size:3 final size:3
Alignment explanation
Indices: 129537--129611 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
129527 ATTGGTACGC
129537 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
129585 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
129612 GCGGTTTGTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:129981 original size:134 final size:134
Alignment explanation
Indices: 129806--130224 Score: 533
Period size: 134 Copynumber: 3.1 Consensus size: 134
129796 CCACTATTCT
* * * * *
129806 TCAGGGAATATTAAATTGAGGTAGACTTGTTCTA-TAGTTACTTAGGGAATATCAAATGC-TGAA
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTA-TTACTCAGGGAATATCAAAT-CTTGAA
*
129869 AGAGAGGGATCTGTTTTACTTCTTCTTGAGGGAAAATCAGATATGGAGACATTGATTCATTCCAT
64 AGAGAGGGATCTGTTTTACTTCTTCTTGAGGGAAAATCAGATATGGGGACATTGATTCATTCCAT
129934 TGTTAC
129 TGTTAC
* * *
129940 TCAGGGAAGATTGAATCGAGGCAGATTTGTTCCACTATTACTCAGCGAATATCAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
* *** * * * *
130005 AGAGGGATATGTTCCGCTTCTT-TTCGAGGGAAAATCAGATCTGGGGACGTTGATTTATTCTATT
66 AGAGGGATCTGTTTTACTTCTTCTT-GAGGGAAAATCAGATATGGGGACATTGATTCATTCCATT
130069 GTTAC
130 GTTAC
*
130074 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTATTACTCAAGGAATATCAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
* * * * * *
130139 AGAGGCATC--TTTTCCGTTTTTTCCTGAGGGAAAATCAAATATGGGGACATTGATTCATTCCAC
66 AGAGGGATCTGTTTTAC--TTCTTCTTGAGGGAAAATCAGATATGGGGACATTGATTCATTCCAT
*
130202 TGTCAC
129 TGTTAC
130208 TCAGGGAAGATTGAATC
1 TCAGGGAAGATTGAATC
130225 TAGTTTGATT
Statistics
Matches: 244, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
132 3 0.01
133 3 0.01
134 235 0.96
135 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (134 bp):
TCAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
AGAGGGATCTGTTTTACTTCTTCTTGAGGGAAAATCAGATATGGGGACATTGATTCATTCCATTG
TTAC
Found at i:130661 original size:42 final size:42
Alignment explanation
Indices: 130544--130669 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 42
130534 AATCATGTGA
* *
130544 AAACATCATGCTCGAAGGACTTATGGATGGCCCGAAGGACTT
1 AAACATCATGCTCGAAAGACTTATAGATGGCCCGAAGGACTT
** * * * * *
130586 -ATTATCTTGCTCGAGAGGCTTATAGATGACCCGAAGGATTT
1 AAACATCATGCTCGAAAGACTTATAGATGGCCCGAAGGACTT
130627 AAACATCATGCTCGAAAGACTTACT-GATGGCCCGAAGGACTT
1 AAACATCATGCTCGAAAGACTTA-TAGATGGCCCGAAGGACTT
130669 A
1 A
130670 CCAAATTTGA
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
41 32 0.48
42 33 0.50
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
AAACATCATGCTCGAAAGACTTATAGATGGCCCGAAGGACTT
Found at i:131442 original size:233 final size:233
Alignment explanation
Indices: 131025--131445 Score: 646
Period size: 233 Copynumber: 1.8 Consensus size: 233
131015 ACATCATTCC
* * * *
131025 CGAATGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGAATTTAAGCATCATGCTCG
1 CGAAGGACTTATCATCTTACTCGAAAGACTTACAGATGACCCAAAGAATTTAAGCATCATGCTCA
* * *
131090 AAAGACTTACTGATTGCCTGAAGGACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAACTTT
66 AAAGACTTACAGATGGCCCGAAGGACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAACTTT
** * *
131155 TATTACTTTTCAGCAATTTCCATTTTTAGATTTAAATGAGAAACATTACTCATTTTTTGAGAGAC
131 TATTACTTTTCAAAAATGTCAATTTTTAGATTTAAATGAGAAACATTACTCATTTTTTGAGAGAC
131220 ATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCT
196 ATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCT
* *
131258 CGAAGGACTTATCATCTTACTTGAAAGACTTACAGATGACCCAAAGGATTTAAGCATCATGCTCA
1 CGAAGGACTTATCATCTTACTCGAAAGACTTACAGATGACCCAAAGAATTTAAGCATCATGCTCA
* ***
131323 AAAGACTTACAGATGGCCCGAAGGACTTACCGACTTTGGAAATAGTTTACTAGGTAA-ATTGTTT
66 AAAGACTTACAGATGGCCCGAAGGACTTACCAACTTTGGAAATAGTTTACTAGGTAAGA-AACTT
* * *
131387 TTCTTACTTTTCAAAAATGTCAATTTTTAGATTTAAATGAGAAACCTTTCTCATTTTTT
130 TTATTACTTTTCAAAAATGTCAATTTTTAGATTTAAATGAGAAACATTACTCATTTTTT
131446 AACTTATAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
232 1 0.01
233 166 0.99
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (233 bp):
CGAAGGACTTATCATCTTACTCGAAAGACTTACAGATGACCCAAAGAATTTAAGCATCATGCTCA
AAAGACTTACAGATGGCCCGAAGGACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAACTTT
TATTACTTTTCAAAAATGTCAATTTTTAGATTTAAATGAGAAACATTACTCATTTTTTGAGAGAC
ATGTGAAAACATCCTGCCCAAAGGTCTTATGGATGGCT
Found at i:132571 original size:3 final size:3
Alignment explanation
Indices: 132563--132638 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
132553 CATGCATTAA
* * * * * *
132563 AAT AAT AAT AAT ATT AAT ACT ACT ACT ACT ACT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
132611 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
132639 GTCTGGACGA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:146574 original size:18 final size:18
Alignment explanation
Indices: 146547--146601 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
146537 TACCATGAAA
* *
146547 AAGAATAAATTAAATTTT
1 AAGAAAAAATTAAAATTT
**
146565 AAGAAAAAATTAAAAAAT
1 AAGAAAAAATTAAAATTT
*
146583 AAG-AAAAATTAAAGTTT
1 AAGAAAAAATTAAAATTT
146600 AA
1 AA
146602 TCTGCAAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
AAGAAAAAATTAAAATTT
Found at i:150976 original size:22 final size:19
Alignment explanation
Indices: 150946--151002 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 19
150936 TTATAAAAAT
150946 TTTTATAAAATTTTAATTATA
1 TTTT-TAAAATTTTAA-TATA
*
150967 TTCTCTTAAAAATTTAATATA
1 TT-T-TTAAAATTTTAATATA
150988 TTTTTATAAATTTTA
1 TTTTTA-AAATTTTA
151003 TAAGATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 8 0.26
22 11 0.35
23 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAAAATTTTAATATA
Found at i:151295 original size:61 final size:61
Alignment explanation
Indices: 151224--151347 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
151214 TACTTGTCTT
151224 CTCTAAAAAATTATATAATTGATAATAATTTTAGATTCTACCGAAAATATCTCAATGATAA
1 CTCTAAAAAATTATATAATTGATAATAATTTTAGATTCTACCGAAAATATCTCAATGATAA
151285 CTCTAAAAAATTATATAATTGATAATAATTTTAGATTCTACCGAAAATATCTCAATGATAA
1 CTCTAAAAAATTATATAATTGATAATAATTTTAGATTCTACCGAAAATATCTCAATGATAA
151346 CT
1 CT
151348 TTTTGAGGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (61 bp):
CTCTAAAAAATTATATAATTGATAATAATTTTAGATTCTACCGAAAATATCTCAATGATAA
Found at i:151767 original size:29 final size:29
Alignment explanation
Indices: 151731--151824 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
151721 TACTTTATTT
* *
151731 AATATTATTTGTTTCAATATTATTATTAA
1 AATATTATTTATATCAATATTATTATTAA
*
151760 AATATTATTTATATCAATGTTATTATTAA
1 AATATTATTTATATCAATATTATTATTAA
* * *
151789 AATATTATTTATAT-AATTTTATAAATAAA
1 AATATTATTTATATCAATATTAT-TATTAA
151818 AATATTA
1 AATATTA
151825 ATACTTGTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.12
29 51 0.88
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
AATATTATTTATATCAATATTATTATTAA
Found at i:151771 original size:15 final size:15
Alignment explanation
Indices: 151731--151800 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 15
151721 TACTTTATTT
* **
151731 AATATTATTTGTTTC
1 AATATTATTTATTAA
151746 AATATTA-TTATTAA
1 AATATTATTTATTAA
*
151760 AATATTATTTA-TATC
1 AATATTATTTATTA-A
*
151775 AATGTTA-TTATTAA
1 AATATTATTTATTAA
151789 AATATTATTTAT
1 AATATTATTTAT
151801 ATAATTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
14 22 0.50
15 22 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (15 bp):
AATATTATTTATTAA
Found at i:151810 original size:14 final size:14
Alignment explanation
Indices: 151724--151810 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
151714 ATTAAAATAC
*
151724 TTTATTTAATATTA
1 TTTATATAATATTA
* *
151738 TTTGTTTCAATATTA
1 TTTATAT-AATATTA
*
151753 -TTATTAAAATATTA
1 TTTA-TATAATATTA
*
151767 TTTATATCAATGTTA
1 TTTATAT-AATATTA
*
151782 -TTATTAAAATATTA
1 TTTA-TATAATATTA
*
151796 TTTATATAATTTTA
1 TTTATATAATATTA
151810 T
1 T
151811 AAATAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 35 0.61
15 22 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTATATAATATTA
Found at i:151880 original size:37 final size:37
Alignment explanation
Indices: 151833--151917 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
151823 TAATACTTGT
151833 ATATTCTATTAAAATAAAAAAATTATAA-ATTATTTTAA
1 ATATT-TATTAAAATAAAAAAATTATAATA-TATTTTAA
* * *
151871 ATATTTATTAAAATAATAATATTATATTATATTTTAA
1 ATATTTATTAAAATAAAAAAATTATAATATATTTTAA
*
151908 A-AATTATTAA
1 ATATTTATTAA
151918 TAAATACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.19
37 28 0.67
38 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (37 bp):
ATATTTATTAAAATAAAAAAATTATAATATATTTTAA
Found at i:152070 original size:29 final size:29
Alignment explanation
Indices: 152037--152125 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
152027 ATTAATAATT
152037 TATTATATATTATTAAAATAAAATTATAA
1 TATTATATATTATTAAAATAAAATTATAA
* * * *
152066 TATTATATATCATTATAATATAATTA-AG
1 TATTATATATTATTAAAATAAAATTATAA
* *
