Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 1 of 97
Found at i:915 original size:21 final size:20
Alignment explanation
Indices: 891--935 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
881 TCAAAGATTG
* *
891 TTAAGCTCTTTTTAAGTATAT
1 TTAAGCTCATTTTAAGCAT-T
*
912 TTAAGGTCATTTTAAGCATT
1 TTAAGCTCATTTTAAGCATT
932 TTAA
1 TTAA
936 AGTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (20 bp):
TTAAGCTCATTTTAAGCATT
Found at i:1038 original size:10 final size:10
Alignment explanation
Indices: 957--1096 Score: 61
Period size: 10 Copynumber: 13.4 Consensus size: 10
947 CATGGATTTA
957 AAGGATTTTT
1 AAGGATTTTT
967 AAGG-TGTCTTT
1 AAGGAT-T-TTT
978 AAGGATTTTCT
1 AAGGATTTT-T
* *
989 -AGGAATTCT
1 AAGGATTTTT
*
998 AAGAATTTTT
1 AAGGATTTTT
* *
1008 AAAGTTTTTT
1 AAGGATTTTT
**
1018 AATTCATTTTTT
1 AA-GGA-TTTTT
1030 AAGGATTTTTT
1 AAGGA-TTTTT
** *
1041 AAGCCTTTTG
1 AAGGATTTTT
*
1051 AAGCATTTTT
1 AAGGATTTTT
1061 AA-GATTTTTT
1 AAGGA-TTTTT
*
1071 ACATTGATTTTT
1 A-A-GGATTTTT
*
1083 AAGCATTTTT
1 AAGGATTTTT
1093 AAGG
1 AAGG
1097 TCCATTTAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
9 3 0.03
10 57 0.59
11 21 0.22
12 14 0.14
13 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (10 bp):
AAGGATTTTT
Found at i:1182 original size:20 final size:20
Alignment explanation
Indices: 1141--1182 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1131 TTTGAAAGAA
* *
1141 TTTGATAGATTTTTGATGTT
1 TTTGAAAGATTTTTAATGTT
1161 TTTGAAAGATTTTTAAT-TT
1 TTTGAAAGATTTTTAATGTT
1180 TTT
1 TTT
1183 ATGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (20 bp):
TTTGAAAGATTTTTAATGTT
Found at i:1296 original size:21 final size:21
Alignment explanation
Indices: 1221--1289 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
1211 CTTAAGGTTT
* *
1221 TTTTTATGGATTTTTAAGCTC
1 TTTTTAAGCATTTTTAAGCTC
* *
1242 TTTTTAAGCATTTTTTAGGTC
1 TTTTTAAGCATTTTTAAGCTC
* * *
1263 ATTTTAAGCATTTTTAAACTT
1 TTTTTAAGCATTTTTAAGCTC
1284 TTTTTA
1 TTTTTA
1290 TGGATTTCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.23, C:0.09, G:0.10, T:0.58
Consensus pattern (21 bp):
TTTTTAAGCATTTTTAAGCTC
Found at i:1391 original size:20 final size:22
Alignment explanation
Indices: 1368--1415 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
1358 TTGATTTATT
1368 TTTTAAAG-ATTTTTCAA-G-CC
1 TTTTAAAGCATTTTT-AAGGTCC
1388 TTTTAAAGCATTTTTAAGGTCC
1 TTTTAAAGCATTTTTAAGGTCC
1410 TTTTAA
1 TTTTAA
1416 TTATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTTAAAGCATTTTTAAGGTCC
Found at i:1531 original size:310 final size:310
Alignment explanation
Indices: 1078--1717 Score: 833
Period size: 310 Copynumber: 2.1 Consensus size: 310
1068 TTTACATTGA
* *
1078 TTTTTAAGCATTTTTAAGGTCCATTTAAGTATATTTAAGGTTTTTAAGATATTTTTGAAAGAATT
1 TTTTAAAGCATTTTTAAGGTCCATTTAAGTATATTTAAAGTTTTTAAGATATTTTTGAAAGAATT
* * *
1143 TGATAGATTTTTGATGTTTTTGAAAGATTTTTAATTTTTTATGTATTTATTTCGATTTTCAAAGA
66 TGATAGATTTGTGATGTTTTTGAAAGATTTCTAATTTTTTATGTATTTATTCCGATTTTCAAAGA
* * * * * * *
1208 TTTCTTAAGGTTTTTTTTATGGATTTTTAAGCTCTTTTTAAGCATTTTTTAGGTCATTTTAAGCA
131 TTTCTTAAGG-TTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCATTTGAAGCA
* * **
1273 TTTTTAAACTTTTTTT-ATGGATTTCAAAGGATTTTTAAGGTGTTTTCAAAGATTTTCTTGGAAT
195 TTTTTAAACTTTTTTTCAAGAATTTCAAAGGATTTTTAAGGTGTTTTCAAAGATTTTCTACGAAT
* * *
1337 TCGAAGGGTTTTTTAA-G-TTATTTGATTTATTTTTTAAAGATTTTTCAAGCC
260 TCGAA-GGTTTTTTAAGGCTT-TTTAATTCATTTTTTAAAGATTTTTCAAACC
* * * * * *
1388 TTTTAAAGCATTTTTAAGGTCCTTTTAATTATTTTTAAAGTTTTTAGGATTTTTTTGAAGGAATT
1 TTTTAAAGCATTTTTAAGGTCCATTTAAGTATATTTAAAGTTTTTAAGATATTTTTGAAAGAATT
* * *
1453 TGATAGATTTGTGATGTTTTT-AAGGGATTTCTAATTTTCTTAAT-TATTTATTCCGATTTTTAG
66 TGATAGATTTGTGATGTTTTTGAA-AGATTTCTAATTTT-TT-ATGTATTTATTCCGATTTTCAA
* *
1516 GGATTT-TTGAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCATTTGAAG
128 AGATTTCTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCATTTGAAG
* * * * *
1580 CATTTTTAAGCTTTTTTTCAAGAATTTCAAAGGATTTTTAAGTTGTTTTGAAGGATTTTGTACGA
193 CATTTTTAAACTTTTTTTCAAGAATTTCAAAGGATTTTTAAGGTGTTTTCAAAGATTTTCTACGA
** *
1645 ATTTTAAGGTTTTTTAAGGCTTTTTAATTCATTTTTTAAAGATTTTTGAAACC
258 ATTCGAAGGTTTTTTAAGGCTTTTTAATTCATTTTTTAAAGATTTTTCAAACC
*
1698 TTTTGAAGCATTTTTAAGGT
1 TTTTAAAGCATTTTTAAGGT
1718 TGTTTTCGTT
Statistics
Matches: 285, Mismatches: 39, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
309 74 0.26
310 184 0.65
311 25 0.09
312 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (310 bp):
TTTTAAAGCATTTTTAAGGTCCATTTAAGTATATTTAAAGTTTTTAAGATATTTTTGAAAGAATT
TGATAGATTTGTGATGTTTTTGAAAGATTTCTAATTTTTTATGTATTTATTCCGATTTTCAAAGA
TTTCTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCATTTGAAGCAT
TTTTAAACTTTTTTTCAAGAATTTCAAAGGATTTTTAAGGTGTTTTCAAAGATTTTCTACGAATT
CGAAGGTTTTTTAAGGCTTTTTAATTCATTTTTTAAAGATTTTTCAAACC
Found at i:1567 original size:21 final size:20
Alignment explanation
Indices: 1530--1606 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
1520 TTTTGAGGTT
*
1530 TTTTCAAGGATTATTAAGCTC
1 TTTTCAAGCATT-TTAAGCTC
*
1551 TTTTCAAGCATGTTTAAGGTC
1 TTTTCAAGCAT-TTTAAGCTC
* * *
1572 ATTTGAAGCATTTTTAAGCTTT
1 TTTTCAAGCA-TTTTAAGC-TC
*
1594 TTTTCAAGAATTT
1 TTTTCAAGCATTT
1607 CAAAGGATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 34 0.77
22 10 0.23
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTTCAAGCATTTTAAGCTC
Found at i:1897 original size:21 final size:20
Alignment explanation
Indices: 1882--1932 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
1872 TTTTTGAAAG
1882 ATTTTTAAGGTCTTTTTAAGC
1 ATTTTTAAGGTC-TTTTAAGC
*
1903 ATGTTTAAGGTCATTTTAAGC
1 ATTTTTAAGGTC-TTTTAAGC
1924 ATTTTTAAG
1 ATTTTTAAG
1933 CTTCTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (20 bp):
ATTTTTAAGGTCTTTTAAGC
Found at i:2010 original size:10 final size:10
Alignment explanation
Indices: 1849--2010 Score: 55
Period size: 10 Copynumber: 15.6 Consensus size: 10
1839 TATTTATTTC
1849 GATTTTT-AG
1 GATTTTTAAG
1858 AGATTTTTTAAG
1 -GA-TTTTTAAG
* *
1870 GGTTTTTGAAA
1 GATTTTT-AAG
1881 GATTTTTAAG
1 GATTTTTAAG
*
1891 GTCTTTTTAAG
1 G-ATTTTTAAG
* *
1902 CATGTTTAAG
1 GATTTTTAAG
1912 G-TCATTTTAAG
1 GAT--TTTTAAG
*
1923 CATTTTTAA-
1 GATTTTTAAG
* *
1932 GCTTCTTTCATG
1 GATT-TTT-AAG
*
1944 GATTTTAAAG
1 GATTTTTAAG
**
1954 GATTTTTGTG
1 GATTTTTAAG
1964 G-TGTTTTCAAG
1 GAT-TTTT-AAG
1975 GATTTTCT-AG
1 GATTTT-TAAG
** * *
1985 GAAGTCTAAA
1 GATTTTTAAG
1995 GATTTTTAAG
1 GATTTTTAAG
2005 GATTTT
1 GATTTT
2011 AAATTCACTT
Statistics
Matches: 107, Mismatches: 30, Indels: 30
0.64 0.18 0.18
Matches are distributed among these distances:
9 5 0.05
10 58 0.54
11 36 0.34
12 8 0.07
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:2281 original size:30 final size:31
Alignment explanation
Indices: 2246--2313 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
2236 TTTGAAGCAT
* *
2246 TTTTAAGCTT-TTTTCATGGA-TTTCAAAGGA
1 TTTTAAG-TTGTTTTCAAGGATTTTCAAAGAA
*
2276 TTTTAAGTTGTTTTCAAGGATTTTCTAAGAA
1 TTTTAAGTTGTTTTCAAGGATTTTCAAAGAA
2307 TTTTAAG
1 TTTTAAG
2314 GAATTGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 16 0.48
31 15 0.45
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (31 bp):
TTTTAAGTTGTTTTCAAGGATTTTCAAAGAA
Found at i:2599 original size:21 final size:21
Alignment explanation
Indices: 2521--2599 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
2511 TTTTAAAATT
* *
2521 TTTTTAAGGT-TTTTTCAAGGA
1 TTTTTAAGCTCTTTTT-AAGCA
2542 TTTTTAAGCTCTTTTTAAGCA
1 TTTTTAAGCTCTTTTTAAGCA
* * *
2563 TGTTTAATG-TCATTTTAAGTA
1 TTTTTAA-GCTCTTTTTAAGCA
* *
2584 TTTTTAAACTTTTTTT
1 TTTTTAAGCTCTTTTT
2600 TGTGGATTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 40 0.87
22 6 0.13
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTTAAGCTCTTTTTAAGCA
Found at i:2855 original size:10 final size:10
Alignment explanation
Indices: 2842--3006 Score: 57
Period size: 10 Copynumber: 15.9 Consensus size: 10
2832 TATTTATTCC
*
2842 GATTTTTAAA
1 GATTTTTAAG
2852 GATTTTTTAAG
1 GA-TTTTTAAG
*
2863 GTTTTTTCAAG
1 GATTTTT-AAG
2874 GATTTTTAAG
1 GATTTTTAAG
**
2884 CTCTTTTTAAG
1 -GATTTTTAAG
* *
2895 CATGTTTAAG
1 GATTTTTAAG
*
2905 G-TCATTTTATG
1 GAT--TTTTAAG
* *
2916 CATTTTTAAT
1 GATTTTTAAG
** *
2926 TTTTTTTCATG
1 GATTTTT-AAG
**
2937 GATTTCAAAG
1 GATTTTTAAG
2947 GATTTTTAATG
1 GATTTTTAA-G
*
2958 TG-TTTTCAAG
1 -GATTTTTAAG
*
2968 GATTTTCTATG
1 GATTTT-TAAG
*
2979 CA-TTTTAAG
1 GATTTTTAAG
*
2988 AATTTTTAAG
1 GATTTTTAAG
*
2998 GTTTTTTAA
1 GATTTTTAA
3007 TTCATTTTTT
Statistics
Matches: 110, Mismatches: 33, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
9 6 0.05
10 58 0.53
11 44 0.40
12 2 0.02
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.53