152094 TA-TAT-TATTA-TAATATCAAAAATATAA
1 TATTATATATTATTAAAAT-AAAATTATAA
152121 TATTA
1 TATTA
152126 AATTTTTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
25 4 0.09
26 9 0.19
27 6 0.13
28 5 0.11
29 23 0.49
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (29 bp):
TATTATATATTATTAAAATAAAATTATAA
Found at i:152072 original size:52 final size:54
Alignment explanation
Indices: 152015--152133 Score: 120
Period size: 55 Copynumber: 2.2 Consensus size: 54
152005 TCTTTAAGTA
* * * *
152015 ATTATAAATTTTATTA-ATAATTTATTATA-TATTATTAAAAT-AAAATTATAAT
1 ATTATAAATTTTATAATATAATTAAGTATATTATTA-TAAAATCAAAAATATAAT
* * *
152067 ATTATATATCATTATAATATAATTAAGTATATTATTATAATATCAAAAATATAAT
1 ATTATAAAT-TTTATAATATAATTAAGTATATTATTATAAAATCAAAAATATAAT
*
152122 ATTA-AATTTTTA
1 ATTATAAATTTTA
152134 AAAATATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
52 8 0.15
53 8 0.15
54 18 0.34
55 19 0.36
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (54 bp):
ATTATAAATTTTATAATATAATTAAGTATATTATTATAAAATCAAAAATATAAT
Found at i:152158 original size:31 final size:32
Alignment explanation
Indices: 152105--152166 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
152095 ATATTATTAT
152105 AATATCAAAAATATAATATTAAAT-TTTTAAA
1 AATATCAAAAATATAATATTAAATATTTTAAA
* *
152136 AATATTAATAAATAT-ATTTTAAATATTTTAA
1 AATATCAA-AAATATAATATTAAATATTTTAA
152167 TAATTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (32 bp):
AATATCAAAAATATAATATTAAATATTTTAAA
Found at i:154521 original size:2 final size:2
Alignment explanation
Indices: 154514--154560 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
154504 TGAAATATGC
154514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
154556 AT AT A
1 AT AT A
154561 GAAACTTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:154726 original size:11 final size:11
Alignment explanation
Indices: 154687--154754 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
154677 TTGAATATTA
154687 TATTATAT-TC
1 TATTATATATC
* *
154697 AATT-TATTTC
1 TATTATATATC
154707 TA-TATTATATC
1 TATTA-TATATC
*
154718 TATTATATATA
1 TATTATATATC
154729 TATTATATAT-
1 TATTATATATC
*
154739 TATTATTATATA
1 TATTA-TATATC
154751 TATT
1 TATT
154755 TTTTATTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
9 4 0.08
10 11 0.23
11 27 0.56
12 6 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATATATC
Found at i:155042 original size:14 final size:14
Alignment explanation
Indices: 155025--155060 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
155015 AAAAGACAGA
155025 AAATTAAAGTAATG
1 AAATTAAAGTAATG
*
155039 AAATTAAAGTACTG
1 AAATTAAAGTAATG
*
155053 ATATTAAA
1 AAATTAAA
155061 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (14 bp):
AAATTAAAGTAATG
Found at i:156648 original size:23 final size:23
Alignment explanation
Indices: 156618--156684 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
156608 TCCTGAGCTA
156618 CAAGTTCTTCTCAGTATGAACTT
1 CAAGTTCTTCTCAGTATGAACTT
156641 CAAGTTCTTCTCAGTATGAACTT
1 CAAGTTCTTCTCAGTATGAACTT
*
156664 CAAGTTCTTCTCATTATGAAC
1 CAAGTTCTTCTCAGTATGAAC
156685 CCTTCTATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (23 bp):
CAAGTTCTTCTCAGTATGAACTT
Found at i:156929 original size:162 final size:163
Alignment explanation
Indices: 156666--157056 Score: 484
Period size: 162 Copynumber: 2.4 Consensus size: 163
156656 ATGAACTTCA
* * * * *
156666 AGTTCTTCTCATTATGAACCCTTCTATTGGAAATGATGATCCACCTCTTTCTGTGATAGAATCGA
1 AGTTCTTCTCATTATGAA-CCTTCTATTGGAAATGTTGGTCCACCTCCTTCTGTGATAGATTTGA
** * *
156731 ACAAAATGTTGATGTTTGATCTATCTCTTTCTGTGATAGAATCTAA-CGAAAGGGTGAACAAGTT
65 ACAAAATACTGAAGTTTGATCTATCTCTTTCTGTGATAGAATC-AAGCAAAAGGGTGAACAAGTT
156795 CTTCTCATTATGAACCTCTTATCCCTCTTAGGATG
129 CTTCTCATTATGAACCTCTTATCCCTCTTAGGATG
* * * *
156830 AGTTTTTTTCATTATGAA-CTCTCTATTGGAAATGTTGGTCGACCTCCTTCTGTGATGGATTTGA
1 AGTTCTTCTCATTATGAACCT-TCTATTGGAAATGTTGGTCCACCTCCTTCTGTGATAGATTTGA
* *
156894 TCAAAATACTGAAG-TTGATCTATCTCTTTCTGTGATAGAGTCAAGCAAAAGGGTGAACAAGTTC
65 ACAAAATACTGAAGTTTGATCTATCTCTTTCTGTGATAGAATCAAGCAAAAGGGTGAACAAGTTC
* * * * *
156958 TTCTTATTATGAACTTCTTCTTCCTCTTCGGATG
130 TTCTCATTATGAACCTCTTATCCCTCTTAGGATG
* * * * *
156992 AGTTCTTCTCTTTATGAACCATTCCATTGGAAATGTTGAG-CCATCTCCTTTTGTGATTGATTTG
1 AGTTCTTCTCATTATGAACC-TTCTATTGGAAATGTTG-GTCCACCTCCTTCTGTGATAGATTTG
157056 A
64 A
157057 GTAAAAGATT
Statistics
Matches: 194, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
161 2 0.01
162 91 0.47
163 83 0.43
164 18 0.09
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.39
Consensus pattern (163 bp):
AGTTCTTCTCATTATGAACCTTCTATTGGAAATGTTGGTCCACCTCCTTCTGTGATAGATTTGAA
CAAAATACTGAAGTTTGATCTATCTCTTTCTGTGATAGAATCAAGCAAAAGGGTGAACAAGTTCT
TCTCATTATGAACCTCTTATCCCTCTTAGGATG
Found at i:157080 original size:119 final size:119
Alignment explanation
Indices: 156955--157175 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 119
156945 GGTGAACAAG
* *
156955 TTCTTCTTATTATGAACTTCTTCTTCCT-CTTCGGATGAGTTCTTCTCTTTATGAACCATTCCAT
1 TTCTTCTCATTATGAACTTCTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCATTCCAT
* * * *
157019 TGGAAATGTTGAGCCATCTCCTTTTGTGATTG-ATTTGAGTAAAAGATTGGAAAAT
65 TAGAAATGTTGAGACACCTCCTGTTGTGA-TGAATTTGAGTAAAAGATTGGAAAAT
* *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGCTCGGATGAGTTCTTCTCATTATGAACCCTTCCATT
1 TTCTTCTCATTATGAACTTCTTCTTCCTGCTCGGATGAGTTCTTCTCATTATGAACCATTCCATT
*
157139 AGAAATGTTGATACACCTCCTGTTGTGATGAATTTGA
66 AGAAATGTTGAGACACCTCCTGTTGTGATGAATTTGA
157176 ACAAAGTGTT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
118 2 0.02
119 88 0.97
120 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (119 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTGCTCGGATGAGTTCTTCTCATTATGAACCATTCCATT
AGAAATGTTGAGACACCTCCTGTTGTGATGAATTTGAGTAAAAGATTGGAAAAT
Found at i:157298 original size:283 final size:281
Alignment explanation
Indices: 156793--157309 Score: 662
Period size: 282 Copynumber: 1.8 Consensus size: 281
156783 GGTGAACAAG
* * * * *
156793 TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTTTTTTCATTATGAACTCTCTATTG
1 TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTCTTCTCATTATGAACCCTCCATTA
* * * *
156858 GAAATGTTGGTCGACCTCCTTCTGTGATGGATTTGATCAAAATACTGAAGTTGATCTATCTCTTT
66 GAAATGTTGATCGACCTCCTTCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCTCTTT
* * * ** *
156923 CTGTGATAGAGTCAAGCAAAAGGGTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCG
131 CTGTGATAGAATCAAGCAAAAGGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCTCTTCA
* ** *
156988 GATGAGTTCTTCTCTTTATGAACCATTCCATTGGAAATGTTGAGCCATCTCCTTTTGTGATTGAT
196 AACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGTTGAGCCATCTCCTTTTGTGATTGAT
157053 TTGAGTAAAAGATTGGAAAAT
261 TTGAGTAAAAGATTGGAAAAT
* * * * *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 TTCTTCTCATTATGAACCTCTTATCCCT-CTTAGGATGAGTTCTTCTCATTATGAACCC-TCCAT
* ** *
157138 TAGAAATGTTGATAC-ACCTCCTGT-TGTGATGAATTTGAACAAAGTGTTGACGTTGATCTACCT
64 TAGAAATGTTGAT-CGACCTCCT-TCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCT
* * * * *
157201 CTTTTTGTGATAGAATCGAGTAAAATGGTTGGACAAATTCTTCTCATTATGAACTTCTTCCCCCT
127 CTTTCTGTGATAGAATCAAGCAAAA-GGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCT
*
157266 GTTCAAACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATG
191 CTTCAAACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATG
157310 AAGATCCACC
Statistics
Matches: 197, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
281 48 0.24
282 76 0.39
283 73 0.37
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (281 bp):
TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTCTTCTCATTATGAACCCTCCATTA
GAAATGTTGATCGACCTCCTTCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCTCTTT
CTGTGATAGAATCAAGCAAAAGGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCTCTTCA
AACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGTTGAGCCATCTCCTTTTGTGATTGAT
TTGAGTAAAAGATTGGAAAAT
Found at i:157339 original size:283 final size:281
Alignment explanation
Indices: 156793--157339 Score: 659
Period size: 283 Copynumber: 1.9 Consensus size: 281
156783 GGTGAACAAG
* * * * *
156793 TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTTTTTTCATTATGAACTCTCTATTG
1 TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTCTTCTCATTATGAACCCTCCATTA
* * * *
156858 GAAATGTTGGTCGACCTCCTTCTGTGATGGATTTGATCAAAATACTGAAGTTGATCTATCTCTTT
66 GAAATGTTGATCGACCTCCTTCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCTCTTT
* * * ** *
156923 CTGTGATAGAGTCAAGCAAAAGGGTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCG
131 CTGTGATAGAATCAAGCAAAAGGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCTCTTCA
* ** * ** * * * *
156988 GATGAGTTCTTCTCTTTATGAACCATTCCATTGGAAATGTTGAGCCATCTCCTTTTGTGATTGAT
196 AACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGAAGAGCCACCTCATTTTATGATGGAT
157053 TTGAGTAAAAGATTGGAAAAT
261 TTGAGTAAAAGATTGGAAAAT
* * * * *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 TTCTTCTCATTATGAACCTCTTATCCCT-CTTAGGATGAGTTCTTCTCATTATGAACCC-TCCAT
* ** *
157138 TAGAAATGTTGATAC-ACCTCCTGT-TGTGATGAATTTGAACAAAGTGTTGACGTTGATCTACCT
64 TAGAAATGTTGAT-CGACCTCCT-TCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCT
* * * * *
157201 CTTTTTGTGATAGAATCGAGTAAAATGGTTGGACAAATTCTTCTCATTATGAACTTCTTCCCCCT
127 CTTTCTGTGATAGAATCAAGCAAAA-GGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCT
* *
157266 GTTCAAACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGAAGATCCACCTCATTTTATGA
191 CTTCAAACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGAAGAGCCACCTCATTTTATGA
157331 TGGATTTGA
256 TGGATTTGA
157340 TCAAAATGCT
Statistics
Matches: 220, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
281 48 0.22
282 76 0.35
283 96 0.44
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (281 bp):
TTCTTCTCATTATGAACCTCTTATCCCTCTTAGGATGAGTTCTTCTCATTATGAACCCTCCATTA
GAAATGTTGATCGACCTCCTTCTGTGATGAATTTGAACAAAATACTGAAGTTGATCTACCTCTTT
CTGTGATAGAATCAAGCAAAAGGGTGAACAAATTCTTCTCATTATGAACTTCTTCCCCCTCTTCA
AACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGAAGAGCCACCTCATTTTATGATGGAT
TTGAGTAAAAGATTGGAAAAT
Found at i:157456 original size:163 final size:163
Alignment explanation
Indices: 157074--158307 Score: 1124
Period size: 163 Copynumber: 7.6 Consensus size: 163
157064 ATTGGAAAAT
* * * *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 TTCTTCTCATTATGAACTTCTTC-TCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCAT
* ** * * * * * * *
157138 TAGAAATGTTGATACACCTCCTGT-TGTGATGAATTTGAACAAAGTGTTGACGTTGATCTACCTC
65 TGGAAATGACGATCCACCTCCT-TCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTC
* * ** * * * *
157202 TTTTTGTGATAGAATCGAGTAAAATGGTTGG-ACAAA
129 ATTCTACGATAGAATCAAGCAAAAAGG--GGAACAAG
* ** * *** ** *
157238 TTCTTCTCATTATGAACTTCTTCCCCCTGTTCAAACAAGTTCTTCTCATTATGAACCATTCCATT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
* * * * * * * * *
157303 GGAAATGAAGATCCACCTCATTTTATGATGGATTTGATCAAAATGCTGATGCTGATCTAGCTCCT
66 GGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCAT
* * * *
157368 TCTACGATAGAGTCGAGCAAAAAGGAGAATAAG
131 TCTACGATAGAATCAAGCAAAAAGGGGAACAAG
* * *
157401 TTCTTGTTATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAA--C--CCAGT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
* *
157462 GGAAATGACGATTCACCTCCTTTTGTGACT-GATTCGATCAAAATGTTGATGTTGATCTATCTCA
66 GGAAATGACGATCCACCTCCTTCTGTGA-TGGATTCGATCAAAATGTTGATGTTGATCTATCTCA
* * *
157526 TTCTACGATAGAGTCAAGC-AAAAGGATGAAGAAG
130 TTCTACGATAGAATCAAGCAAAAAGG-GGAACAAG
* * *
157560 TTCTTATCATTATGAAATTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
** * * * *
157625 ATAAATTACGATTCACCTCATTCTGTAATGGATTCGATCAAAATGTTGATGTTGATCTATCTCAT
66 GGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCAT
** * * *
157690 TCTGTGATAGAGTCAAGCAAAAGGGGGGACAAG
131 TCTACGATAGAATCAAGCAAAAAGGGGAACAAG
* * *
157723 TTATTCTCATTATAAACTTCTTCTCATTCTTTGGATGAGTT-TTCCTCATTATGAACCCTTCTAT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTT-CTCATTATGAACCCTTCCAT
* * * *
157787 TGGAAATGACGATCCACCTCCTTATGTGATGGATTCGATCAAAAT-TCTTATGCTCATCTATCTC
65 TGGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGT-TGATGTTGATCTATCTC
* *
157851 GTTCTACGATAGAAT-AGAGCAAAAGGGGGAACAAG
129 ATTCTACGATAGAATCA-AGCAAAAAGGGGAACAAG
* * * * *
157886 --CTTCTCATTATAAACTTGTTCTCATTCTTTGGATGATTTCTTCTCATTATGAA-TCTTCTATT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
* * * *
157948 TGAAATGGCGATCCTCCTCCTTCTGTGATGCATTCGATCAAAATGTTGATGTTGATCTATCTTC-
66 GGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATC-TCA
* **
158012 TTTTGTGATAGAATCAAG-AAAAAGGGGGAACACA-
130 TTCTACGATAGAATCAAGCAAAAA-GGGGAACA-AG
* * * * *
158046 TTCTTCTCATTATGAATTTCTTCTCATTCTTTAGATAAATTCTTCTCATTATGAGCCCTTCCATT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
* * * * * * *
158111 GAAAATGACGATCCACCTCCTTCTATGATGGATTCGATAAAAATGATGATGATGATTTATCTCTT
66 GGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCAT
** ** * * *
158176 TCTGTGATAGAATTGATC-AAAAGGTTGAATAAG
131 TCTACGATAGAATCAAGCAAAAAGG-GGAACAAG
* * * * * * **
158209 TTCTTATCATTATGAACTTCTTCTCTCTTCTGTGGATGATTTCTT-TACGTTATGAACTCTT-TT
1 TTCTTCTCATTATGAACTTCTTCTC-ATTCTTTGGATGAGTTCTTCT-CATTATGAACCCTTCCA
** *
158272 TTGGAAATGTTGATCCACCTTCTTCTGTGATGGATT
64 TTGGAAATGACGATCCACCTCCTTCTGTGATGGATT
158308 TGAATATGTA
Statistics
Matches: 887, Mismatches: 154, Indels: 59
0.81 0.14 0.05
Matches are distributed among these distances:
158 6 0.01
159 136 0.15
160 81 0.09
161 53 0.06
162 59 0.07
163 402 0.45
164 150 0.17
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (163 bp):
TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
GGAAATGACGATCCACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCAT
TCTACGATAGAATCAAGCAAAAAGGGGAACAAG
Found at i:157993 original size:486 final size:483
Alignment explanation
Indices: 157074--158307 Score: 1347
Period size: 486 Copynumber: 2.5 Consensus size: 483
157064 ATTGGAAAAT
* * * *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 TTCTTCTCATTATGAAATTCTTC-TCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCAT
* * * * * * *
157138 TAGAAATGT-TGATACACCTCCTGT-TGTGATGAATTTGAACAAAGTGTTGACGTTGATCTACCT
65 TA-AAAT-TACGATACACCTCCT-TCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCT
* * * * *
157201 CTTTTTGTGATAGAATCGAGTAAAATGGTTGGACAAATTCTTCTCATTATGAACTTCTTCCCCCT
127 CTTTCTGTGATAGAATCGAGCAAAA-GGTTGGACAAGTTCTTCTCATTATGAACTTCTTCTCCTT
* *** ** * * * * *
157266 GTTCAAACAAGTTCTT-CTCATTATGAACCATTCCATTGGAAATGAAGATCCACCTCATTTTATG
191 CTTTGGATGAGTT-TTCCTCATTATGAACCCTTCTATTGGAAATGAAGATCCACCTCCTTATGTG
* * * *
157330 ATGGATTTGATCAAAATGCTGATGCTGATCTAGCTCCTTCTACGATAGAGTCGAGCAAAAAGGAG
255 ATGGATTCGATCAAAATGCTGATGCTCATCTAGCTCCTTCTACGATAGAATAGAGCAAAAAGGAG
* * * *
157395 AATAAGTTCTTGTTATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCA
320 AACAAG-TCTTCTCATTATAAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCA
* *
157460 GTGGAAATGACGATTCACCTCCTTTTGTGACTGATTCGATCAAAATGTTGATGTTGATCTATC-T
384 GTGGAAATGACGATCCACCTCCTTCTGTGACTGATTCGATCAAAATGTTGATGTTGATCTATCTT
* * * *
157524 CATTCTACGATAGAGTCAAGCAAAAGGATGAAGA-A
449 C-TTCTACGATAGAATCAAGAAAAAGGAGGAACACA
*
157559 GTTCTTATCATTATGAAATTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 -TTCTTCTCATTATGAAATTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCAT
* * * *
157624 TATAAATTACGATTCACCTCATTCTGTAATGGATTCGATCAAAATGTTGATGTTGATCTATCTCA
65 TA-AAATTACGATACACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCT
* * ** * * *
157689 TTCTGTGATAGAGTCAAGCAAAAGGGGGGACAAGTTATTCTCATTATAAACTTCTTCTCATTCTT
129 TTCTGTGATAGAATCGAGCAAAAGGTTGGACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTT
*
157754 TGGATGAGTTTTCCTCATTATGAACCCTTCTATTGGAAATGACGATCCACCTCCTTATGTGATGG
194 TGGATGAGTTTTCCTCATTATGAACCCTTCTATTGGAAATGAAGATCCACCTCCTTATGTGATGG
* * * * * *
157819 ATTCGATCAAAATTCTTATGCTCATCTATCTCGTTCTACGATAGAATAGAGCAAAAGGGGGAACA
259 ATTCGATCAAAATGCTGATGCTCATCTAGCTCCTTCTACGATAGAATAGAGCAAAAAGGAGAACA
* * * *
157884 AG-CTTCTCATTATAAACTTGTTCTCATTCTTTGGATGATTTCTTCTCATTATGAATCTTCTATT
324 AGTCTTCTCATTATAAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAA-C--CCAGT
* * *
157948 TGAAATGGCGATCCTCCTCCTTCTGTGA-TGCATTCGATCAAAATGTTGATGTTGATCTATCTTC
386 GGAAATGACGATCCACCTCCTTCTGTGACTG-ATTCGATCAAAATGTTGATGTTGATCTATCTTC
* ** *
158012 TTTTGTGATAGAATCAAGAAAAAGGGGGAACACA
450 TTCTACGATAGAATCAAGAAAAAGGAGGAACACA
* * * * * *
158046 TTCTTCTCATTATGAATTTCTTCTCATTCTTTAGATAAATTCTTCTCATTATGAGCCCTTCCATT
1 TTCTTCTCATTATGAAATTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
* * * * * * *
158111 GAAAATGACGATCCACCTCCTTCTATGATGGATTCGATAAAAATGATGATGATGATTTATCTCTT
66 -AAAATTACGATACACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCTT
* * * * * *
158176 TCTGTGATAGAATTGATCAAAAGGTTGAATAAGTTCTTATCATTATGAACTTCTTCTCTCTTCTG
130 TCTGTGATAGAATCGAGCAAAAGGTTGGACAAGTTCTTCTCATTATGAACTTCTTCTC-CTTCTT
* * * * ** * *
158241 TGGATGA--TTTCTTTACGTTATGAACTCTT-TTTTGGAAATGTTGATCCACCTTCTTCTGTGAT
194 TGGATGAGTTTTC-CT-CATTATGAACCCTTCTATTGGAAATGAAGATCCACCTCCTTATGTGAT
158303 GGATT
257 GGATT
158308 TGAATATGTA
Statistics
Matches: 624, Mismatches: 110, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
483 48 0.08
484 3 0.00
485 153 0.25
486 393 0.63
487 27 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (483 bp):
TTCTTCTCATTATGAAATTCTTCTCCTTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCCATT
AAAATTACGATACACCTCCTTCTGTGATGGATTCGATCAAAATGTTGATGTTGATCTATCTCTTT
CTGTGATAGAATCGAGCAAAAGGTTGGACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTTG
GATGAGTTTTCCTCATTATGAACCCTTCTATTGGAAATGAAGATCCACCTCCTTATGTGATGGAT
TCGATCAAAATGCTGATGCTCATCTAGCTCCTTCTACGATAGAATAGAGCAAAAAGGAGAACAAG
TCTTCTCATTATAAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCAGTGGAAA