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:2879 original size:21 final size:21
Alignment explanation
Indices: 2855--2924 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
2845 TTTTAAAGAT
*
2855 TTTTTAAGGT-TTTTTCAAGGA
1 TTTTTAAGGTCTTTTT-AAGCA
*
2876 TTTTTAAGCTCTTTTTAAGCA
1 TTTTTAAGGTCTTTTTAAGCA
* * *
2897 TGTTTAAGGTCATTTTATGCA
1 TTTTTAAGGTCTTTTTAAGCA
2918 TTTTTAA
1 TTTTTAA
2925 TTTTTTTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 36 0.88
22 5 0.12
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (21 bp):
TTTTTAAGGTCTTTTTAAGCA
Found at i:2952 original size:21 final size:21
Alignment explanation
Indices: 2928--2973 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2918 TTTTTAATTT
*
2928 TTTTTCATG-GATTTCAAAGGA
1 TTTTTAATGTGATTTC-AAGGA
*
2949 TTTTTAATGTGTTTTCAAGGA
1 TTTTTAATGTGATTTCAAGGA
2970 TTTT
1 TTTT
2974 CTATGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (21 bp):
TTTTTAATGTGATTTCAAGGA
Found at i:3815 original size:21 final size:20
Alignment explanation
Indices: 3765--3815 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
3755 TTTTTAAGCG
3765 TTTTGAAGGTCCTTTTAAGTA
1 TTTTGAAGGT-CTTTTAAGTA
* *
3786 TATTAAAGGT-TTTTAAGATA
1 TTTTGAAGGTCTTTTAAG-TA
3806 TTTTTGAAGG
1 -TTTTGAAGG
3816 AATTTGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.29
20 2 0.08
21 15 0.62
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (20 bp):
TTTTGAAGGTCTTTTAAGTA
Found at i:3878 original size:10 final size:10
Alignment explanation
Indices: 3865--3903 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
3855 TATTTATTCT
3865 ATTTTTAAGG
1 ATTTTTAAGG
3875 ATTTTTTAAGG
1 A-TTTTTAAGG
*
3886 TTTTTTCAAGG
1 ATTTTT-AAGG
3897 ATTTTTA
1 ATTTTTA
3904 GACTCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:4223 original size:10 final size:10
Alignment explanation
Indices: 4210--4249 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
4200 ATTTATTTCA
*
4210 ATTTTTAAAG
1 ATTTTTAAGG
4220 ATTTCTTAAGG
1 ATTT-TTAAGG
*
4231 TTTTTTAAGG
1 ATTTTTAAGG
4241 ATTTTTAAG
1 ATTTTTAAG
4250 CTCTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:4260 original size:21 final size:21
Alignment explanation
Indices: 4211--4287 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
4201 TTTATTTCAA
*
4211 TTTTTAAAGATTTCTTAAGGT-
1 TTTTTAAGGATTT-TTAAGGTC
*
4232 TTTTTAAGGATTTTTAAGCTC
1 TTTTTAAGGATTTTTAAGGTC
*
4253 TTTTTAAGCAATTTTT-AGGTC
1 TTTTTAAG-GATTTTTAAGGTC
* *
4274 ATTTTAAGCATTTT
1 TTTTTAAGGATTTT
4288 AAAACTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
20 11 0.23
21 31 0.65
22 6 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (21 bp):
TTTTTAAGGATTTTTAAGGTC
Found at i:4608 original size:21 final size:21
Alignment explanation
Indices: 4584--4632 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4574 TCAAAGATTA
*
4584 TTAAGCTCTTTTCAAGCATGT
1 TTAAGCTCATTTCAAGCATGT
* * *
4605 TTAAGGTCATTTGAAGCATTT
1 TTAAGCTCATTTCAAGCATGT
4626 TTAAGCT
1 TTAAGCT
4633 TTTGTTCATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (21 bp):
TTAAGCTCATTTCAAGCATGT
Found at i:4948 original size:21 final size:21
Alignment explanation
Indices: 4924--4973 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
4914 TTCCAGGATT
*
4924 TTTAAGCTCTTTTTAAGCATA
1 TTTAAGCTCATTTTAAGCATA
* *
4945 TTTAAGGTCATTTTAAGCATT
1 TTTAAGCTCATTTTAAGCATA
4966 TTTAAGCT
1 TTTAAGCT
4974 TTGTTTCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (21 bp):
TTTAAGCTCATTTTAAGCATA
Found at i:5223 original size:20 final size:19
Alignment explanation
Indices: 5200--5245 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
5190 TTTTGAGGTA
*
5200 TTTTTAATTTTTTAATTATT
1 TTTTTAA-TTTTTAAGTATT
*
5220 TTTTTTATTTTTAAGTATT
1 TTTTTAATTTTTAAGTATT
5239 TTTTTAA
1 TTTTTAA
5246 AGTTTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTAATTTTTAAGTATT
Found at i:5369 original size:31 final size:31
Alignment explanation
Indices: 5303--5371 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
5293 TTTGAAGCAT
* * * *
5303 TTTTAAGTTTTTTTTATGGATTTCAAAGGAT
1 TTTTAAGTTGTTTTCAAGGATTTCAAAGGAA
*
5334 TTTTAAGTTGTTTTCAAGGATTTTCTAA-GAA
1 TTTTAAGTTGTTTTCAAGGA-TTTCAAAGGAA
5365 TTTTAAG
1 TTTTAAG
5372 GATTTTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (31 bp):
TTTTAAGTTGTTTTCAAGGATTTCAAAGGAA
Found at i:5372 original size:20 final size:20
Alignment explanation
Indices: 5323--5381 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
5313 TTTTTATGGA
**
5323 TTTCAAAGGATTTTTAAGTTGT
1 TTTC-AAGGATTTTTAAG-AAT
5345 TTTCAAGGATTTTCTAAGAAT
1 TTTCAAGGATTTT-TAAGAAT
5366 TTT-AAGGATTTTTAAG
1 TTTCAAGGATTTTTAAG
5382 TTTTTTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 4 0.12
20 9 0.26
21 13 0.38
22 8 0.24
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (20 bp):
TTTCAAGGATTTTTAAGAAT
Found at i:5380 original size:10 final size:10
Alignment explanation
Indices: 5313--5381 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
5303 TTTTAAGTTT
*
5313 TTTTTATGGA
1 TTTTTAAGGA
**
5323 TTTCAAAGGA
1 TTTTTAAGGA
5333 TTTTTAAGTTG-
1 TTTTTAAG--GA
*
5344 TTTTCAAGGA
1 TTTTTAAGGA
5354 TTTTCTAA-GA
1 TTTT-TAAGGA
*
5364 ATTTTAAGGA
1 TTTTTAAGGA
5374 TTTTTAAG
1 TTTTTAAG
5382 TTTTTTCAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
9 4 0.09
10 31 0.69
11 9 0.20
12 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.49
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:5409 original size:41 final size:41
Alignment explanation
Indices: 5328--5410 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
5318 ATGGATTTCA
* *
5328 AAGGATTTTTAAGTTGTTTTCAAGGATTTTCTAAGAATTTT
1 AAGGATTTTTAAGTTGTTTTCAAGCATTTTATAAGAATTTT
* *
5369 AAGGATTTTTAAGTT-TTTTCAATTCATTTTATACAGATTTTT
1 AAGGATTTTTAAGTTGTTTTCAA-GCATTTTATA-AGAATTTT
5411 TAAGCCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 7 0.19
41 22 0.61
42 7 0.19
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (41 bp):
AAGGATTTTTAAGTTGTTTTCAAGCATTTTATAAGAATTTT
Found at i:5677 original size:21 final size:21
Alignment explanation
Indices: 5653--5703 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
5643 TTTGTAAACT
5653 TTTTTTATG-GATTTCAAAGGA
1 TTTTTTATGTGATTTC-AAGGA
* *
5674 TTTTTGAGGTGATTTCAAGGA
1 TTTTTTATGTGATTTCAAGGA
*
5695 TTTTCTATG
1 TTTTTTATG
5704 AATTCTAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.49
Consensus pattern (21 bp):
TTTTTTATGTGATTTCAAGGA
Found at i:5970 original size:21 final size:20
Alignment explanation
Indices: 5945--6001 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
5935 TTTTAAAGAT
5945 TTTTAAGCTCTTTTTAAGCA
1 TTTTAAGCTCTTTTTAAGCA
* *
5965 TGTTTAAGGTCATTTTAAGCA
1 T-TTTAAGCTCTTTTTAAGCA
*
5986 TTTTAAGCTTTTTTTA
1 TTTTAAGCTCTTTTTA
6002 TGGATTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTTAAGCTCTTTTTAAGCA
Found at i:5989 original size:9 final size:9
Alignment explanation
Indices: 5956--5997 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
5946 TTTAAGCTCT
5956 TTTTAAGCA
1 TTTTAAGCA
5965 TGTTTAAGGTCA
1 T-TTTAA-G-CA
5977 TTTTAAGCA
1 TTTTAAGCA
5986 TTTTAAGC-
1 TTTTAAGCA
5994 TTTT
1 TTTT
5998 TTTATGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.13
9 11 0.37
10 6 0.20
11 6 0.20
12 3 0.10
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (9 bp):
TTTTAAGCA
Found at i:6070 original size:10 final size:10
Alignment explanation
Indices: 5910--6170 Score: 52
Period size: 10 Copynumber: 25.4 Consensus size: 10
5900 TATTTATTTC
*
5910 GATTTTTATG
1 GATTTTTAAG
5920 GATTTTTTAA-
1 GA-TTTTTAAG
*
5930 GATTTTTTTAAA
1 GA--TTTTTAAG
5942 GATTTTTAAG
1 GATTTTTAAG
**
5952 CTCTTTTTAAG
1 -GATTTTTAAG
* *
5963 CATGTTTAAG
1 GATTTTTAAG
5973 G-TCATTTTAAG
1 GAT--TTTTAAG
*
5984 CA-TTTTAAG
1 GATTTTTAAG
** *
5993 CTTTTTTTATG
1 -GATTTTTAAG
**
6004 GATTTCAAAG
1 GATTTTTAAG
6014 GATTTTTAA-
1 GATTTTTAAG
*
6023 GATGTTTTCAAA
1 GAT-TTTT-AAG
*
6035 GATTTTCTATG
1 GATTTT-TAAG
* *
6046 CA-TTCTAAG
1 GATTTTTAAG
6055 GATTTTTAAG
1 GATTTTTAAG
* *
6065 GTTTTTTAATT
1 GATTTTTAA-G
*
6076 CATTTTTTAAG
1 GA-TTTTTAAG
** *
6087 CCTTTTGAAG
1 GATTTTTAAG
*
6097 TATTTTTAAG
1 GATTTTTAAG
* **
6107 GTTTGTTTATT
1 GATT-TTTAAG
6118 GATTTTTTAA-
1 GA-TTTTTAAG
* *
6128 GAATTTCAAG
1 GATTTTTAAG
* *
6138 GTCTTTTTAAT
1 G-ATTTTTAAG
*
6149 GATATTTAAG
1 GATTTTTAAG
6159 G-TTTTT-AG
1 GATTTTTAAG
6167 GATT
1 GATT
6171 CTTTCTCATG
Statistics
Matches: 177, Mismatches: 53, Indels: 43
0.65 0.19 0.16
Matches are distributed among these distances:
8 3 0.02
9 26 0.15
10 76 0.43
11 57 0.32
12 15 0.08
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.52
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:6084 original size:22 final size:21
Alignment explanation
Indices: 6057--6128 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
6047 ATTCTAAGGA
6057 TTTTTAAGGTTTTTTAATTCAT
1 TTTTTAAGGTTTTTTAATT-AT
** * *
6079 TTTTTAAGCCTTTTGAAGTA-
1 TTTTTAAGGTTTTTTAATTAT
6099 TTTTTAAGGTTTGTTT-ATTGAT
1 TTTTTAAGGTTT-TTTAATT-AT
6121 TTTTTAAG
1 TTTTTAAG
6129 AATTTCAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 12 0.31
21 4 0.10
22 23 0.59
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.60
Consensus pattern (21 bp):
TTTTTAAGGTTTTTTAATTAT
Found at i:6145 original size:42 final size:42
Alignment explanation
Indices: 6056--6147 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
6046 CATTCTAAGG
** *
6056 ATTTTTAAGGTTTTTTAATTCATTTTTTAAGCCTTTTGAAGT
1 ATTTTTAAGGTTTTTTAATTCATTTTTTAAGCAATTTCAAGT
*
6098 ATTTTTAAGGTTTGTTT-ATTGATTTTTTAAG-AATTTCAAGGT
1 ATTTTTAAGGTTT-TTTAATTCATTTTTTAAGCAATTTCAA-GT
*
6140 CTTTTTAA
1 ATTTTTAA
6148 TGATATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
41 5 0.12
42 35 0.81
43 3 0.07
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (42 bp):
ATTTTTAAGGTTTTTTAATTCATTTTTTAAGCAATTTCAAGT
Found at i:6146 original size:20 final size:20
Alignment explanation
Indices: 6120--6164 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
6110 TGTTTATTGA
6120 TTTTTTAA-GA-ATTTCAAGG
1 TTTTTTAATGATATTT-AAGG
6139 TCTTTTTAATGATATTTAAGG
1 T-TTTTTAATGATATTTAAGG
6160 TTTTT
1 TTTTT
6165 AGGATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 7 0.30
22 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (20 bp):
TTTTTTAATGATATTTAAGG
Found at i:6301 original size:21 final size:21
Alignment explanation
Indices: 6277--6331 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6267 TCAAGTATTG
6277 TTAAGCTCTTTTTAAGCATCT
1 TTAAGCTCTTTTTAAGCATCT
* * *
6298 TTAAGGTCATTTTAAGCATTT
1 TTAAGCTCTTTTTAAGCATCT
* *
6319 TTAAACTTTTTTT
1 TTAAGCTCTTTTT
6332 CATGTTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAAGCTCTTTTTAAGCATCT
Found at i:6389 original size:20 final size:19
Alignment explanation
Indices: 6359--6402 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6349 TTTGAAGTTG
6359 TTTTCAAGGATTTTTTAAGAA
1 TTTTCAAGGA-TTTTTAAG-A
6380 TTTT-AAGGATTTTTAAGA
1 TTTTCAAGGATTTTTAAGA
6398 TTTTC
1 TTTTC
6403 CATTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 5 0.23
21 4 0.18
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (19 bp):
TTTTCAAGGATTTTTAAGA
Found at i:6632 original size:21 final size:21
Alignment explanation
Indices: 6606--6651 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6596 TTCAAAGTTT
* *
6606 TTTAGGCTCGTTTTAAGCATG
1 TTTAGGCTCATTTTAAACATG
* *
6627 TTTAGGGTCATTTTAAACATT
1 TTTAGGCTCATTTTAAACATG
6648 TTTA
1 TTTA
6652 AGCTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (21 bp):
TTTAGGCTCATTTTAAACATG
Found at i:6844 original size:951 final size:946
Alignment explanation
Indices: 5723--7559 Score: 2329
Period size: 951 Copynumber: 1.9 Consensus size: 946
5713 TATTTTAAAG
* * *
5723 GTTTTTTAATTCATTTTTTAAAGATTTTGGAAGCCTTTTGAATCATTTTAAGGTTTTTTTTTCAT
1 GTTTTTTAATTCACTTTTTAAAGATTTTGGAAGCCTTTTGAAGCATTTTAAAG-TTTTTTTTCAT
* * *
5788 TTAGTTTTAAGCATTTTTAAGATCTTTTTAACTATATTTAAGATTTTTAAGATGGTTTTCAAGGA
65 TAAGTTTTAAGCATTTTCAAGATCCTTTTAACTATATTTAAGATTTTTAAGATGGTTTTCAAGGA
* **
5853 ATTTGATAGAATTTTGATTTTTCAAAGGGATTTTTAATTTTTTTAATTATTTATTTCGATTTTTA
130 ATTTGATAGAATTTTGATTTTTCAAAGGGATTTCTAATTTTCGTAATTATTTATTTCGATTTTTA
* * * * *
5918 TGGATTTTTT-AAGATTTTTTTAAAGATTTTTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTA
195 AGG-TTTTTTCAAG-----------GATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGA
* * *
5982 AGCAT-TTTAAGCTTTTT-TTATGGATTTCAAAGGATTTTTAAGA-TGTTTTCAAAGATTTTCTA
248 AGCATGTTTAAGCTTTTTGTCATGGATTTCAAAGGATTTTGAA-ATTATTTTCAAAGATTTTCTA
* * *
6044 TGCATTCTAAGGATTTTTAAGGTTTTTT-AATTCATTTTTT-A-A-G-CCTTTTGAAGTATTTTT
312 GGAATTCTAAGGATTTTTAA-GTTTTTTCAATTCATTTTTTAAGATGACCTTTTGAAGCA-TTTT
* *
6104 AAGG-TTTGTTTATTGATTTTTTAAG-AATTTCAAGGTCTTTTTAA-TGATATTTAAGGTTTTTA
375 AAGGTTTTGTTTATTGA-TTTTTAAGCAATTTCAAGGCCCTTTTAAGT-ATATTTAAGGTTTTTA
* * *
6166 GGATTCTTTCTCATGAAATTTGATAGATTTGCGATGTTCTTG-AGGG-TTTTCTAATTTTCCTAA
438 AGA-TATTT-TCAAGAAATTTGATAGATTTGCGATGTT-TTGAAGGGATTTT-TAATTTTCCTAA
*
6229 TTATATATTCCGATTTTTAAAGATTTTTTAAGCTTTTGTCAAGTATTGTTAAGCTCTTTTTAAGC
499 TTATATATTCCGATTTTTAAAGATTTTTTAAGCTTTTGTCAAGAATTGTTAAGCTCTTTTTAAGC
* ** *
6294 ATCTTTAAGGTCATTTTAAGCATTTTTAAACTTTTTTTCATGTTTTTCAAAGGATTTTGAAGTTG
564 ATCTTTAAGGTCATTTTAAGCATTTTTAAACTTGTTTTCATGAATTTCAAAGGATTTTGAAGGTG
* * * *
6359 TTTTCAAGGATTTTTTAAGAATTTTAAGGATTTTTAAGATTTTCCATTTCATTTTTTAAAGATTT
629 TTTTCAAGGATTTTCTAAGAATTCTAAGGATTTATAAGATTTTCCAATTCATTTTTTAAAGATTT
** * * *
6424 TTGAAGCCTTTTGAAGCA-TTTTTAAGGGTTTTTTCATTGTTTTTTAAGCATTTTCAATGTCCTT
694 TTGAAGCCTTTTGAAGCATTTTTTAA-AATTTTTTAATTGATTTTTAAGCATTTTCAAGGTCCTT
* * *
6488 TTAAGTATATTTAAGGTTTTTAATA-TATTTTTCAAGGAATTTGATAGATTTTTGATATT-TTTA
758 TTAAGTATATTTAAGG-TTTTAAGAGT-TTTTTCAAGGAATTTGATAGATTTGTGATATTCTTGA
* * *
6551 -GGAGTTT-TTAGTTTT-TTAATTATTTATTCCGATTTTTAAGG-TTTTTTCAAAGTTTTTTAGG
821 GGGA-TTTCTGA-TTTTCCTAATTATTTATTCAGATTTTTAAGGATTTTTT-AAAGTTTTTTAGG
6612 CTCGTTTTAAGCATGTTTAGGGTCATTTTAAACATTTTTAAGCTTTTTTTCATGGACTTCAAAA
883 CTCGTTTTAAGCATGTTTAGGGTCATTTTAAACATTTTTAAGCTTTTTTTCATGGACTTCAAAA
*
6676 GTTTTTTAATTCACTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAAG-TTTTTTTCAT
1 GTTTTTTAATTCACTTTTTAAAGATTTTGGAAGCCTTTTGAAGCA-TTTTAAAGTTTTTTTTCAT
* * * * * * ** *
6740 TAATTTTTAAGTA-TTTCAAGGTCCTTTTAATTATATTTAAGGTTTTTAGGATTTTTTTCGAGGA
65 TAAGTTTTAAGCATTTTCAAGATCCTTTTAACTATATTTAAGATTTTTAAGATGGTTTTCAAGGA
* *** *
6804 ATTTGATA-TATTTGTGATGTTTT-TGGGGGATTTCTAATTTTCGTAATTCTTTATTTCGATTTT
130 ATTTGATAGAATTT-TGAT-TTTTCAAAGGGATTTCTAATTTTCGTAATTATTTATTTCGATTTT
6867 TAAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGAAGCATGTTTA
193 TAAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGAAGCATGTTTA
* *
6932 AGCTTTTTGTCATGGATTTCAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAGGAATTTTAAG
258 AGCTTTTTGTCATGGATTTCAAAGGATTTTGAAATTATTTTCAAAGATTTTCTAGGAATTCTAAG
6997 GATTTTTAAGTTTTTTCAATTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCATTTTAAGGTT
323 GATTTTTAAGTTTTTTCAATTCATTTTTT-AAGA----TG--ACCTTTTGAAGCATTTTAAGGTT
* * * *
7062 TTTTTTATTGATTTTTAAGCATTTTTAAGGCCCTTTTAAGTATATTTAGGGTTTTTAAGATATTT
381 TTGTTTATTGATTTTTAAGCAATTTCAAGGCCCTTTTAAGTATATTTAAGGTTTTTAAGATATTT
* ** * * * *
7127 TCAAGGAATTTGATAGATTTTTGTTGTTTTGAAGGGATTTTTAATTTTCTTAATTGTTTATTCCG
446 TCAAGAAATTTGATAGATTTGCGATGTTTTGAAGGGATTTTTAATTTTCCTAATTATATATTCCG
* * * * *
7192 ATTTTTAAGGATTTTTTAAGGTTTTTTCAAGAATTTTTAAGCTCTTTTTAAGCATGTTTAAGGTC
511 ATTTTTAAAGATTTTTTAAGCTTTTGTCAAGAATTGTTAAGCTCTTTTTAAGCATCTTTAAGGTC
* *
7257 ATTTTAAGCATTTTTAAGCTTGTTTTCATGAATTTCAAAGGATTTTTAAGGTGTTTTCAAGGATT
576 ATTTTAAGCATTTTTAAACTTGTTTTCATGAATTTCAAAGGATTTTGAAGGTGTTTTCAAGGATT
* * * ** *
7322 TTCTATGCATTCTAAGGATTTATAAGGTTTTTTAATTCATTTTTTAAAGATTTTTTAAGCCTTTT
641 TTCTAAGAATTCTAAGGATTTATAAGATTTTCCAATTCATTTTTTAAAGATTTTTGAAGCCTTTT
* * *
7387 GAAGTATTTTTTAAAATTTTTTAATTGATTTTTAAGCATTTTCAAGGTCCTTTTAATTATGTTTA
706 GAAGCATTTTTTAAAATTTTTTAATTGATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTA
* *
7452 AGGTTTTAGGAGTTTTTTCAAGGAATTTGATAGATTTGTGATGTTCTTGAGGGATTTCTGATTTT
771 AGGTTTTAAGAGTTTTTTCAAGGAATTTGATAGATTTGTGATATTCTTGAGGGATTTCTGATTTT
*
7517 CCTAATTATTTATTCAGATTTTTAAGGATTTTTTAAGGTTTTT
836 CCTAATTATTTATTCAGATTTTTAAGGATTTTTTAAAGTTTTT
7560 GTCAAGGATT
Statistics
Matches: 761, Mismatches: 92, Indels: 63
0.83 0.10 0.07
Matches are distributed among these distances:
940 41 0.05
941 20 0.03
942 68 0.09
944 1 0.00
945 1 0.00
950 50 0.07
951 378 0.50
952 92 0.12
953 102 0.13
954 8 0.01
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.52
Consensus pattern (946 bp):
GTTTTTTAATTCACTTTTTAAAGATTTTGGAAGCCTTTTGAAGCATTTTAAAGTTTTTTTTCATT
AAGTTTTAAGCATTTTCAAGATCCTTTTAACTATATTTAAGATTTTTAAGATGGTTTTCAAGGAA
TTTGATAGAATTTTGATTTTTCAAAGGGATTTCTAATTTTCGTAATTATTTATTTCGATTTTTAA
GGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGAAGCATGTTTAAGC
TTTTTGTCATGGATTTCAAAGGATTTTGAAATTATTTTCAAAGATTTTCTAGGAATTCTAAGGAT
TTTTAAGTTTTTTCAATTCATTTTTTAAGATGACCTTTTGAAGCATTTTAAGGTTTTGTTTATTG
ATTTTTAAGCAATTTCAAGGCCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTCAAGAAATT
TGATAGATTTGCGATGTTTTGAAGGGATTTTTAATTTTCCTAATTATATATTCCGATTTTTAAAG
ATTTTTTAAGCTTTTGTCAAGAATTGTTAAGCTCTTTTTAAGCATCTTTAAGGTCATTTTAAGCA
TTTTTAAACTTGTTTTCATGAATTTCAAAGGATTTTGAAGGTGTTTTCAAGGATTTTCTAAGAAT
TCTAAGGATTTATAAGATTTTCCAATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTT
TTAAAATTTTTTAATTGATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTAAG
AGTTTTTTCAAGGAATTTGATAGATTTGTGATATTCTTGAGGGATTTCTGATTTTCCTAATTATT
TATTCAGATTTTTAAGGATTTTTTAAAGTTTTTTAGGCTCGTTTTAAGCATGTTTAGGGTCATTT
TAAACATTTTTAAGCTTTTTTTCATGGACTTCAAAA
Found at i:6911 original size:21 final size:21
Alignment explanation
Indices: 6865--6939 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
6855 TATTTCGATT
* * *
6865 TTTAAGGTTTTTTCAAGGAT-
1 TTTAAGCTCTTTTCAAGCATG
6885 TATTAAGCTCTTTTCAAGCATG
1 T-TTAAGCTCTTTTCAAGCATG
* ** *
6907 TTTAAGGTCACTTGAAGCATG
1 TTTAAGCTCTTTTCAAGCATG
6928 TTTAAGCT-TTTT
1 TTTAAGCTCTTTT
6940 GTCATGGATT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.91
22 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTAAGCTCTTTTCAAGCATG
Found at i:7206 original size:10 final size:10
Alignment explanation
Indices: 7191--7356 Score: 59
Period size: 10 Copynumber: 15.9 Consensus size: 10
7181 TGTTTATTCC
7191 GATTTTTAAG
1 GATTTTTAAG
7201 GATTTTTTAAG
1 GA-TTTTTAAG
*
7212 GTTTTTTCAAG
1 GATTTTT-AAG
*
7223 AATTTTTAAG
1 GATTTTTAAG
**
7233 CTCTTTTTAAG
1 -GATTTTTAAG
* *
7244 CATGTTTAAG
1 GATTTTTAAG
7254 G-TCATTTTAAG
1 GAT--TTTTAAG
*
7265 CATTTTTAAG
1 GATTTTTAAG
** *
7275 CTTGTTTTCATG
1 GAT-TTTT-AAG
* **
7287 AATTTCAAAG
1 GATTTTTAAG
7297 GATTTTTAAG
1 GATTTTTAAG
7307 G-TGTTTTCAAG
1 GAT-TTTT-AAG
*
7318 GATTTTCTATG
1 GATTTT-TAAG
* *
7329 CA-TTCTAAG
1 GATTTTTAAG
*
7338 GATTTATAAG
1 GATTTTTAAG
*
7348 GTTTTTTAA
1 GATTTTTAA
7357 TTCATTTTTT
Statistics
Matches: 114, Mismatches: 29, Indels: 26
0.67 0.17 0.15
Matches are distributed among these distances:
9 6 0.05
10 55 0.48
11 47 0.41
12 6 0.05
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:7228 original size:32 final size:31
Alignment explanation
Indices: 7192--7323 Score: 88
Period size: 32 Copynumber: 4.2 Consensus size: 31
7182 GTTTATTCCG
*
7192 ATTTTTAAGGATTTTTTAAGGTTTTTTCAAGA
1 ATTTTTAAGGA-TTTTTAAGCTTTTTTCAAGA
** * *
7224 ATTTTTAAGCTCTTTTTAAGCATGTTT-AAG-
1 ATTTTTAAG-GATTTTTAAGCTTTTTTCAAGA
* * *
7254 GTCATTTTAAGCATTTTTAAGCTTGTTTTCATGA
1 AT--TTTTAAGGATTTTTAAGCTT-TTTTCAAGA
** * * *
7288 ATTTCAAAGGATTTTTAAGGTGTTTTCAAGG
1 ATTTTTAAGGATTTTTAAGCTTTTTTCAAGA
7319 ATTTT
1 ATTTT
7324 CTATGCATTC
Statistics
Matches: 74, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
30 1 0.01
31 24 0.32
32 46 0.62
33 2 0.03
34 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTTTTAAGGATTTTTAAGCTTTTTTCAAGA
Found at i:7232 original size:610 final size:617
Alignment explanation
Indices: 6077--7233 Score: 1597
Period size: 610 Copynumber: 1.9 Consensus size: 617
6067 TTTTTAATTC
* * * * *
6077 ATTTTTTAAGCCTTTTGAAGTATTTTTAAGGTTTGTTTATTGATTTTTTAAGAATTTCAAGGTCT
1 ATTTTTGAAGCCTTTTGAAGCATTTTTAAAGTTTGTTTATTGAATTTTTAAGAATTTCAAGGTCC
6142 TTTTAATGATATTTAAGGTTTTTAGGATTCTTTCTCATGAAATTTGATAGATTTGCGATGTTCTT
66 TTTTAATGATATTTAAGGTTTTTAGGATTCTTTCTCATGAAATTTGATAGATTTGCGATGTTCTT
*
6207 GAGGGTTTTCTAATTTTCCTAATTATATATTCCGATTTTTAAAGATTTTTTAAGCTTTTGTCAAG
131 GAGGGATTTCTAATTTTCCTAATTATATATT-C-A-TTTT-AAGATTTTTTAAGCTTTTGTCAAG
* * * * * * * *
6272 TATTGTTAAGCTCTTTTTAAGCATCTTTAAGGTCATTTTAAGCATTTTTAAACTTTTTTTCATGT
192 GATTATTAAGCTCTTTTCAAGCATCTTTAAGGTCACTTGAAGCATGTTTAAACTTTTTGTCATGG
* * * *
6337 TTTTCAAAGGATTTTGAAGTTGTTTTCAAGGATTTTTTAAGAATTTTAAGGATTTTTAAGATTTT
257 ATTTCAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAAGAATTTTAAGGATTTTTAAGATTTT
* * *
6402 CCATTTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAGGGTTTTTTCATTGTTTT
322 CCAATTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCATTTTTAAGGGTTTTTTCATTGATTT
* * *
6467 TTAAGCATTTTCAATGTCCTTTTAAGTATATTTAAGGTTTTTAATATATTTTTCAAGGAATTTGA
387 TTAAGCATTTTCAAGGCCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTTCAAGGAATTTGA
* *
6532 TAGATTTTTGATATTTTTAGGAGTTTTTAGTTTTTTAATTATTTATTCCGATTTTTAAGGTTTTT
452 TAGATTTTTGATATTTTAAGGAGTTTTTAATTTTTTAATTATTTATTCCGATTTTTAAGGTTTTT
**
6597 TCAAAGTTTTTTAGGCTCGTTTTAAGCATGTTTAGGGTCATTTTAAACATTTTTAAGCTTTTTTT
517 TCAAAGTTTTTTAGAATC-TTTTAAGCATGTTTAGGGTCATTTTAAACATTTTTAAGCTTTTTTT
6662 CATGGACTTCAAAAGTTTTTTAATTCACTTTTTAAAG
581 CATGGACTTCAAAAGTTTTTTAATTCACTTTTTAAAG
* *
6699 ATTTTTGAAGCCTTTTGAAGCATTTTTAAAGTTTTTTTCATT-AATTTTTAAGTATTTCAAGGTC
1 ATTTTTGAAGCCTTTTGAAGCATTTTTAAAGTTTGTTT-ATTGAATTTTTAAGAATTTCAAGGTC
* * * * * *
6763 CTTTTAATTATATTTAAGGTTTTTAGGATT-TTTTTCGA-GGAATTTGATATATTTGTGATGTTT
65 CTTTTAATGATATTTAAGGTTTTTAGGATTCTTTCTC-ATGAAATTTGATAGATTTGCGATGTTC
* * * * * *
6826 TTGGGGGATTTCTAATTTTCGTAA-T-TCT-TT-A-TTT-CGA-TTTTTAAGGTTTTTTCAAGGA
129 TTGAGGGATTTCTAATTTTCCTAATTATATATTCATTTTAAGATTTTTTAAGCTTTTGTCAAGGA
* *
6884 TTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGAAGCATGTTTAAGCTTTTTGTCATGGAT
194 TTATTAAGCTCTTTTCAAGCATCTTTAAGGTCACTTGAAGCATGTTTAAACTTTTTGTCATGGAT
* * *
6949 TTCAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAGGAATTTTAAGGATTTTTAAGTTTTTTC
259 TTCAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAAGAATTTTAAGGATTTTTAAGATTTTCC
* *
7014 AATTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCA-TTTTAAGGTTTTTTTTATTGATTTTT
324 AATTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCATTTTTAAGGGTTTTTTCATTGATTTTT
* *
7078 AAGCATTTTTAAGGCCCTTTTAAGTATATTTAGGGTTTTTAAGATA-TTTTCAAGGAATTTGATA
389 AAGCATTTTCAAGGCCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTTCAAGGAATTTGATA
* * *
7142 GATTTTTGTTGTTTTGAAGG-GATTTTTAATTTTCTTAATTGTTTATTCCGATTTTTAAGGATTT
454 GATTTTTGATATTTT-AAGGAG-TTTTTAATTTT-TTAATTATTTATTCCGATTTTTAAGG-TTT
*
7206 TTT-AAGGTTTTTTCAAGAAT-TTTTAAGC
515 TTTCAAAGTTTTTT--AGAATCTTTTAAGC
7234 TCTTTTTAAG
Statistics
Matches: 472, Mismatches: 55, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
608 32 0.07
609 77 0.16
610 210 0.44
611 8 0.02
612 3 0.01
613 3 0.01
615 1 0.00
618 2 0.00
619 2 0.00
620 1 0.00
621 47 0.10
622 83 0.18
623 3 0.01
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.52
Consensus pattern (617 bp):
ATTTTTGAAGCCTTTTGAAGCATTTTTAAAGTTTGTTTATTGAATTTTTAAGAATTTCAAGGTCC
TTTTAATGATATTTAAGGTTTTTAGGATTCTTTCTCATGAAATTTGATAGATTTGCGATGTTCTT
GAGGGATTTCTAATTTTCCTAATTATATATTCATTTTAAGATTTTTTAAGCTTTTGTCAAGGATT
ATTAAGCTCTTTTCAAGCATCTTTAAGGTCACTTGAAGCATGTTTAAACTTTTTGTCATGGATTT
CAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAAGAATTTTAAGGATTTTTAAGATTTTCCAA
TTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCATTTTTAAGGGTTTTTTCATTGATTTTTAA
GCATTTTCAAGGCCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTTCAAGGAATTTGATAGA
TTTTTGATATTTTAAGGAGTTTTTAATTTTTTAATTATTTATTCCGATTTTTAAGGTTTTTTCAA
AGTTTTTTAGAATCTTTTAAGCATGTTTAGGGTCATTTTAAACATTTTTAAGCTTTTTTTCATGG
ACTTCAAAAGTTTTTTAATTCACTTTTTAAAG
Found at i:7282 original size:11 final size:10
Alignment explanation
Indices: 7193--7282 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 10
7183 TTTATTCCGA
*
7193 TTTTTAAGGAT
1 TTTTTAA-GCT
*
7204 TTTTTAAGGT
1 TTTTTAAGCT
**
7214 TTTTTCAAGAA
1 TTTTT-AAGCT
7225 TTTTTAAGCT
1 TTTTTAAGCT
*
7235 CTTTTTAAGCA
1 -TTTTTAAGCT
* *
7246 TGTTTAAGGT
1 TTTTTAAGCT
* *
7256 CATTTTAAGCA
1 -TTTTTAAGCT
7267 TTTTTAAGCT
1 TTTTTAAGCT
7277 TGTTTT
1 T-TTTT
7283 CATGAATTTC
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
10 26 0.43
11 34 0.57
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.53
Consensus pattern (10 bp):
TTTTTAAGCT
Found at i:7282 original size:21 final size:20
Alignment explanation
Indices: 7193--7282 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 20
7183 TTTATTCCGA
* *
7193 TTTTTAAGGATTTTTTAAGGT
1 TTTTTAAGCA-TTTTTAAGCT
*
7214 TTTTTCAAGAATTTTTAAGCT
1 TTTTT-AAGCATTTTTAAGCT
* *
7235 CTTTTTAAGCATGTTTAAGGT
1 -TTTTTAAGCATTTTTAAGCT
*
7256 CATTTTAAGCATTTTTAAGCT
1 -TTTTTAAGCATTTTTAAGCT
7277 TGTTTT
1 T-TTTT
7283 CATGAATTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
21 48 0.84
22 9 0.16
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.53
Consensus pattern (20 bp):
TTTTTAAGCATTTTTAAGCT
Found at i:7659 original size:342 final size:340
Alignment explanation
Indices: 6676--8083 Score: 1625
Period size: 342 Copynumber: 4.2 Consensus size: 340
6666 GACTTCAAAA
* *
6676 GTTTTTTAATTCACTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAAGTTTTTTTCATT
1 GTTTTTTAATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAA-TTTTTTTAATT
* * * * * *
6741 AATTTTTAAGTA-TTTCAAGGTCCTTTTAATTATATTTAAGGTTTTTAGGATTTTTTTCGAGGAA
65 GATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTTAAGA-TATTTTCAAGGAA
* * * * *
6805 TTTGATATATTTGTGATGTTTTTGGGGGATTTCTAATTTTCGTAA-T-TCT-TT--A--TTT--C
129 TTTGATAGATTTGTGATGTTTTTGAGGGATTTCTAATTTTCTTAATTATTTATTCGATTTTTAAG