TGACGATCCACCTCCTTCTGTGACTGATTCGATCAAAATGTTGATGTTGATCTATCTTCTTCTAC
GATAGAATCAAGAAAAAGGAGGAACACA
Found at i:158069 original size:323 final size:323
Alignment explanation
Indices: 157074--158307 Score: 1138
Period size: 323 Copynumber: 3.8 Consensus size: 323
157064 ATTGGAAAAT
* * * *
157074 TTCTTCTCATTATGAACTTTTTCTTCCTGC-TCGGATGAGTTCTTCTCATTATGAACCCTTCCAT
1 TTCTTCTCATTATGAACTTCTTC-TCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTT-CAT
* ** * * * * * * * *
157138 TAGAAATGTTGATACACCTCCTGT-TGTGATGAATTTGAACAAAGTGTTGACGTTGATCTACCTC
64 TGGAAATGACGATCCACCTCCT-TATGTGATGGATTCGATCAAAAT-TTGATGATGATCTATCTC
* * ** * * * * * * * * * *
157202 TTTTTGTGATAGAATCGAGTAAAATGGTTGGACAAATTCTTCTCATTATGAACTTCTTCCCCCTG
127 ATTCTACGATAGAATAGAGCAAAA-GGATGAAC-AAGTCTTATCATTATAAACTTCTTCTCCTTC
*** ** * * * * * *
157267 TTCAAACAAGTTCTTCTCATTATGAACCATTCCATTGGAAATGAAGATCCACCTCATTTTATGAT
190 TTTGGATGATTTCTTCTCATTATGAACCCTTCCATTTGAAATGACGATCCACCTCATTCTGTGAT
* * * * * ** * *
157332 GGATTTGATCAAAATGCTGATGCTGATCTAGCTCCTTCTACGATAGAGTCGAGCAAAAA-GGAGA
255 GGATTCGATCAAAATGTTGATGTTGATCTATCTTCTTCTGTGATAGAGTCAAG-AAAAAGGGGGA
*
157396 ATAAG
319 ACAAG
* * *
157401 TTCTTGTTATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAA-CC--CAGTG
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCATTG
* * *
157463 GAAATGACGATTCACCTCCTTTTGTGACT-GATTCGATCAAAATGTTGATGTTGATCTATCTCAT
66 GAAATGACGATCCACCTCCTTATGTGA-TGGATTCGATCAAAAT-TTGATGATGATCTATCTCAT
* *
157527 TCTACGATAGAGTCA-AGCAAAAGGATGAAGAAGTTCTTATCATTATGAAA-TTCTTCTCCTTCT
129 TCTACGATAGAAT-AGAGCAAAAGGATGAACAAG-TCTTATCATTAT-AAACTTCTTCTCCTTCT
* * * *
157590 TTGGATGAGTTCTTCTCATTATGAACCCTTCCATTAT-AAATTACGATTCACCTCATTCTGTAAT
191 TTGGATGATTTCTTCTCATTATGAACCCTTCCATT-TGAAATGACGATCCACCTCATTCTGTGAT
* *
157654 GGATTCGATCAAAATGTTGATGTTGATCTATC-TCATTCTGTGATAGAGTCAAGCAAAAGGGGGG
255 GGATTCGATCAAAATGTTGATGTTGATCTATCTTC-TTCTGTGATAGAGTCAAGAAAAAGGGGGA
157718 ACAAG
319 ACAAG
* *
157723 TTATTCTCATTATAAACTTCTTCTCATTCTTTGGATGAGTT-TTCCTCATTATGAACCCTTCTAT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTT-CTCATTATGAACCCTTC-AT
* * * *
157787 TGGAAATGACGATCCACCTCCTTATGTGATGGATTCGATCAAAATTCTTATGCTCATCTATCTCG
64 TGGAAATGACGATCCACCTCCTTATGTGATGGATTCGATCAAAATT-TGATGATGATCTATCTCA
** * * *
157852 TTCTACGATAGAATAGAGCAAAAGGGGGAACAAG-CTTCTCATTATAAACTTGTTCTCATTCTTT
128 TTCTACGATAGAATAGAGCAAAAGGATGAACAAGTCTTATCATTATAAACTTCTTCTCCTTCTTT
* * * * * *
157916 GGATGATTTCTTCTCATTATGAA-TCTTCTATTTGAAATGGCGATCCTCCTCCTTCTGTGATGCA
193 GGATGATTTCTTCTCATTATGAACCCTTCCATTTGAAATGACGATCCACCTCATTCTGTGATGGA
* *
157980 TTCGATCAAAATGTTGATGTTGATCTATCTTCTTTTGTGATAGAATCAAGAAAAAGGGGGAACAC
258 TTCGATCAAAATGTTGATGTTGATCTATCTTCTTCTGTGATAGAGTCAAGAAAAAGGGGGAACA-
158045 A-
322 AG
* * * * *
158046 TTCTTCTCATTATGAATTTCTTCTCATTCTTTAGATAAATTCTTCTCATTATGAGCCCTTCCATT
1 TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTT-CATT
* * * * * * *
158111 GAAAATGACGATCCACCTCCTTCTATGATGGATTCGATAAAAATGATGATGATGATTTATCTCTT
65 GGAAATGACGATCCACCTCCTTATGTGATGGATTCGATCAAAAT-TTGATGATGATCTATCTCAT
** * * * * * *
158176 TCTGTGATAGAATTGATCAAAAGGTTGAATAAGTTCTTATCATTATGAACTTCTTCTCTCTTCTG
129 TCTACGATAGAATAGAGCAAAAGGATGAACAAG-TCTTATCATTATAAACTTCTTCTC-CTTCTT
* * * **
158241 TGGATGATTTCTT-TACGTTATGAACTCTT--TTTTGGAAATGTTGATCCACCTTC-TTCTGTGA
192 TGGATGATTTCTTCT-CATTATGAACCCTTCCATTT-GAAATGACGATCCACC-TCATTCTGTGA
158302 TGGATT
254 TGGATT
158308 TGAATATGTA
Statistics
Matches: 751, Mismatches: 125, Indels: 63
0.80 0.13 0.07
Matches are distributed among these distances:
321 9 0.01
322 176 0.23
323 295 0.39
324 52 0.07
325 28 0.04
326 141 0.19
327 50 0.07
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (323 bp):
TTCTTCTCATTATGAACTTCTTCTCATTCTTTGGATGAGTTCTTCTCATTATGAACCCTTCATTG
GAAATGACGATCCACCTCCTTATGTGATGGATTCGATCAAAATTTGATGATGATCTATCTCATTC
TACGATAGAATAGAGCAAAAGGATGAACAAGTCTTATCATTATAAACTTCTTCTCCTTCTTTGGA
TGATTTCTTCTCATTATGAACCCTTCCATTTGAAATGACGATCCACCTCATTCTGTGATGGATTC
GATCAAAATGTTGATGTTGATCTATCTTCTTCTGTGATAGAGTCAAGAAAAAGGGGGAACAAG
Found at i:158770 original size:100 final size:103
Alignment explanation
Indices: 158481--158845 Score: 419
Period size: 100 Copynumber: 3.6 Consensus size: 103
158471 ATTTGCTAAC
* * * * **
158481 TTTGGTTTC-GAGTG-AAC-AATTTCAAATTTTGTGTTCCAAGGGAAAACTGTCTCAAGTGAGGC
1 TTTGGTTTCAG-GTGAAACAAATTCCAAATTTTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGAT
* * *
158543 AAAATTGATTTTAAG-AAAATAATCTCAAGTGAGATCAA
65 GAAATTGGTTTTGAGAAAAATAATCTCAAGTGAGATCAA
* *
158581 TTTGGTTTCAGGTGAAACAAATTCCAAATTTTTTGTTTCAAGGGAAAAATGTCTCAAGCGGGATG
1 TTTGGTTTCAGGTGAAACAAATTCCAAATTTTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGATG
*
158646 AAATTGGTTTTGAGAAAAACAATCTCAAGTGAGATCAA
66 AAATTGGTTTTGAGAAAAATAATCTCAAGTGAGATCAA
* * *
158684 ATTGGTTTCAGGTGAAATAAATTCC-AA-TTTTT-TTTCAAGGGAAAACTGCCTCAAGCGAGATG
1 TTTGGTTTCAGGTGAAACAAATTCCAAATTTTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGATG
*
158746 AAATTGGTTTTGAGAAAAATAATCTCAAGTAAGATCAA
66 AAATTGGTTTTGAGAAAAATAATCTCAAGTGAGATCAA
* * * * * *
158784 TTTTGTTTC-GAGTGAAAC-AATTTCAAAATATGTGTTTCAAAGGG--AACTTGTCTCAAGTGAG
1 TTTGGTTTCAG-GTGAAACAAATTCCAAATTTTTTGTTTC-AAGGGAAAAC-TGTCTCAAGCGAG
158845 A
63 A
158846 CAAAAATTCT
Statistics
Matches: 228, Mismatches: 27, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
99 6 0.03
100 90 0.39
101 15 0.07
102 67 0.29
103 50 0.22
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (103 bp):
TTTGGTTTCAGGTGAAACAAATTCCAAATTTTTTGTTTCAAGGGAAAACTGTCTCAAGCGAGATG
AAATTGGTTTTGAGAAAAATAATCTCAAGTGAGATCAA
Found at i:158952 original size:66 final size:66
Alignment explanation
Indices: 158785--158974 Score: 194
Period size: 66 Copynumber: 2.9 Consensus size: 66
158775 TAAGATCAAT
* * **
158785 TTTGTTTCGAGTGAAACAATTTCAAAATATGTGTTTCAAAGGGAACTTGTCTCAAGTGAGACAAA
1 TTTGATTCGAGTGAAACAATTTCAAAATTTGTGTTTC-AAGGGAAAATGTCTCAAGTGAGACAAA
158850 AA
65 AA
* * * * * *
158852 TTCTGA----A-TGAAATAATTTCACAATTCGTATTTCAAGAGAAAATATCTCAAGTGAG-CTAA
1 TT-TGATTCGAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAATGTCTCAAGTGAGAC-AA
158911 AAA
64 AAA
* * *
158914 TTTGATTCGAGTGAAACAATTTCAAAATTTATGTTTCAAGGGAAACTGTCTCAAGCGAGAC
1 TTTGATTCGAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAATGTCTCAAGTGAGAC
158975 GAAATTGTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
61 4 0.04
62 25 0.26
63 21 0.22
64 1 0.01
65 1 0.01
66 39 0.41
67 3 0.03
68 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (66 bp):
TTTGATTCGAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAATGTCTCAAGTGAGACAAAA
A
Found at i:159059 original size:66 final size:65
Alignment explanation
Indices: 158927--159069 Score: 146
Period size: 66 Copynumber: 2.2 Consensus size: 65
158917 GATTCGAGTG
* * * *
158927 AAACAATTTCAAAATTTATGTTTCAAGGGAAACTGTCTCAAGCGAGACGAAATTGTTTTTAAGAA
1 AAACAATCTCAAAATTCATGTTTCAAGGGAAACTGTCTCAAGCGAGACAAAATTGTTTTCAAGAA
* * * * *
158992 AAACAATCTCAAATATTCGTGTTTTAA-GGAATACTGTTTCAAGTGAGACAAAATT-TATTTCAT
1 AAACAATCTCAAA-ATTCATGTTTCAAGGGAA-ACTGTCTCAAGCGAGACAAAATTGT-TTTCAA
159055 GAA
63 GAA
* *
159058 AAATAAACTCAA
1 AAACAATCTCAA
159070 GTGAGATAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
65 17 0.27
66 47 0.73
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (65 bp):
AAACAATCTCAAAATTCATGTTTCAAGGGAAACTGTCTCAAGCGAGACAAAATTGTTTTCAAGAA
Found at i:160942 original size:9 final size:9
Alignment explanation
Indices: 160917--160954 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
160907 CTCCTTTTAG
160917 TTTTCTTTCT
1 TTTTCTTT-T
160927 TTTTCTTTT
1 TTTTCTTTT
*
160936 TTGTCTTTT
1 TTTTCTTTT
160945 TTTTCTTTT
1 TTTTCTTTT
160954 T
1 T
160955 CCTTATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:162341 original size:21 final size:21
Alignment explanation
Indices: 162302--162342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
162292 ATGAAATAAT
162302 ATAAAAAATGTCAAAAATGAA
1 ATAAAAAATGTCAAAAATGAA
*
162323 ATAAAATATGT-AAAGAATGA
1 ATAAAAAATGTCAAA-AATGA
162343 TAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.22
Consensus pattern (21 bp):
ATAAAAAATGTCAAAAATGAA
Found at i:164973 original size:24 final size:23
Alignment explanation
Indices: 164944--165012 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
164934 GTGCCATATA
164944 TTTGTCCCGAAGGACAACATAGGT
1 TTTGTCCCGAAGGAC-ACATAGGT
*
164968 TTTGTCCTGAAGGAGCACATA-GT
1 TTTGTCCCGAAGGA-CACATAGGT
* *
164991 TTTATCCCGAATGACCACATAG
1 TTTGTCCCGAAGGA-CACATAG
165013 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 19 0.50
24 18 0.47
25 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTGTCCCGAAGGACACATAGGT
Found at i:171954 original size:23 final size:23
Alignment explanation
Indices: 171810--171943 Score: 191
Period size: 23 Copynumber: 5.9 Consensus size: 23
171800 CACCGTAGTG
* *
171810 CCACATA--TTTGTCCTGAATAA
1 CCACATAGTTTTGTCCCGAATGA
* *