* * *
6861 GA-TTTTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTCAAGCATGTTTAAGGTCACTTGAAGC
194 GATTTTTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTAAGC
* * * * * *
6925 ATGTTTAAGCTTTTTGTCATGGATTTCAAAGGATTTTGAAATTATTTTCAAGGATTTTCTAGGAA
259 ATTTTTAAGCTTTTTTTCATGGATTTCAAAGGATTTTTAAGTTGTTTTCAAGGATTTTCTAAGAA
6990 TTTTAAGGATTTTTAA-
324 TTTTAAGGATTTTTAAG
* * *
7006 GTTTTTTCAATTCATTTTTTAAAGATTTTTGAAACCTTTTGAAGCA-TTTTAAGGTTTTTTTTAT
1 GTTTTTT-AATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAA-ATTTTTTTAAT
* * *
7070 TGATTTTTAAGCATTTTTAAGGCCCTTTTAAGTATATTTAGGGTTTTTAAGATATTTTCAAGGAA
64 TGATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTCAAGGAA
* * * *
7135 TTTGATAGATTTTTGTTG-TTTTGAAGGGATTTTTAATTTTCTTAATTGTTTATTCCGATTTTTA
129 TTTGATAGATTTGTGATGTTTTTG-AGGGATTTCTAATTTTCTTAATTATTTATT-CGATTTTTA
* *
7199 AGGATTTTTTAAGGTTTTTTCAAGAATTTTTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTAA
192 AGGATTTTTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTAA
* * * *
7264 GCATTTTTAAGCTTGTTTTCATGAATTTCAAAGGATTTTTAAGGTGTTTTCAAGGATTTTCTATG
257 GCATTTTTAAGCTTTTTTTCATGGATTTCAAAGGATTTTTAAGTTGTTTTCAAGGATTTTCTAAG
* * *
7329 CATTCTAAGGATTTATAAG
322 AATTTTAAGGATTTTTAAG
* * *
7348 GTTTTTTAATTCATTTTTTAAAGATTTTTTAAGCCTTTTGAAGTATTTTTTAAAATTTTTTAATT
1 GTTTTTTAATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCA-TTTTTAAATTTTTTTAATT
* * * *
7413 GATTTTTAAGCATTTTCAAGGTCCTTTTAATTATGTTTAAGG-TTTTAGGAGTTTTTTCAAGGAA
65 GATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTTAAGA-TATTTTCAAGGAA
* * *
7477 TTTGATAGATTTGTGATGTTCTTGAGGGATTTCTGATTTTCCTAATTATTTATTCAGATTTTTAA
129 TTTGATAGATTTGTGATGTTTTTGAGGGATTTCTAATTTTCTTAATTATTTATTC-GATTTTTAA
*
7542 GGATTTTTTAAGGTTTTTGTCAAGGATTATTAAGCTCTTTTTAAACATGTTTAAGGTCATTTTAA
193 GGATTTTTTAAGGTTTTT-TCAAGGATTATTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTAA
* ** **
7607 GTATTTGCAAGCTTTTTTTCATGTTTTTCAAAGGATTTTTAAGTTG-TTTCAAGGATTTTCTAAG
257 GCATTTTTAAGCTTTTTTTCATGGATTTCAAAGGATTTTTAAGTTGTTTTCAAGGATTTTCTAAG
*
7671 AATTTTAAAGATTTTTAAG
322 AATTTTAAGGATTTTTAAG
* ** ** * *
7690 G-TTTTCAATTCATTTTTTAAAGATTTTCAAAGCCTTTTGAATTATTTTTAAGGTTTTTTATCAT
1 GTTTTTTAATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAA-ATTTTTT-TAAT
* * * * *
7754 T-TTATTTTAAGCATTTTTAATGTCATTTTAAGTATATTTAAGG-TTTTAAGATAATTTTCAAGA
64 TGAT-TTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTTAAGAT-ATTTTCAAGG
* * * * * *
7817 AATTTGATTGATTTTTTTATGTTTTTTAGGGATTTTTAATTTTTTTAATTATTTATTTCGATTTT
127 AATTTGATAGA-TTTGTGATGTTTTTGAGGGATTTCTAATTTTCTTAATTATTTA-TTCGATTTT
* * * * *
7882 TAAAGATTTTTTAAGATTTTTTCAAAGATTTTTGAGCTCTTTTTAAGCATGTTTAAGGTCATTTT
190 TAAGGATTTTTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTT
* * * * *
7947 AAGTATTTTTAAGCTTTTTTTCATGGATTTGAAAAGATTTTTAATGTGGTTTTCATGGA-TTTC-
255 AAGCATTTTTAAGCTTTTTTTCATGGATTTCAAAGGATTTTTAA-GTTGTTTTCAAGGATTTTCT
**
8010 ----A----AAGGATTTTTGTG
319 AAGAATTTTAAGGATTTTTAAG
* * *
8024 GTTTTTTAAATT-ATTTTTTCAAGATTTTTGAAGTCTTTTGAAGCATTTTTAACTTTTTTT
1 GTTTTTT-AATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAATTTTTTT
8084 TTCATAGATT
Statistics
Matches: 923, Mismatches: 123, Indels: 61
0.83 0.11 0.06
Matches are distributed among these distances:
329 5 0.01
330 77 0.08
331 70 0.08
332 2 0.00
333 3 0.00
334 17 0.02
335 38 0.04
336 5 0.01
338 4 0.00
340 9 0.01
341 215 0.23
342 308 0.33
343 159 0.17
344 11 0.01
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (340 bp):
GTTTTTTAATTCATTTTTTAAAGATTTTTGAAGCCTTTTGAAGCATTTTTAAATTTTTTTAATTG
ATTTTTAAGCATTTTCAAGGTCCTTTTAAGTATATTTAAGGTTTTTAAGATATTTTCAAGGAATT
TGATAGATTTGTGATGTTTTTGAGGGATTTCTAATTTTCTTAATTATTTATTCGATTTTTAAGGA
TTTTTTAAGGTTTTTTCAAGGATTATTAAGCTCTTTTTAAGCATGTTTAAGGTCATTTTAAGCAT
TTTTAAGCTTTTTTTCATGGATTTCAAAGGATTTTTAAGTTGTTTTCAAGGATTTTCTAAGAATT
TTAAGGATTTTTAAG
Found at i:7894 original size:11 final size:11
Alignment explanation
Indices: 7878--7914 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
7868 TTTATTTCGA
7878 TTTTTAAAGAT
1 TTTTTAAAGAT
7889 TTTTT-AAGAT
1 TTTTTAAAGAT
7899 TTTTTCAAAGAT
1 TTTTT-AAAGAT
7911 TTTT
1 TTTT
7915 GAGCTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (11 bp):
TTTTTAAAGAT
Found at i:7967 original size:21 final size:20
Alignment explanation
Indices: 7878--7966 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 20
7868 TTTATTTCGA
*
7878 TTTTTAAAGATTTTTTAAGAT-
1 TTTTT-AAGA-TTTTTAAGCTC
*
7899 TTTTTCAAAGATTTTTGAGCTC
1 TTTTT--AAGATTTTTAAGCTC
* *
7921 TTTTTAAGCATGTTTAAGGTC
1 TTTTTAAG-ATTTTTAAGCTC
*
7942 ATTTTAAGTATTTTTAAGCT-
1 TTTTTAAG-ATTTTTAAGCTC
7962 TTTTT
1 TTTTT
7967 TCATGGATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 7 0.13
21 38 0.69
22 10 0.18
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTTTAAGATTTTTAAGCTC
Found at i:8072 original size:117 final size:116
Alignment explanation
Indices: 7941--8210 Score: 271
Period size: 117 Copynumber: 2.3 Consensus size: 116
7931 TGTTTAAGGT
* * ** *
7941 CATTTT-AAGTATTTTTAAGCTTTTTTTCATGGATTTGAAAAGATTTTTAATGTGGTTTTCATGG
1 CATTTTGAAGCATTTTTAAGCTTTTTTTCATGGATTTCAAAAGATTTTTAAT-AAGTTTTCAAGG
** ** * * *
8005 -ATTTCAAAGGATTTTTGTGGTTTTTTAAA-TTATTTTTTCAAGATTTTTGAAG
65 AATTT-AAAGGATTTTTAAGG-TTTTTAAAGGCATTTTGTAAAGATATTTGAAG
* * *
8057 TC-TTTTGAAGCATTTTTAA-CTTTTTTTTTCATAGATTTCAAAGGGTTTTTAATAAGTTTTCAA
1 -CATTTTGAAGCATTTTTAAGC--TTTTTTTCATGGATTTCAAAAGATTTTTAATAAGTTTTCAA
*
8120 GGAATTTTAAGGATTTTTAAGGTTTTTAAAGGCATTTTGTAAAGATATTTGAAG
63 GGAATTTAAAGGATTTTTAAGGTTTTTAAAGGCATTTTGTAAAGATATTTGAAG
* ** *
8174 CATTTTGAAACATTTTTAAGGATTTTTTCATGAATTT
1 CATTTTGAAGCATTTTTAAGCTTTTTTTCATGGATTT
8211 TTAAGTAATT
Statistics
Matches: 125, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
116 27 0.22
117 67 0.54
118 31 0.25
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (116 bp):
CATTTTGAAGCATTTTTAAGCTTTTTTTCATGGATTTCAAAAGATTTTTAATAAGTTTTCAAGGA
ATTTAAAGGATTTTTAAGGTTTTTAAAGGCATTTTGTAAAGATATTTGAAG
Found at i:8146 original size:10 final size:10
Alignment explanation
Indices: 8113--8200 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
8103 TTTTAATAAG
*
8113 TTTTCAAGGA
1 TTTTTAAGGA
*
8123 ATTTTAAGGA
1 TTTTTAAGGA
8133 TTTTTAAGG-
1 TTTTTAAGGA
8142 TTTTTAAAGGCA
1 TTTTT-AAGG-A
*
8154 TTTTGTAAAGA
1 TTTT-TAAGGA
* *
8165 TATTTGAAGCA
1 T-TTTTAAGGA
* **
8176 TTTTGAAACA
1 TTTTTAAGGA
8186 TTTTTAAGGA
1 TTTTTAAGGA
8196 TTTTT
1 TTTTT
8201 TCATGAATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
9 5 0.08
10 40 0.65
11 6 0.10
12 10 0.16
13 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.47
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:8361 original size:21 final size:21
Alignment explanation
Indices: 8320--8361 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8310 TTTTAAGGGT
* *
8320 TTTTTAAGGTTTTTCTCAAGA
1 TTTTTAAGCTTTTTCTAAAGA
8341 TTTTTAAGCTCTTTT-TAAAGA
1 TTTTTAAGCT-TTTTCTAAAGA
8362 CGTTTAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (21 bp):
TTTTTAAGCTTTTTCTAAAGA
Found at i:8407 original size:22 final size:23
Alignment explanation
Indices: 8373--8417 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8363 GTTTAATGTC
*
8373 ATTTTAAGCATTTTAAA-GATTT
1 ATTTTAAGCATTTCAAAGGATTT
* *
8395 ATTTTATGGATTTCAAAGGATTT
1 ATTTTAAGCATTTCAAAGGATTT
8418 TTAAGGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTTAAGCATTTCAAAGGATTT
Found at i:10197 original size:114 final size:115
Alignment explanation
Indices: 10055--10264 Score: 316
Period size: 114 Copynumber: 1.8 Consensus size: 115
10045 GTTTTTTTTT
* *
10055 ATGGATTTCAAAAGATTTTCAAGGTGTTTTC-CAGAAATTTTAAGGATTTTTAA-TTTTTTAAAG
1 ATGGATTTCAAAAGATTTTCAAGATGTTTTCAAAG-AATTTTAAGGATTTTTAAGTTTTTTAAAG
* *
10118 TATTTTTTAATGATTTTTGAAGTCTATTGAAATAGTTTTAACGCGTTTTAC
65 TATTTTTTAAAGATTTTTGAAGCCTATTGAAATAGTTTTAACGCGTTTTAC
* * *
10169 ATGGATTTCAACAGATTTTTAATATGTTTTCAAAGAATTTTAAGGATTTTTAAGGTTTTTTAAAG
1 ATGGATTTCAAAAGATTTTCAAGATGTTTTCAAAGAATTTTAAGGATTTTTAA-GTTTTTTAAAG
*
10234 TATTTTTTAAAGATTTTTGAAGCCTTTTGAA
65 TATTTTTTAAAGATTTTTGAAGCCTATTGAA
10265 CCATTTTTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
114 45 0.53
115 2 0.02
116 38 0.45
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (115 bp):
ATGGATTTCAAAAGATTTTCAAGATGTTTTCAAAGAATTTTAAGGATTTTTAAGTTTTTTAAAGT
ATTTTTTAAAGATTTTTGAAGCCTATTGAAATAGTTTTAACGCGTTTTAC
Found at i:10227 original size:9 final size:10
Alignment explanation
Indices: 10206--10345 Score: 68
Period size: 10 Copynumber: 13.4 Consensus size: 10
10196 TTTCAAAGAA
10206 TTTTAAGGAT
1 TTTTAAGGAT
*
10216 TTTTAAGGTT
1 TTTTAAGGAT
*
10226 TTTTAAAGTATT
1 TTTT-AAGGA-T
*
10238 TTTTAAAGAT
1 TTTTAAGGAT
**
10248 TTTTGAAGCCT
1 TTTT-AAGGAT
* **
10259 TTTGAACCAT
1 TTTTAAGGAT
*
10269 TTTTAAGGTT
1 TTTTAAGGAT
*
10279 TTATTCATGGAT
1 TT-TT-AAGGAT
**
10291 TTTTAAACAT
1 TTTTAAGGAT
10301 TTTTAA-GAT
1 TTTTAAGGAT
*
10310 CCTTTTAAGCAT
1 --TTTTAAGGAT
*
10322 GTTTAAGG-T
1 TTTTAAGGAT
10331 TTTTAAGAGAT
1 TTTTAAG-GAT
10342 TTTT
1 TTTT
10346 CATGAAATTC
Statistics
Matches: 95, Mismatches: 25, Indels: 19
0.68 0.18 0.14
Matches are distributed among these distances:
9 9 0.09
10 46 0.48
11 27 0.28
12 13 0.14
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.51
Consensus pattern (10 bp):
TTTTAAGGAT
Found at i:10241 original size:12 final size:11
Alignment explanation
Indices: 10206--10251 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 11
10196 TTTCAAAGAA
*
10206 TTTTAAGGA-T
1 TTTTAAAGATT
*
10216 TTTT-AAGGTT
1 TTTTAAAGATT
10226 TTTTAAAGTATT
1 TTTTAAAG-ATT
10238 TTTTAAAGATT
1 TTTTAAAGATT
10249 TTT
1 TTT
10252 GAAGCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 2 0.07
10 9 0.30
11 9 0.30
12 10 0.33
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (11 bp):
TTTTAAAGATT
Found at i:10271 original size:53 final size:51
Alignment explanation
Indices: 10214--10334 Score: 136
Period size: 53 Copynumber: 2.3 Consensus size: 51
10204 AATTTTAAGG
* *
10214 ATTTTTAAGGTTTTTTAAAGTATTTTTTAAAGATTTTTGAAG-CCTTTTGAACC
1 ATTTTTAAGGTTTTTTAAAGGA-TTTTTAAACATTTTT-AAGACCTTTT-AACC
* * *
10267 ATTTTTAAGGTTTTATTCATGGATTTTTAAACATTTTTAAGATCCTTTTAAGC
1 ATTTTTAAGGTTTT-TTAAAGGATTTTTAAACATTTTTAAGA-CCTTTTAACC
*
10320 ATGTTTAAGGTTTTT
1 ATTTTTAAGGTTTTT
10335 AAGAGATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
52 4 0.07
53 44 0.75
54 11 0.19
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.52
Consensus pattern (51 bp):
ATTTTTAAGGTTTTTTAAAGGATTTTTAAACATTTTTAAGACCTTTTAACC
Found at i:10290 original size:116 final size:114
Alignment explanation
Indices: 10006--10292 Score: 330
Period size: 116 Copynumber: 2.5 Consensus size: 114
9996 TTTTTGGCTC
* * * * * *
10006 TTTTTAAAGATGTTT-AAGGTCATTTGAAGCATTTTTAAAGTTTTTTTTTATGGATTTCAAAAGA
1 TTTTTAAAGATTTTTGAA-GTCTTTTGAAACATTTTT-AAGGTTTTATTCATGGATTTCAAAAGA
* *
10070 TTTTCAAGGTGTTTTCCAGAAATTTTAAGGATTTTTAATTTTTTAAAGTAT
64 TTTTCAAGATGTTTTCAAGAAATTTTAAGGATTTTTAATTTTTTAAAGTAT
* * * * *
10121 TTTTTAATGATTTTTGAAGTCTATTGAAATAGTTTTAACGCGTTTTA--CATGGATTTCAACAGA
1 TTTTTAAAGATTTTTGAAGTCTTTTGAAACATTTTTAA-G-GTTTTATTCATGGATTTCAAAAGA
* *
10184 TTTTTAATATGTTTTCAA-AGAATTTTAAGGATTTTTAAGGTTTTTTAAAGTAT
64 TTTTCAAGATGTTTTCAAGA-AATTTTAAGGATTTTTAA--TTTTTTAAAGTAT
* *
10237 TTTTTAAAGATTTTTGAAGCCTTTTGAACCATTTTTAAGGTTTTATTCATGGATTT
1 TTTTTAAAGATTTTTGAAGTCTTTTGAAACATTTTTAAGGTTTTATTCATGGATTT
10293 TTAAACATTT
Statistics
Matches: 143, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
113 1 0.01
114 54 0.38
115 28 0.20
116 60 0.42
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (114 bp):
TTTTTAAAGATTTTTGAAGTCTTTTGAAACATTTTTAAGGTTTTATTCATGGATTTCAAAAGATT
TTCAAGATGTTTTCAAGAAATTTTAAGGATTTTTAATTTTTTAAAGTAT
Found at i:10327 original size:116 final size:114
Alignment explanation
Indices: 10090--10337 Score: 292
Period size: 116 Copynumber: 2.2 Consensus size: 114
10080 GTTTTCCAGA
* * *
10090 AATTTTAAGGATTTTTAA-TTTTTTAAAGTATTTTTTAATGATTTTTGAAGTCTATTGAAATAGT
1 AATTTTAAGGATTTTTAAGTTTTTTAAAGTATTTTTTAAAGATTTTTGAAGCCTATTGAAACAGT
* * *
10154 TTTAACGCGTTTTACATGGATTTCAACAGATTTTTAATATGTTTTCAAAG
66 TTTAACGCGTTTTACATGGATTTCAACACATTTTTAAGATCTTTT-AAAG
* * *
10204 AATTTTAAGGATTTTTAAGGTTTTTTAAAGTATTTTTTAAAGATTTTTGAAGCCTTTTGAACCAT
1 AATTTTAAGGATTTTTAA-GTTTTTTAAAGTATTTTTTAAAGATTTTTGAAGCCTATTGAAACAG
*
10269 TTTTAA-G-GTTTTATTCATGGATTTTTAA-ACATTTTTAAGATCCTTTT-AAG
65 TTTTAACGCGTTTTA--CATGGA-TTTCAACACATTTTTAAGAT-CTTTTAAAG
*
10319 CATGTTTAAGG-TTTTTAAG
1 AAT-TTTAAGGATTTTTAAG
10338 AGATTTTTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
114 25 0.22
115 13 0.11
116 69 0.59
117 9 0.08
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (114 bp):
AATTTTAAGGATTTTTAAGTTTTTTAAAGTATTTTTTAAAGATTTTTGAAGCCTATTGAAACAGT
TTTAACGCGTTTTACATGGATTTCAACACATTTTTAAGATCTTTTAAAG
Found at i:10382 original size:20 final size:20
Alignment explanation
Indices: 10359--10396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10349 GAAATTCGAA
*
10359 AGATTTTTTATATTTTTAGG
1 AGATTTTTAATATTTTTAGG
*
10379 AGATTTTTAATTTTTTTA
1 AGATTTTTAATATTTTTA
10397 ATTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
AGATTTTTAATATTTTTAGG
Found at i:10432 original size:10 final size:10
Alignment explanation
Indices: 10412--10499 Score: 56
Period size: 10 Copynumber: 8.4 Consensus size: 10
10402 TTATTATGAA
10412 TTTTAAGGGTT
1 TTTTAA-GGTT
10423 TTTTAAGGTT
1 TTTTAAGGTT
*
10433 TTGTTCAA-GAT
1 TT-TT-AAGGTT
10444 TTTT-AGGCTCT
1 TTTTAAGG-T-T
*
10455 TTTTAAGGAT
1 TTTTAAGGTT
* *
10465 GTTTAATGTT
1 TTTTAAGGTT
10475 ATTTTAA-GTAT
1 -TTTTAAGGT-T
10486 TTTTAAGGTT
1 TTTTAAGGTT
10496 TTTT
1 TTTT
10500 TTTATGGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
8 1 0.02
9 1 0.02
10 29 0.48
11 25 0.41
12 5 0.08
ACGTcount: A:0.22, C:0.03, G:0.18, T:0.57
Consensus pattern (10 bp):
TTTTAAGGTT
Found at i:10500 original size:21 final size:20
Alignment explanation
Indices: 10422--10500 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
10412 TTTTAAGGGT
*
10422 TTTTTAAGGTTTTGTTCAAGA
1 TTTTTAAGGTTTT-TTTAAGA
*
10443 TTTTT-AGGCTCTTTTTAAGGA
1 TTTTTAAGG-TTTTTTTAA-GA
* * *
10464 TGTTTAATGTTATTTTAAGTA
1 TTTTTAAGGTTTTTTTAAG-A
10485 TTTTTAAGGTTTTTTT
1 TTTTTAAGGTTTTTTT
10501 TTATGGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
20 8 0.18
21 35 0.78
22 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.58
Consensus pattern (20 bp):
TTTTTAAGGTTTTTTTAAGA
Found at i:10818 original size:30 final size:30
Alignment explanation
Indices: 10756--10819 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
10746 TTTAAGTATT
* * *
10756 TTTTAAGGTTTTTTCATGGATTTGAAAGGA
1 TTTTAAGGTGTTTTCAGGGATTTGAAACGA
*
10786 TTTTAAGGTGTTTTCGAGGGATTT-TAACGA
1 TTTTAAGGTGTTTTC-AGGGATTTGAAACGA
10816 TTTT
1 TTTT
10820 TAAAGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.48
Consensus pattern (30 bp):
TTTTAAGGTGTTTTCAGGGATTTGAAACGA
Found at i:11005 original size:10 final size:10
Alignment explanation
Indices: 10983--11071 Score: 63
Period size: 11 Copynumber: 8.4 Consensus size: 10
10973 TTATTTCGAA
10983 TTTTAAGGATT
1 TTTTAAGG-TT
10994 TTTTAAGGTT
1 TTTTAAGGTT
*
11004 TTTTCAAGTTT
1 TTTT-AAGGTT
11015 TTTTAAGGTCT
1 TTTTAAGGT-T
* **
11026 TTTTAAAGAC
1 TTTTAAGGTT
* *
11036 GTTTAAGGTAA
1 TTTTAAGGT-T
11047 TTTTAA-GTAT
1 TTTTAAGGT-T
11057 TTTTAAAGGTT
1 TTTT-AAGGTT
11068 TTTT
1 TTTT
11072 TTATGGATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
10 23 0.37
11 37 0.60
12 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (10 bp):
TTTTAAGGTT
Found at i:11071 original size:21 final size:23
Alignment explanation
Indices: 10983--11072 Score: 66
Period size: 21 Copynumber: 4.2 Consensus size: 23
10973 TTATTTCGAA
*
10983 TTTT-AAGGATTTTTTAAGGT-T
1 TTTTAAAGTATTTTTTAAGGTAT
* *
11004 TTTTCAAGT-TTTTTTAAGGTCT
1 TTTTAAAGTATTTTTTAAGGTAT
** *
11026 TTTTAAAG-A-CGTTTAAGGTAA
1 TTTTAAAGTATTTTTTAAGGTAT
* *
11047 TTTT-AAGTATTTTTAAAGGTTT
1 TTTTAAAGTATTTTTTAAGGTAT
11069 TTTT
1 TTTT
11073 TATGGATTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.06
21 28 0.53
22 22 0.42
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.56
Consensus pattern (23 bp):
TTTTAAAGTATTTTTTAAGGTAT
Found at i:11264 original size:20 final size:20
Alignment explanation
Indices: 11239--11308 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
11229 AACGAATTTC
11239 AGAGATTTTTTATGTTTTTA
1 AGAGATTTTTTATGTTTTTA
*
11259 AGAGATTTTTAAT-TTTTTA
1 AGAGATTTTTTATGTTTTTA
** *
11278 A-TTATTTATTATGATTTTTA
1 AGAGATTTTTTATG-TTTTTA
11298 AG-GATTTTTTA
1 AGAGATTTTTTA
11309 AGATTTTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 7 0.17
19 7 0.17
20 26 0.65
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (20 bp):
AGAGATTTTTTATGTTTTTA
Found at i:11316 original size:21 final size:21
Alignment explanation
Indices: 11253--11584 Score: 68
Period size: 21 Copynumber: 15.9 Consensus size: 21
11243 ATTTTTTATG
11253 TTTTTAAGAGA-TTTTT-A-AT
1 TTTTTAAG-GATTTTTTAAGAT
** * *
11272 TTTTTAATTATTTATTATGA-
1 TTTTTAAGGATTTTTTAAGAT
11292 TTTTTAAGGATTTTTTAAGAT
1 TTTTTAAGGATTTTTTAAGAT
* * *
11313 TTTTTCAAGTA-TTTTTAGGCT
1 TTTTT-AAGGATTTTTTAAGAT
* * *
11334 CATTTTAAGGA-TGTTTAAGGT
1 -TTTTTAAGGATTTTTTAAGAT
* * * *
11355 CATTTTAAGCATTTCTAAAG-T
1 -TTTTTAAGGATTTTTTAAGAT
* ***
11376 TTTTCTATGGATTTCAAAAGA-