171831 CTACATAGGTTTTGTCCCGAAGGA
1 CCACATA-GTTTTGTCCCGAATGA
171855 CCACATAGTTTTGTCCCGAATGA
1 CCACATAGTTTTGTCCCGAATGA
* *
171878 CCATATAGTTTTATCCCGAATGA
1 CCACATAGTTTTGTCCCGAATGA
171901 CCACATAGTTTTGTCCCGAATGA
1 CCACATAGTTTTGTCCCGAATGA
171924 CCACATAGTTTTGTCCCGAA
1 CCACATAGTTTTGTCCCGAA
171944 AGATCATATA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
21 6 0.06
23 77 0.77
24 17 0.17
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (23 bp):
CCACATAGTTTTGTCCCGAATGA
Found at i:188126 original size:2 final size:2
Alignment explanation
Indices: 188119--188166 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
188109 AAACATGCGC
188119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188161 AT AT AT
1 AT AT AT
188167 TCATGAGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:188282 original size:14 final size:13
Alignment explanation
Indices: 188265--188300 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
188255 AAAAGACGGA
188265 AAATTAAAGTAATG
1 AAATTAAAG-AATG
188279 AAATTAAAAGAATG
1 AAATT-AAAGAATG
188293 AAATTAAA
1 AAATTAAA
188301 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (13 bp):
AAATTAAAGAATG
Found at i:193290 original size:27 final size:27
Alignment explanation
Indices: 193233--193290 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
193223 AACAATTTAT
* * * * *
193233 AATGTGAAATGATGAAAATACCAAGGC
1 AATGTAAAATGATAAAAATAACAAAGA
*
193260 AATGTAAAATGATAAAAATAACAAATA
1 AATGTAAAATGATAAAAATAACAAAGA
193287 AATG
1 AATG
193291 GGATAGCTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.21
Consensus pattern (27 bp):
AATGTAAAATGATAAAAATAACAAAGA
Found at i:197510 original size:23 final size:23
Alignment explanation
Indices: 197480--197547 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
197470 GGGACAATCT
197480 TATATGGCACTTCGGTGCATTTC
1 TATATGGCACTTCGGTGCATTTC
* *
197503 TATATGGCACTACGGTGCAATTC
1 TATATGGCACTTCGGTGCATTTC
** *
197526 TACGTGGCACTTAGGTGCATTT
1 TATATGGCACTTCGGTGCATTT
197548 TTACGAGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (23 bp):
TATATGGCACTTCGGTGCATTTC
Found at i:202262 original size:23 final size:23
Alignment explanation
Indices: 202236--202322 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
202226 TATTCGTGTT
*
202236 TGTTTATTTATTGTTCGCGAACA
1 TGTTCATTTATTGTTCGCGAACA
* * * *
202259 TGTTCGTTTAATATTCGCGAACG
1 TGTTCATTTATTGTTCGCGAACA
* *
202282 TGTTCATTTATATGTTC-CTAAACG
1 TGTTCATTTAT-TGTTCGC-GAACA
*
202306 TGTTCATTTAGTGTTCG
1 TGTTCATTTATTGTTCG
202323 TTTCATATTC
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 33 0.65
24 18 0.35
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (23 bp):
TGTTCATTTATTGTTCGCGAACA
Found at i:206502 original size:169 final size:167
Alignment explanation
Indices: 206209--206547 Score: 428
Period size: 169 Copynumber: 2.0 Consensus size: 167
206199 CTTCTTCTTC
* **
206209 TTTTTTTTTTGAATAGTATAAGATGATTATAAGGTAGTATTTGTTCATAATCTTTTATAATAATT
1 TTTTTTTTTTGAATAGTATAAGATAATTATAAGGTAGTACATGTTCATAATCTTTTATAATAATT
* * * * * *
206274 GACGACACACATCCTGCAACACAACTTTTTGAACCAAAGACCTCAAGGGAAAGTAACACTCTTAT
66 GACAACACACACCCTACAACACAACTGTTCGAACCAAAGACCTCAAGGGAAAGTAACACTCTCAT
* *
206339 TAACTTAGTCCACTCAATAGACTCAACCATAGCTTCTCT
131 TAACTCAGTCAACTCAATAGACTCAACCATAG-TT-TCT
* * *
206378 TTTTTTTTTTGAATGGTATGAGATAATTATAAGGTAGTACATGTTCATAATCTTTTATAATCATT
1 TTTTTTTTTTGAATAGTATAAGATAATTATAAGGTAGTACATGTTCATAATCTTTTATAATAATT
** * ** * *
206443 GACAACACACACCCTACAGATGCAGCTGTTCGAACTTAAGACCTTAAGGG-AATTAACACTCTCA
66 GACAACACACACCCTACA-ACACAACTGTTCGAACCAAAGACCTCAAGGGAAAGTAACACTCTCA
* * *
206507 TTAACTCAGTCAACTTAATATATTCAACCATAGTTTCT
130 TTAACTCAGTCAACTCAATAGACTCAACCATAGTTTCT
206545 TTT
1 TTT
206548 CTAAAATAGT
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
167 6 0.04
168 2 0.01
169 114 0.79
170 23 0.16
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (167 bp):
TTTTTTTTTTGAATAGTATAAGATAATTATAAGGTAGTACATGTTCATAATCTTTTATAATAATT
GACAACACACACCCTACAACACAACTGTTCGAACCAAAGACCTCAAGGGAAAGTAACACTCTCAT
TAACTCAGTCAACTCAATAGACTCAACCATAGTTTCT
Found at i:207729 original size:20 final size:19
Alignment explanation
Indices: 207693--207730 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
207683 AAATAAATTT
*
207693 AAAATTATATTCAAACCCA
1 AAAATTATATACAAACCCA
207712 AAAATTATATCACAAACCC
1 AAAATTATAT-ACAAACCC
207731 CTCATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATTATATACAAACCCA
Found at i:208622 original size:3 final size:3
Alignment explanation
Indices: 208616--208681 Score: 87
Period size: 3 Copynumber: 21.3 Consensus size: 3
208606 TATAATAATA
* * *
208616 ATT ATT ATT ATTT ATT ATA ATT ATTT GTT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
208663 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
208682 CATTTACAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 50 0.91
4 5 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:210021 original size:20 final size:19
Alignment explanation
Indices: 209986--210023 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
209976 CGAATTGAAT
*
209986 TTTTAATTTTTAAATTAAA
1 TTTTAATTTTCAAATTAAA
210005 TTTTAATTTTCATAATTAA
1 TTTTAATTTTCA-AATTAA
210024 GACAACTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAATTTTCAAATTAAA
Found at i:214568 original size:64 final size:66
Alignment explanation
Indices: 214443--214568 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 66
214433 ATGGGCAGAA
* * *
214443 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTTTTAACGAAAAATTACATAATGTCAGTA
1 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGAAAAATTACAGAATGTCAGTA
214508 T
66 T
* *
214509 GGTATCGATACCCTAT-AGGGGGTATCGATAC-CCC-CTGAA-GATGAAAATTTCAGAATGTCA
1 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGA--AAAATTACAGAATGTCA
214569 ACAGGGTATC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 3 0.06
64 18 0.34
65 14 0.26
66 16 0.30
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (66 bp):
GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGAAAAATTACAGAATGTCAGTA
T
Found at i:214577 original size:64 final size:66
Alignment explanation
Indices: 214443--214584 Score: 157
Period size: 64 Copynumber: 2.2 Consensus size: 66
214433 ATGGGCAGAA
* * * **
214443 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTTTTAACGAAAAATTACATAATGTCAGTA
1 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGAAAAATTACAGAATGTCAACA
*
214508 T
66 G
* *
214509 GGTATCGATACCCTAT-AGGGGGTATCGATAC-CCC-CTGAA-GATGAAAATTTCAGAATGTCAA
1 GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGA--AAAATTACAGAATGTCAA
214570 CAG
64 CAG
*
214573 GGTATCTATACC
1 GGTATCGATACC
214585 ATAGACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 2 0.03
63 3 0.05
64 30 0.46
65 14 0.22
66 16 0.25
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (66 bp):
GGTATCGATACCCTATGAAGGGGTATCGATACTCCCTCTGAACGAAAAATTACAGAATGTCAACA
G
Found at i:215082 original size:16 final size:17
Alignment explanation
Indices: 215051--215087 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
215041 TATAAACTGA
*
215051 TATGTGTTTATATGTGC
1 TATGTGATTATATGTGC
215068 TATGTGATT-TATGTGC
1 TATGTGATTATATGTGC
215084 TATG
1 TATG
215088 CCATATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.51
Consensus pattern (17 bp):
TATGTGATTATATGTGC
Found at i:215497 original size:21 final size:21
Alignment explanation
Indices: 215468--215527 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
215458 GGGTTTCATA
*
215468 GGTCCTTCGGGATAATACAGT
1 GGTCATTCGGGATAATACAGT
215489 GGTCATTCGGGATAATACAGT
1 GGTCATTCGGGATAATACAGT
* * *
215510 GGTCTTTCAGGACAATAC
1 GGTCATTCGGGATAATAC
215528 GGCGGTCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (21 bp):
GGTCATTCGGGATAATACAGT
Found at i:216221 original size:12 final size:12
Alignment explanation
Indices: 216204--216247 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
216194 AGCATGGTAT
216204 TGTTCAC-GACAC
1 TGTTCACAG-CAC
216216 TGTTCACAGCAC
1 TGTTCACAGCAC
216228 TGTTCACAGCAC
1 TGTTCACAGCAC
216240 TGTTCACA
1 TGTTCACA
216248 CTGTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 30 0.97
13 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (12 bp):
TGTTCACAGCAC
Found at i:217639 original size:65 final size:64
Alignment explanation
Indices: 217507--217730 Score: 236
Period size: 64 Copynumber: 3.5 Consensus size: 64
217497 TTGAAGGTGT
** * ** * *
217507 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAAATAAAAAAACATCGAATGCAATTCAT
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATT--AAT-AATAAACATCGAATGCAATTGAT
217571 GC
63 GC
*
217573 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAATAAT-AAACATCGAATGCAATTGATGC
* * ** * * *
217638 ATCGATGCATAAGGAGTGCATCGATGCAT-CTCAGCAATAATATAACATCGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAATAATA-AACATCGAATGCAATTGATGC
* *
217702 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