1 TTTT-TAAGGATTTTTTAAGAT
* *
11397 TTTTCAAGG-TGTTTTCAAAGA-
1 TTTTTAAGGAT-TTTT-TAAGAT
* *
11418 ATTTTAAGGA-TTTTTAAGGT
1 TTTTTAAGGATTTTTTAAGAT
* *
11438 TTTTTAAAGTATTTTTCAAAGA-
1 TTTTT-AAGGATTTTT-TAAGAT
* *
11460 TTTTTAA-AATCTTTTGAAG-T
1 TTTTTAAGGAT-TTTTTAAGAT
* *
11480 ATTTTTAAGGTTTTTTTTCATGGA-
1 -TTTTTAAGG-ATTTTTT-A-AGAT
* * * *
11504 TTTTAAAAGA-TTTTTAATAA
1 TTTTTAAGGATTTTTTAAGAT
* * *
11524 GTTTCAAGGAATTTTTAAGA-
1 TTTTTAAGGATTTTTTAAGAT
* *
11544 TTTTTAAGGATTTTTAAATAAT
1 TTTTTAAGGATTTTTTAA-GAT
*
11566 TTTTTAAAGATTTTTTAAG
1 TTTTTAAGGATTTTTTAAG
11585 CCTTTTGAAG
Statistics
Matches: 226, Mismatches: 59, Indels: 54
0.67 0.17 0.16
Matches are distributed among these distances:
18 1 0.00
19 16 0.07
20 59 0.26
21 95 0.42
22 42 0.19
23 12 0.05
24 1 0.00
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (21 bp):
TTTTTAAGGATTTTTTAAGAT
Found at i:11440 original size:9 final size:10
Alignment explanation
Indices: 11290--11955 Score: 98
Period size: 10 Copynumber: 63.9 Consensus size: 10
11280 TATTTATTAT
11290 GATTTTTAAG
1 GATTTTTAAG
11300 GATTTTTTAA-
1 GA-TTTTTAAG
11310 GATTTTTTCAAG
1 GA-TTTTT-AAG
*
11322 TATTTTT-AG
1 GATTTTTAAG
*
11331 GCTCATTTTAAG
1 GAT--TTTTAAG
*
11343 GATGTTTAAG
1 GATTTTTAAG
11353 G-TCATTTTAAG
1 GAT--TTTTAAG
* * *
11364 CATTTCTAAA
1 GATTTTTAAG
* *
11374 GTTTTTCTATG
1 GATTTT-TAAG
** *
11385 GATTTCAAAA
1 GATTTTTAAG
*
11395 GATTTTCAAG
1 GATTTTTAAG
*
11405 G-TGTTTTCAAA
1 GAT-TTTT-AAG
*
11416 GAATTTTAAG
1 GATTTTTAAG
11426 GATTTTTAAG
1 GATTTTTAAG
*
11436 GTTTTTTAAAG
1 GATTTTT-AAG
* *
11447 TATTTTTCAAA
1 GATTTTT-AAG
11458 GATTTTTAA-
1 GATTTTTAAG
*
11467 AATCTTTTGAAG
1 GAT-TTTT-AAG
*
11479 TATTTTTAAG
1 GATTTTTAAG
* *
11489 GTTTTTTTTCATG
1 G--ATTTTT-AAG
* *
11502 GATTTTAAAA
1 GATTTTTAAG
*
11512 GATTTTTAAT
1 GATTTTTAAG
* * *
11522 AAGTTTCAAG
1 GATTTTTAAG
11532 GAATTTTTAA-
1 G-ATTTTTAAG
11542 GATTTTTAAG
1 GATTTTTAAG
*
11552 GATTTTTAAAT
1 GATTTTT-AAG
* *
11563 AATTTTTTAAA
1 GA-TTTTTAAG
11574 GATTTTTTAAG
1 GA-TTTTTAAG
** *
11585 CCTTTTGAAG
1 GATTTTTAAG
*
11595 CG--TTTTAAA
1 -GATTTTTAAG
*
11604 GATTTTTTTCATG
1 GA--TTTTT-AAG
*
11617 GATTGTTTTAG
1 GATT-TTTAAG
*
11628 CATTTTTAAG
1 GATTTTTAAG
** *
11638 CTTTTTTTATG
1 -GATTTTTAAG
* *
11649 GATTTTAAAT
1 GATTTTTAAG
* *
11659 AATTTTTCAG
1 GATTTTTAAG
*
11669 GAGTTTTCAAG
1 GA-TTTTTAAG
* *
11680 AAATTTTAAG
1 GATTTTTAAG
11690 GATTTTTAAAG
1 GATTTTT-AAG
*
11701 TATTTTTAA-
1 GATTTTTAAG
*
11710 TAGTTTTTGAA-
1 GA-TTTTT-AAG
*
11721 -TTTTTTGAAG
1 GATTTTT-AAG
*
11731 CA-TTTTAAG
1 GATTTTTAAG
*
11740 GTTTTTTTTCATA-
1 G--ATTTTT-A-AG
11753 GATTTTTAAG
1 GATTTTTAAG
*
11763 CATTTTTAA-
1 GATTTTTAAG
*
11772 GATCCTTTGAAG
1 GAT--TTTTAAG
* *
11784 CATATTTAAG
1 GATTTTTAAG
11794 G-TTTTTAAG
1 GATTTTTAAG
11803 AGATTTTTCAAG
1 -GATTTTT-AAG
* *
11815 GCA-TTTGAAA
1 G-ATTTTTAAG
* *
11825 GATTTTTGAT
1 GATTTTTAAG
*
11835 GTTTTTTAAGG
1 GATTTTTAA-G
11846 GA-TTTT-A-
1 GATTTTTAAG
* *
11853 -TTTTTTAAT
1 GATTTTTAAG
* *
11862 TATTTATT-AC
1 GATTT-TTAAG
*
11872 GAATTTTAAG
1 GATTTTTAAG
*
11882 AATTTTTTAA-
1 GA-TTTTTAAG
11892 GATTTATCTCAAG
1 GATTT-T-T-AAG
11905 GATTTTTAAG
1 GATTTTTAAG
*
11915 AAGTTTTTCAAG
1 GA-TTTTT-AAG
* *
11927 GAATTTTAGG
1 GATTTTTAAG
11937 GATTTTTAAG
1 GATTTTTAAG
*
11947 GTTTTTTAA
1 GATTTTTAA
11956 AGTATTTTTT
Statistics
Matches: 463, Mismatches: 127, Indels: 132
0.64 0.18 0.18
Matches are distributed among these distances:
7 4 0.01
8 2 0.00
9 50 0.11
10 198 0.43
11 153 0.33
12 42 0.09
13 13 0.03
14 1 0.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:11495 original size:42 final size:42
Alignment explanation
Indices: 11396--11495 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
11386 ATTTCAAAAG
* * *
11396 ATTTTCAAGGTGTTTTCAAAGAATTTTAAGGATTTTTAAGGT
1 ATTTTTAAGGTTTTTTCAAAGAATTTTAAGAATTTTTAAGGT
* *
11438 -TTTTTAAAGTATTTTTCAAAGATTTTTAA-AATCTTTTGAA-GT
1 ATTTTTAAGGT-TTTTTCAAAGAATTTTAAGAAT-TTTT-AAGGT
11480 ATTTTTAAGGTTTTTT
1 ATTTTTAAGGTTTTTT
11496 TTCATGGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
41 10 0.21
42 27 0.56
43 11 0.23
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (42 bp):
ATTTTTAAGGTTTTTTCAAAGAATTTTAAGAATTTTTAAGGT
Found at i:11654 original size:116 final size:117
Alignment explanation
Indices: 11375--11620 Score: 302
Period size: 116 Copynumber: 2.1 Consensus size: 117
11365 ATTTCTAAAG
* * *** * *
11375 TTTTTCTATGGATTTCAAAAGATTTTCAAGGTGTTTTCAAAGAA-TTTTAAGGATTTTTAAGGTT
1 TTTTTC-ATGGATTTTAAAAGATTTTTAATAAG-TTTCAAGGAATTTTTAAGGATTTTTAAGGAT
* * * *
11439 TTTTAAAGTATTTTTCAAAGATTTTTAAAATCTTTTGAAGTATTTTTAAGGTTT
64 TTTTAAAGTATTTTTCAAAGATTTTTAAAACCTTTTGAAGTAGTTTTAAAGATT
11493 TTTTTCATGGATTTTAAAAGATTTTTAATAAGTTTCAAGGAATTTTTAA-GATTTTTAAGGATTT
1 TTTTTCATGGATTTTAAAAGATTTTTAATAAGTTTCAAGGAATTTTTAAGGATTTTTAAGGATTT
* * * *
11557 TTAAA-TAATTTTTTAAAGATTTTTTAAGCCTTTTGAAG-CGTTTTAAAGATT
66 TTAAAGT-ATTTTTCAAAGATTTTTAAAACCTTTTGAAGTAGTTTTAAAGATT
11608 TTTTTCATGGATT
1 TTTTTCATGGATT
11621 GTTTTAGCAT
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
115 23 0.21
116 55 0.50
117 27 0.24
118 6 0.05
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (117 bp):
TTTTTCATGGATTTTAAAAGATTTTTAATAAGTTTCAAGGAATTTTTAAGGATTTTTAAGGATTT
TTAAAGTATTTTTCAAAGATTTTTAAAACCTTTTGAAGTAGTTTTAAAGATT
Found at i:11675 original size:21 final size:21
Alignment explanation
Indices: 11641--11709 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
11631 TTTTAAGCTT
*
11641 TTTTTATGGA-TTTTAAATAA
1 TTTTTAAGGAGTTTTAAATAA
* * *
11661 TTTTTCAGGAGTTTTCAAGAA
1 TTTTTAAGGAGTTTTAAATAA
* *
11682 ATTTTAAGGATTTTTAAAGT-A
1 TTTTTAAGGAGTTTTAAA-TAA
11703 TTTTTAA
1 TTTTTAA
11710 TAGTTTTTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 8 0.22
21 29 0.78
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (21 bp):
TTTTTAAGGAGTTTTAAATAA
Found at i:11815 original size:21 final size:21
Alignment explanation
Indices: 11791--11851 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
11781 AAGCATATTT
11791 AAGGTTTTTAAGAGATTTTTC
1 AAGGTTTTTAAGAGATTTTTC
* * *
11812 AAGGCATTTGAA-AGATTTTTG
1 AAGG-TTTTTAAGAGATTTTTC
* * *
11833 ATGTTTTTTAAGGGATTTT
1 AAGGTTTTTAAGAGATTTT
11852 ATTTTTTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (21 bp):
AAGGTTTTTAAGAGATTTTTC
Found at i:11827 original size:53 final size:51
Alignment explanation
Indices: 11724--11827 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 51
11714 TTTTGAATTT
* * **
11724 TTTGAAGCATTTTAAGGTTTTTTTTCATAGATTTTTAAGCATTTTTAAGATCC
1 TTTGAAGCATTTTAAGG--TTTTTTAAGAGATTTTTAAGCATTTGAAAGATCC
11777 TTTGAAGCATATTTAAGG-TTTTTAAGAGATTTTTCAAGGCATTTGAAAGAT
1 TTTGAAGCAT-TTTAAGGTTTTTTAAGAGATTTTT-AA-GCATTTGAAAGAT
11828 TTTTGATGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
51 14 0.32
52 2 0.05
53 21 0.48
54 7 0.16
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (51 bp):
TTTGAAGCATTTTAAGGTTTTTTAAGAGATTTTTAAGCATTTGAAAGATCC
Found at i:11925 original size:22 final size:21
Alignment explanation
Indices: 11885--11964 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
11875 TTTTAAGAAT
11885 TTTTTAAG-ATTTATCTCAAGGA
1 TTTTTAAGAATTT-T-TCAAGGA
11907 TTTTTAAGAAGTTTTTCAAGGA
1 TTTTTAAGAA-TTTTTCAAGGA
* * * *
11929 ATTTTAGGGATTTTT-AAGGT
1 TTTTTAAGAATTTTTCAAGGA
*
11949 TTTTTAAAGTATTTTT
1 TTTTT-AAGAATTTTT
11965 TAAATATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.17
21 13 0.27
22 22 0.46
23 2 0.04
24 3 0.06
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (21 bp):
TTTTTAAGAATTTTTCAAGGA
Found at i:12009 original size:260 final size:257
Alignment explanation
Indices: 11683--12172 Score: 711
Period size: 260 Copynumber: 1.9 Consensus size: 257
11673 TTTCAAGAAA
**
11683 TTTTAAGGATTTTTAAAGTATTTTTAATAGTTTTTGAATTTTTTGAAGCATTTTAAGGTTTTTTT
1 TTTTAAGGATTTTTAAAGTATTTTTAATAGTTTTTGAATTTTTTGAAGCATTTTAAGGGGTTTTT
* * * *
11748 TCATAGATTTTTAAGCATTTTTAAGATCCT-TTGAAGCATATTTAAGGTTTTTAAGAGATTTTTC
66 TCATAGATTTTTAAGCAATTTTAAGATCATCTT-AAACATATTTAAGATTTTTAAGAGATTTTTC
* * * *
11812 AAGGCATTT-GAAAGATTTTTGATGTTTTTTAAGGGA-TTTT-ATTTTTTAATTATTTATTACGA
130 AAGGAATTTAG-AAGATTTTTGATG-CTTTTAAAGGATTTTTAATTTGTTAATTATTTATTACGA
11874 ATTTTAAGAATTTTTTAAGATTTATCTCAAGGATTTTTAAGAAGTTTTTCAAGGAATTTTAGGGA
193 ATTTTAAGAATTTTTTAAGATTTATCTCAA-GATTTTTAAGAAGTTTTTCAAGGAATTTTAGGGA
11939 T
257 T
*
11940 TTTTAAGGTTTTTTAAAGTATTTTTTAAATA-TTTTTGAATCTTTTTGAAGCATTTTTAAGGGGT
1 TTTTAAGGATTTTTAAAGTA-TTTTT-AATAGTTTTTGAAT-TTTTTGAAGCA-TTTTAAGGGGT
* * *
12004 TTTTTCATGGATTTTTAAGTAATTTTAAGATCATCTTAAACTTATTTAAGATTTTTAAGAGATTT
62 TTTTTCATAGATTTTTAAGCAATTTTAAGATCATCTTAAACATATTTAAGATTTTTAAGAGATTT
12069 TTCAAGGAATTTAGAAGATTTTTGATGCTTTTAAAGGATTTTTAATTTGTTAATTATTTATTACG