217731 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 1 0.01
64 54 0.40
65 51 0.38
66 26 0.19
67 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAATAATAAACATCGAATGCAATTGATGC
Found at i:217710 original size:64 final size:65
Alignment explanation
Indices: 217551--217730 Score: 238
Period size: 64 Copynumber: 2.8 Consensus size: 65
217541 TAAAATAAAA
**
217551 AAACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAATAATG
1 AAACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCCAGCAATAATG
** * *
217616 AAACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCAT-CTCAGCAATAAT-
1 AAACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCCAGCAATAATG
* * * * *
217679 ATAACATCGAATACATTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 A-AACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCAT
217731 ACCTTCATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.01
64 52 0.51
65 48 0.48
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (65 bp):
AAACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCCAGCAATAATG
Found at i:218429 original size:31 final size:31
Alignment explanation
Indices: 218387--218480 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
218377 AGGGTCGAGG
*
218387 GTTTACTTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
*
218418 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
* *
218449 GTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
218480 G
1 G
218481 GTCCTTCAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGATATATGGACT
Found at i:220255 original size:23 final size:23
Alignment explanation
Indices: 220229--220329 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
220219 CACTAAAGCT
*
220229 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
220252 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGTAGTGCCA
* * * *
220275 CGTAGAATTGCACCGTAGTACCG
1 CATATAATTGCACCGTAGTGCCA
* *
220298 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
220321 TATAATAAT
1 CAT-ATAAT
220330 GTCCATAAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
23 62 0.94
24 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:221421 original size:64 final size:64
Alignment explanation
Indices: 221288--221444 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
221278 TAATGAAGGT
* ** *
221288 ATGCATCGATGCACTACTGATGCATC-AGTGCATAAAATACATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGA-TGCATAAAATACATTCGATGTTTGTTTATTAAAGAG
* * *
221352 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTATT-TATT-TTAAA-A
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAATACATTCGATGT-TTGT-TTATTAAAGA
221414 G
64 G
* * *
221415 AGTGCATCGATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
221445 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 2 0.03
64 72 0.91
65 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAATACATTCGATGTTTGTTTATTAAAGAG
Found at i:225605 original size:24 final size:23
Alignment explanation
Indices: 225573--225637 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
225563 GGAAAAAATG
225573 TAAATAAATAAAATACGACAA-AAA
1 TAAATAAATAAAATA--ACAAGAAA
*
225597 TAAATAAATTAAATAACAAGAAA
1 TAAATAAATAAAATAACAAGAAA
*
225620 TAAAAAAAGGTAAAATAA
1 TAAATAAA--TAAAATAA
225638 GACGAGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.11
23 10 0.29
24 14 0.40
25 7 0.20
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18
Consensus pattern (23 bp):
TAAATAAATAAAATAACAAGAAA
Found at i:225669 original size:2 final size:2
Alignment explanation
Indices: 225664--225735 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
225654 TAAAAAAAAC
225664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
225706 AT AT AT AT AT AT AT AT AT -T AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
225736 ACTTGTGAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:225867 original size:19 final size:18
Alignment explanation
Indices: 225827--225869 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
225817 CACATATATG
225827 TAAAAAATAAAATACTAGA
1 TAAAAAATAAAATACTA-A
225846 TAAAAAACTAATAATACT-A
1 TAAAAAA-TAA-AATACTAA
225865 TAAAA
1 TAAAA
225870 TATATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 3 0.14
21 6 0.27
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAAAATAAAATACTAA
Found at i:227674 original size:105 final size:105
Alignment explanation
Indices: 227386--228116 Score: 1275
Period size: 105 Copynumber: 7.0 Consensus size: 105
227376 GTTGTGAAGT
* * *
227386 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
227451 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
227492 TGAAATTGAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
227557 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
227598 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
227663 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
227703 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
227768 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
227808 TAAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTTAAGTTGAACTTTCGTTGTC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
227873 TGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
227913 TGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTG
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
227978 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
228018 TGAAATTGAGAAATGTTTGTTGACAACCAGCGATCCTTTCGTCGTGAAGTTGAACTTGCGTT-TC
1 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
228082 TGGAATCCAATACCCTTCGTTGTGAAGTTGAAATT
66 TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
228117 AACTTTGGGT
Statistics
Matches: 597, Mismatches: 27, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
104 34 0.06
105 450 0.75
106 113 0.19
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:227928 original size:315 final size:316
Alignment explanation
Indices: 227212--228116 Score: 1452
Period size: 315 Copynumber: 2.9 Consensus size: 316
227202 AGTATTGTTC
* *
227212 ATTGACAATCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
**
227277 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-----GTTGACAGTCAGCGGTCCCTTCGTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
*** *
227336 GTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GA
131 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
227397 AA-T------TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
196 AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
227455 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTT
261 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGATATTT
227511 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
1 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
227576 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
227641 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
131 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
227706 AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
196 AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
227771 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAA-ATGTTT
261 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGATATTT
* * * *
227826 GTTGACAACCAGCGGTCCCTTCGTCGTTAAGTTGAACTTTCGTTGTCTGGAGTCCAATACCCTTC
1 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* * *
227891 GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCATC
66 GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
227956 GTGAAGTTGAACTTGCGTTGTGTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
131 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
228021 AATTGAGAAATGTTTGTTGACAACCAGCGATCCTTTCGTCGTGAAGTTGAACTTGCGTT-TCTGG
196 AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
228085 AATCCAATACCCTTCGTTGTGAAGTTGAAATT
261 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT
228117 AACTTTGGGT
Statistics
Matches: 564, Mismatches: 25, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
299 95 0.17
300 2 0.00
305 78 0.14
309 4 0.01
310 1 0.00
314 35 0.06
315 248 0.44
316 101 0.18
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (316 bp):
ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
AATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGATATTT
Found at i:239471 original size:24 final size:23
Alignment explanation
Indices: 239444--239494 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
239434 GGAACAAATG
239444 TAAATAAATAAAATACGACAA-AAA
1 TAAATAAATAAAATA--ACAAGAAA
*
239468 TAAATAAATTAAATAACAAGAAA
1 TAAATAAATAAAATAACAAGAAA
239491 TAAA
1 TAAA
239495 AAAAAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAATAAATAAAATAACAAGAAA
Found at i:239701 original size:19 final size:18
Alignment explanation
Indices: 239661--239704 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
239651 CACATATATG
239661 TAAAAAATAAAATACTAGA
1 TAAAAAATAAAATACTA-A
239680 TAAAAAACTAATAATACT-A
1 TAAAAAA-TAA-AATACTAA
239699 TAAAAA
1 TAAAAA
239705 TATATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.61
20 3 0.13
21 6 0.26
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAAAATAAAATACTAA
Found at i:241647 original size:23 final size:23
Alignment explanation
Indices: 241605--241705 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
241595 CACCAAAGCT
**
241605 CATATAATTGCACCAAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
241628 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGTAGTGCCA
* * * *
241651 CGTAGAATTGCACTGTAGTGCCG
1 CATATAATTGCACCGTAGTGCCA
* *
241674 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
241697 TATAATAAT
1 CAT-ATAAT
241706 GTCCATAAGG
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
23 61 0.94
24 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:241891 original size:103 final size:103
Alignment explanation
Indices: 241712--241929 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
241702 TAATGTCCAT
* *
241712 AAGGACCACATATCATTCCTTAATAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
*
241777 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATACATATCCCG
*
241815 AAGGACGACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
*
241880 GACTTCACACATGTTCCAAAGAATACATACATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATACATATCCCG
241918 AAGGACCACATA
1 AAGGACCACATA
241930 GACTCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
GACTTCACACATGTTCCAAAGAATACATACATATCCCG
Found at i:245978 original size:62 final size:63
Alignment explanation
Indices: 245912--246127 Score: 199
Period size: 61 Copynumber: 3.5 Consensus size: 63
245902 TTGAAGGTGT
** *** *
245912 ATCGATGCATTGGTAGTGCATCGATGCACTCTTTTTAA-AA-AAATATCGAATGCAATTCATGC
1 ATCGATGCATAAGTAGTGCATCGATGCA-TCCCATTAATAAGAAACATCGAATGCAATTCATGC
* **
245974 ATCGATACATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAA-GAAACATCGAATGCAATTCATGC
* * ** * * * *
246038 ATCGATGCATAAGGAGTGCAT---TGCATCTCAGCAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGA-AACATCGAATGCAATTCATGC
* *
246099 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
246128 ACCTTCATTA
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
60 1 0.01
61 54 0.43
62 27 0.22
64 43 0.34
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (63 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAACATCGAATGCAATTCATGC
Found at i:246822 original size:31 final size:31
Alignment explanation
Indices: 246784--246843 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
246774 AGGGTCGAGG
*
246784 GTTTACCTATGTTCTTCGGGA-CATATGGATT
1 GTTTACCTAGGTTCTTCGGGATC-TATGGATT
246815 GTTTACCTAGGTTCTTCGGGATCTATGGA
1 GTTTACCTAGGTTCTTCGGGATCTATGGA
246844 CTGGTCCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGATCTATGGATT
Found at i:249804 original size:83 final size:83
Alignment explanation
Indices: 249630--249967 Score: 419
Period size: 83 Copynumber: 4.0 Consensus size: 83
249620 TAAAGGAACT
* * * * *
249630 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAGCAAAAAAAACCTTCGAGTTTGATTT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTG---TC--AACAAACCTTCAAGTTCGATTA
* *
249695 TATTCAACTCAAGGGCATATCAA
61 CATTCAGCTCAAGGGCATATCAA
* * * *
249718 ATTTATAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAACCTTCAAATTCGATTCCATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
249783 AGCTCAAGGGCATATCAA
66 AGCTCAAGGGCATATCAA
*
249801 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATATGTCAACAAACCTTCAAGTTCGATTACATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
*
249866 AGCTTAAGGGCATATCAA
66 AGCTCAAGGGCATATCAA
* * ** * *
249884 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATC-ATCAACAAGAATTTTCGAGTTTGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-A-AACCTTCAAGTTCGATTACAT
249948 TCAGCTCGAA-GGCATATCAA
64 TCAGCTC-AAGGGCATATCAA
249968 CCGTATGGTA
Statistics
Matches: 223, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
82 5 0.02
83 148 0.66
84 33 0.15
85 3 0.01
88 34 0.15
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (83 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAACCTTCAAGTTCGATTACATTC
AGCTCAAGGGCATATCAA
Found at i:250395 original size:3 final size:3
Alignment explanation
Indices: 250387--250477 Score: 182
Period size: 3 Copynumber: 30.3 Consensus size: 3
250377 TAGTATAACA
250387 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
250435 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
250478 ATACAATTAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:251727 original size:16 final size:17
Alignment explanation
Indices: 251691--251727 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
251681 ATTTTATAAA
*
251691 TTTTTATATTTCTTTCT
1 TTTTTATATTTATTTCT
*
251708 TTTTTATTTTTATTTCT
1 TTTTTATATTTATTTCT
251725 TTT
1 TTT
251728 AGATATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATATTTATTTCT
Found at i:251818 original size:25 final size:25
Alignment explanation
Indices: 251790--251864 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
251780 TTTGTGACAC
**
251790 TATTTCACCTTATTATTTTTATTAT
1 TATTTCACCTTAAAATTTTTATTAT
* *
251815 TATTTTATCTTAAAATTTTTATT-T
1 TATTTCACCTTAAAATTTTTATTAT
* *
251839 CAATTTAACCTTTTAAAATTTTTATT
1 -TATTTCACC--TTAAAATTTTTATT
251865 TTTGTTTAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 25 0.62
27 14 0.35
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTTCACCTTAAAATTTTTATTAT
Found at i:252156 original size:18 final size:18
Alignment explanation
Indices: 252115--252156 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
252105 ACGCAAACCA
252115 GTTTTTTGTCTTAAAAAT
1 GTTTTTTGTCTTAAAAAT
* *
252133 GATTTTTT-TCTTGAAATT
1 G-TTTTTTGTCTTAAAAAT
252151 GTTTTT
1 GTTTTT
252157 AAAAGACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.62
Consensus pattern (18 bp):
GTTTTTTGTCTTAAAAAT
Found at i:252972 original size:52 final size:50
Alignment explanation
Indices: 252876--252979 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 50
252866 AATAATCAAA
*
252876 TTAAGATATTGAACTCATATGGGGCAACTCAAGTCACAAGAGATGAAATC
1 TTAAGATATTGAACTCATATGGGGCAACTAAAGTCACAAGAGATGAAATC
252926 TTAAGATATTGAACTCATATGGGGGGCAACTAAAGTCACAAGAGATGAAATC
1 TTAAGATATTGAACTCATAT--GGGGCAACTAAAGTCACAAGAGATGAAATC
252978 TT
1 TT
252980 TACCCGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 20 0.39
52 31 0.61
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (50 bp):
TTAAGATATTGAACTCATATGGGGCAACTAAAGTCACAAGAGATGAAATC
Found at i:257410 original size:2 final size:2
Alignment explanation
Indices: 257355--257390 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
257345 CTCTTGACTC
257355 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
257391 TACATATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:270197 original size:19 final size:19
Alignment explanation
Indices: 270138--270212 Score: 56
Period size: 19 Copynumber: 4.3 Consensus size: 19
270128 TTTCGTCCCC
*
270138 TATA-TATATT-TTTTAAT
1 TATATTATATTATTTTTAT
*
270155 TATATT-T-TT-TATTTAT
1 TATATTATATTATTTTTAT
* *
270171 T-TACTATATTCCTTTTTA-
1 TATATTATATT-ATTTTTAT
270189 TATATTATATTATTTTTAT
1 TATATTATATTATTTTTAT
270208 TATAT
1 TATAT
270213 ATCTTATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 7 0.16
18 8 0.18
19 18 0.40
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATTATATTATTTTTAT
Found at i:270213 original size:23 final size:23
Alignment explanation
Indices: 270187--270238 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
270177 TATTCCTTTT
* *
270187 TATATATTATATTATT-TTTATTA
1 TATATATTATATCATTATATA-TA
*
270210 TATATCTTATATCATTATATATA
1 TATATATTATATCATTATATATA
270233 TATATA
1 TATATA
270239 GACGTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATATTATATCATTATATATA
Found at i:270323 original size:36 final size:34
Alignment explanation
Indices: 270268--270347 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 34
270258 ATTTACTATG
*
270268 TATATAT-TTTTTTCTTAATATTATATTTATACGTT
1 TATATATATATTTTCTTAATATTATATTTAT--GTT
* * *
270303 TTTATATATATTTTCTTAATATTCTATTTCTGTT
1 TATATATATATTTTCTTAATATTATATTTATGTT
270337 TATATATATAT
1 TATATATATAT
270348 ATATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.33
35 6 0.15
36 20 0.51
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (34 bp):
TATATATATATTTTCTTAATATTATATTTATGTT
Found at i:270344 original size:2 final size:2
Alignment explanation
Indices: 270337--270366 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
270327 TATTTCTGTT
270337 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
270367 TTTTACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:270397 original size:15 final size:14
Alignment explanation
Indices: 270375--270404 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
270365 ATTTTTACTT
270375 TATTTTATTTTTTC
1 TATTTTATTTTTTC
270389 TATTATTATTTTTTC
1 TATT-TTATTTTTTC
270404 T
1 T
270405 TAATATCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTTTC
Found at i:270628 original size:15 final size:14
Alignment explanation
Indices: 270596--270638 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
270586 TTTCAACATT
270596 TTATTCATTTTGTTTA
1 TTATT-ATTTT-TTTA
*
270612 TTTTTATTGTTTTTA
1 TTATTATT-TTTTTA
270627 TTATTATTTTTT
1 TTATTATTTTTT
270639 ACGTGTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (14 bp):
TTATTATTTTTTTA
Found at i:274337 original size:17 final size:17
Alignment explanation
Indices: 274291--274353 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
274281 CGATAACAAG
*
274291 TAAATTAAAT-AAAAAA
1 TAAATAAAATAAAAAAA
* **
274307 TAAAGAAACGAAAAAAA
1 TAAATAAAATAAAAAAA
*
274324 TAAATAAAATAAAAGACA
1 TAAATAAAATAAAA-AAA
274342 TAAA-AAAATAAA
1 TAAATAAAATAAA
274354 GTCCATAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 6 0.16
17 25 0.68
18 6 0.16
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
TAAATAAAATAAAAAAA
Found at i:274533 original size:8 final size:8
Alignment explanation
Indices: 274501--274614 Score: 73
Period size: 10 Copynumber: 14.1 Consensus size: 8
274491 GATATGATAT
274501 ATATAATA
1 ATATAATA
*
274509 ACATAA-A
1 ATATAATA
*
274516 AAATAA-A
1 ATATAATA
274523 ATATAATA
1 ATATAATA
274531 ATAT-ATA
1 ATATAATA
274538 ATATAATA
1 ATATAATA
274546 GATAT-AT-
1 -ATATAATA
274553 ATAT-AT-
1 ATATAATA
274559 ATATATATA
1 ATATA-ATA
274568 ATATATATA
1 ATATA-ATA
274577 TATATATATA
1 -ATATA-ATA
274587 TATATATATA
1 -ATATA-ATA
274597 TATATAAATA
1 -ATAT-AATA
274607 AT-TAATA
1 ATATAATA
274614 A
1 A
274615 ACAGATAATG
Statistics
Matches: 95, Mismatches: 3, Indels: 17
0.83 0.03 0.15
Matches are distributed among these distances:
6 10 0.11
7 24 0.25
8 18 0.19
9 15 0.16
10 27 0.28
11 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:274536 original size:2 final size:2
Alignment explanation
Indices: 274523--274602 Score: 116
Period size: 2 Copynumber: 42.5 Consensus size: 2
274513 AAAAAATAAA
*
274523 AT AT A- AT A- AT AT AT A- AT AT A- AT AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274561 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274602 A
1 A
274603 AATAATTAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
1 5 0.07
2 66 0.93
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:274536 original size:10 final size:10
Alignment explanation
Indices: 274517--274608 Score: 73
Period size: 12 Copynumber: 8.6 Consensus size: 10
274507 TAACATAAAA
*
274517 AATAAAATAT
1 AATAATATAT
274527 AATAATATAT
1 AATAATATAT
274537 AAT-ATA-AT
1 AATAATATAT
274545 AGAT-ATATAT
1 A-ATAATATAT
274555 ATATATATATAT
1 A-ATA-ATATAT
274567 AATATATATAT
1 AATA-ATATAT
274578 ATATATATATAT
1 A-ATA-ATATAT
274590 ATATATATATAT
1 A-ATA-ATATAT
274602 AAATAAT
1 -AATAAT
274609 TAATAAACAG
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
8 3 0.04
9 8 0.11
10 17 0.23
11 13 0.18
12 32 0.43
13 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
AATAATATAT
Found at i:274559 original size:58 final size:59
Alignment explanation
Indices: 274446--274568 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 59
274436 AGAGGGGAAA
274446 ATATAAAATAAAAAATAAATAAAATAGATATAAGATAAACGAAATGATATGATATATAT
1 ATATAAAATAAAAAATAAATAAAATAGATATAAGATAAACGAAATGATATGATATATAT
* * * * *
274505 A-ATAACATAAAAAATAAAATATAATAATATATAATATAATA-GATAT-ATAT-ATATATAT
1 ATATAAAATAAAAAAT-AAATAAAAT-AGATATAAGATAA-ACGAAATGATATGATATATAT
274563 ATATAA
1 ATATAA
274569 TATATATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
58 22 0.40
59 17 0.31
60 15 0.27
61 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (59 bp):
ATATAAAATAAAAAATAAATAAAATAGATATAAGATAAACGAAATGATATGATATATAT
Found at i:275890 original size:36 final size:36
Alignment explanation
Indices: 275841--275950 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 36
275831 AAAGATTGAA
275841 GTTTCAATG-GAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTT
* *
275877 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAA--A
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * * *
275911 CTTCCAAAAGAAACTGTCTCAAGGGAGACGAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
275947 GTTT
1 GTTT
275951 AACGTAAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
34 26 0.44
35 1 0.02
36 32 0.54
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:275923 original size:34 final size:35
Alignment explanation
Indices: 275850--275939 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
275840 AGTTTCAATG
** * *
275850 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAA-TACTTCCAAAA
*
275886 GAAACTATCTCAAGAGAGACAAAA-ACTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
*
275920 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
275940 GAGATTTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 24 0.51
36 23 0.49
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (35 bp):
GAAACTGTCTCAAGAGAGACAAAATACTTCCAAAA
Found at i:276197 original size:100 final size:100
Alignment explanation
Indices: 275976--276337 Score: 376
Period size: 100 Copynumber: 3.6 Consensus size: 100
275966 CAAGATTTTG
* * * * * * * *
275976 TTTCAAAGGAAACTTTTTTCAAAGTTTATG-CTCAAGAGAAACTGTATCAAGGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGATTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
276039 TGTTTCAAGGGAACTATCTCATGAGTGACAAAATTCA
65 TG-TTCAAGGGAACTATCTCAAGAGAGACAAAATTCA
* * * *
276076 TTTCAAGGAAAATGTTTTCAATG-TTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGATTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
276140 GTTCAAGGGAACTTATCTCAAGAGAGACAAAATTCA
66 GTTCAAGGGAAC-TATCTCAAGAGAGACAAAATTCA
* * * *
276176 TCTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAG-GACAAAACTTA
1 TTTCAAGGGAAATGTTTTCAATGATTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
** * * * * **
276240 GTTCCAAAAGAAATGTCTCAAGGGAGACGAAATTTG
66 GTT-CAAGGGAACTATCTCAAGAGAGACAAAATTCA
* * *
276276 TTTCAAGGGAACA-G-ATTCAAAGATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
1 TTTCAAGGGAA-ATGTTTTCAATGATTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
276338 CATTTCAAGA
Statistics
Matches: 225, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
98 4 0.02
99 83 0.37
100 105 0.47
101 33 0.15
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (100 bp):
TTTCAAGGGAAATGTTTTCAATGATTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTT
GTTCAAGGGAACTATCTCAAGAGAGACAAAATTCA
Found at i:276351 original size:99 final size:99
Alignment explanation
Indices: 275993--276359 Score: 341
Period size: 99 Copynumber: 3.7 Consensus size: 99
275983 GGAAACTTTT
* * * * * * * *
275993 TTCAAAGTTTATG-CTCAAGAGAAACTGTATCAAGGGAGACAAAATTTGTTTCAAGGGAACTATC
1 TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTATTTCAAGAGAAATGTC
* * * * *
276057 TCATGAGTGACAAAATTCATTTCAAGGAAAATGTT
65 TCAAGAGAGACAAAATTCATCTCAAGGGAAATGTA
* * * * * * * *
276092 TTCAATG-TTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAACTTAT
1 TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAT-TTCAAGAGAA-ATGT
*
276156 CTCAAGAGAGACAAAATTCATCTCAAGGGAAATGTT
64 CTCAAGAGAGACAAAATTCATCTCAAGGGAAATGTA
* * *
276192 TTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAG-GACAAAACTTAGTTCCAAAAGAAATGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTA-TTTCAAGAGAAATGT
* * ** *
276256 CTCAAGGGAGACGAAATTTGTTTCAAGGGAACA-G-A
64 CTCAAGAGAGACAAAATTCATCTCAAGGGAA-ATGTA
276291 TTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGAGAAATGT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT-ATTTCAAGAGAAATGT
*
276355 TTCAA
64 CTCAA
276360 TGTTTATGTT
Statistics
Matches: 229, Mismatches: 29, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
98 7 0.03
99 96 0.42
100 89 0.39
101 36 0.16
102 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (99 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTATTTCAAGAGAAATGTCT
CAAGAGAGACAAAATTCATCTCAAGGGAAATGTA
Found at i:276359 original size:64 final size:64
Alignment explanation
Indices: 276255--276401 Score: 190
Period size: 64 Copynumber: 2.3 Consensus size: 64
276245 AAAAGAAATG
* ** *
276255 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAACAGATTCAAAGATTT-TGTTTCAAGAGAAACTA
1 TCTCAAGGGAGACAAAATTCATTTCAAGAGAACAGATTCAAAG-TTTATGTTTCAAGAGAAACTA
* * * *
276319 TCTCAAGAGAGACAAAATTCATTTCAAGAGAA-ATGTTTCAATGTTTATGTTTCAAGAGAAACTG
1 TCTCAAGGGAGACAAAATTCATTTCAAGAGAACA-GATTCAAAGTTTATGTTTCAAGAGAAACTA
276383 TCTCAAGGGAGACAAAATT
1 TCTCAAGGGAGACAAAATT
276402 TTGTTTCAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
63 4 0.06
64 68 0.94
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (64 bp):
TCTCAAGGGAGACAAAATTCATTTCAAGAGAACAGATTCAAAGTTTATGTTTCAAGAGAAACTA
Done.