127 TTCAAGGAATTTAGAAGATTTTTGATGCTTTTAAAGGATTTTTAATTTGTTAATTATTTATTACG
** * *
12134 AATTTTAAGGGTTTTTTAAGATTTTTTTCAAGATTTTTA
192 AATTTTAAGAATTTTTTAAGATTTATCTCAAGATTTTTA
12173 GGCTCTTTTT
Statistics
Matches: 207, Mismatches: 18, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
257 19 0.09
258 14 0.07
259 24 0.12
260 100 0.48
261 50 0.24
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.51
Consensus pattern (257 bp):
TTTTAAGGATTTTTAAAGTATTTTTAATAGTTTTTGAATTTTTTGAAGCATTTTAAGGGGTTTTT
TCATAGATTTTTAAGCAATTTTAAGATCATCTTAAACATATTTAAGATTTTTAAGAGATTTTTCA
AGGAATTTAGAAGATTTTTGATGCTTTTAAAGGATTTTTAATTTGTTAATTATTTATTACGAATT
TTAAGAATTTTTTAAGATTTATCTCAAGATTTTTAAGAAGTTTTTCAAGGAATTTTAGGGAT
Found at i:12307 original size:11 final size:12
Alignment explanation
Indices: 12282--12319 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
12272 ACTTTTAAGG
*
12282 TTTTTTAAAGTA
1 TTTTTTAAAGCA
12294 TTTTTTAAAG-A
1 TTTTTTAAAGCA
12305 -TTTTTAAAGCA
1 TTTTTTAAAGCA
12316 TTTT
1 TTTT
12320 AAAGGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 2 0.08
12 13 0.54
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (12 bp):
TTTTTTAAAGCA
Found at i:12308 original size:22 final size:22
Alignment explanation
Indices: 12274--12319 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
12264 TTTTAAGGAC
* * *
12274 TTTTAAGGTTTTTTAAAGTATT
1 TTTTAAAGATTTTTAAAGCATT
12296 TTTTAAAGATTTTTAAAGCATT
1 TTTTAAAGATTTTTAAAGCATT
12318 TT
1 TT
12320 AAAGGTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTTAAAGATTTTTAAAGCATT
Found at i:12556 original size:10 final size:10
Alignment explanation
Indices: 12543--12592 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
12533 TTTAAAGTTT
*
12543 TTTTCATGGA
1 TTTTCAAGGA
*
12553 TTTTAAAGGA
1 TTTTCAAGGA
*
12563 TTTTTAAGGTA
1 TTTTCAAGG-A
*
12574 CTTTCAAGGA
1 TTTTCAAGGA
12584 TTTTCAAGG
1 TTTTCAAGG
12593 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (10 bp):
TTTTCAAGGA
Found at i:15213 original size:29 final size:29
Alignment explanation
Indices: 15158--15213 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
15148 ATCATATTAG
*
15158 TATTAATAATGTTTAAATTATATATAAAA
1 TATTAATAATGTTTAAATTATAAATAAAA
15187 TATTAAT-AT-TTTAAATTTTATAAATAA
1 TATTAATAATGTTTAAA--TTATAAATAA
15214 TTTATTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
28 2 0.08
29 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTAATAATGTTTAAATTATAAATAAAA
Found at i:15229 original size:10 final size:9
Alignment explanation
Indices: 15218--15261 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
15208 AAATAATTTA
15218 TTCTTTTTT
1 TTCTTTTTT
*
15227 ATTCTATTTT
1 -TTCTTTTTT
*
15237 TTC-TATTT
1 TTCTTTTTT
15245 TTCTTTTTT
1 TTCTTTTTT
15254 TTCTTTTT
1 TTCTTTTT
15262 CATGGGTCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 6 0.21
9 15 0.52
10 8 0.28
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:15253 original size:17 final size:16
Alignment explanation
Indices: 15223--15261 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
15213 ATTTATTCTT
15223 TTTTATTCTATTTTTTC
1 TTTT-TTCTATTTTTTC
*
15240 TATTTTTCTTTTTTTTC
1 T-TTTTTCTATTTTTTC
15257 TTTTT
1 TTTTT
15262 CATGGGTCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 13 0.65
18 3 0.15
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTATTTTTTC
Found at i:15847 original size:17 final size:17
Alignment explanation
Indices: 15825--15858 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15815 TAATCGATTT
*
15825 TACAGAATCTTTATTCC
1 TACAGAATATTTATTCC
15842 TACAGAATATTTATTCC
1 TACAGAATATTTATTCC
15859 ATGTCTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (17 bp):
TACAGAATATTTATTCC
Found at i:19362 original size:13 final size:13
Alignment explanation
Indices: 19344--19369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19334 AGGAGAAATT
19344 ATGATTTTATAAA
1 ATGATTTTATAAA
19357 ATGATTTTATAAA
1 ATGATTTTATAAA
19370 TTTTCTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:21982 original size:10 final size:10
Alignment explanation
Indices: 21956--22016 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
21946 GATTTCAATA
21956 GATTTTTAAG
1 GATTTTTAAG
*
21966 GTGTTTTTAAG
1 G-ATTTTTAAG
*
21977 GATTTTCAAG
1 GATTTTTAAG
21987 AGA-TTTTATA-
1 -GATTTTTA-AG
21997 GATTTTTAAG
1 GATTTTTAAG
*
22007 GCTTTTTAAG
1 GATTTTTAAG
22017 TCATTTGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 3 0.07
10 26 0.63
11 12 0.29
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:22032 original size:41 final size:41
Alignment explanation
Indices: 21953--22034 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
21943 ATTGATTTCA
* * *
21953 ATAGATTTTTAAGGTGTTTTTAAGGATTTTCAAGAGATTTT
1 ATAGATTTTTAAGGTCTTTTTAAGCATTTTCAAAAGATTTT
21994 ATAGATTTTTAAGG-CTTTTTAAGTCATTTGT-AAAAGATTTT
1 ATAGATTTTTAAGGTCTTTTTAAG-CATTT-TCAAAAGATTTT
22035 CAAAGTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 8 0.22
41 27 0.75
42 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (41 bp):
ATAGATTTTTAAGGTCTTTTTAAGCATTTTCAAAAGATTTT
Found at i:22495 original size:21 final size:20
Alignment explanation
Indices: 22465--22503 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22455 TAGAGACGAC
22465 TTAATCGACTAAGAAGCATAG
1 TTAATCGACTAAG-AGCATAG
*
22486 TTAATTGACTAAGAGCAT
1 TTAATCGACTAAGAGCAT
22504 TTTGTCAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
TTAATCGACTAAGAGCATAG
Found at i:23357 original size:21 final size:21
Alignment explanation
Indices: 23333--23400 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
23323 TTTTCATAGA
23333 TTTTAAAGGATTTTTAAGGTG
1 TTTTAAAGGATTTTTAAGGTG
* * *
23354 TTTTCAAGG-GTTTTAAGGAG
1 TTTTAAAGGATTTTTAAGGTG
* * *
23374 ATTTT-ATGAATTTTTAAGGTT
1 -TTTTAAAGGATTTTTAAGGTG
23395 TTTTAA
1 TTTTAA
23401 GTCATTTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.28, C:0.01, G:0.21, T:0.50
Consensus pattern (21 bp):
TTTTAAAGGATTTTTAAGGTG
Found at i:23505 original size:9 final size:10
Alignment explanation
Indices: 23331--23534 Score: 87
Period size: 10 Copynumber: 19.7 Consensus size: 10
23321 GTTTTTCATA
*
23331 GATTTTAAAG
1 GATTTTTAAG
23341 GATTTTTAAG
1 GATTTTTAAG
23351 G-TGTTTTCAAG
1 GAT-TTTT-AAG
*
23362 G-GTTTTAAG
1 GATTTTTAAG
* *
23371 GAGATTTTATG
1 GA-TTTTTAAG
*
23382 AATTTTTAAG
1 GATTTTTAAG
*
23392 GTTTTTTAAG
1 GATTTTTAAG
* *
23402 TCATTTTTGAAA
1 -GATTTTT-AAG
*
23414 GATTTTTAAA
1 GATTTTTAAG
23424 G-TCTTTTAATG
1 GAT-TTTTAA-G
*
23435 GACTTTT-AG
1 GATTTTTAAG
*
23444 GTGTTTTTAATG
1 G-ATTTTTAA-G
* *
23456 AATTTTTAAA
1 GATTTTTAAG
* *
23466 CATTTTTCAG
1 GATTTTTAAG
23476 GCCA-TTTTAAG
1 G--ATTTTTAAG
*
23487 GATATTTAAG
1 GATTTTTAAG
23497 G-TTTTTAAG
1 GATTTTTAAG
23506 AGATTTTTCAAG
1 -GATTTTT-AAG
* *
23518 GATTTTGAAA
1 GATTTTTAAG
23528 GATTTTT
1 GATTTTT
23535 TTATGTTTTT
Statistics
Matches: 146, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
9 16 0.11
10 70 0.48
11 53 0.36
12 7 0.05
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:23523 original size:21 final size:20
Alignment explanation
Indices: 23479--23534 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
23469 TTTTCAGGCC
*
23479 ATTTTAAG-GATATTTAAGG
1 ATTTTAAGAGATTTTTAAGG
*
23498 TTTTTAAGAGATTTTTCAAGG
1 ATTTTAAGAGATTTTT-AAGG
23519 ATTTTGAA-AGATTTTT
1 ATTTT-AAGAGATTTTT
23535 TTATGTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 6 0.19
21 16 0.52
22 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (20 bp):
ATTTTAAGAGATTTTTAAGG
Found at i:23685 original size:21 final size:21
Alignment explanation
Indices: 23661--23706 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23651 TTTTTAAGTC
*
23661 TTTTTCATG-GATTTCAAAAGA
1 TTTTTAATGTGATTTC-AAAGA
*
23682 TTTTTAATGTGTTTTCAAAGA
1 TTTTTAATGTGATTTCAAAGA
23703 TTTT
1 TTTT
23707 CAAGGGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (21 bp):
TTTTTAATGTGATTTCAAAGA
Found at i:23946 original size:22 final size:22
Alignment explanation
Indices: 23912--23963 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
23902 TTATTACGTT
23912 TTTTTAA-GA-TTTTTTAAAGGA
1 TTTTTAAGGATTTTTTTAAA-GA
*
23933 TTTTTAAGGGTTTTTTTAAAGA
1 TTTTTAAGGATTTTTTTAAAGA
*
23955 TGTTTAAGG
1 TTTTTAAGG
23964 TCATTTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (22 bp):
TTTTTAAGGATTTTTTTAAAGA
Found at i:23947 original size:10 final size:10
Alignment explanation
Indices: 23912--24562 Score: 77
Period size: 10 Copynumber: 62.7 Consensus size: 10
23902 TTATTACGTT
23912 TTTTTAA-GA
1 TTTTTAAGGA
23921 TTTTTTAAAGGA
1 -TTTTT-AAGGA
*
23933 TTTTTAAGGGTT
1 TTTTTAA-GG-A
*
23945 TTTTTAAAGA
1 TTTTTAAGGA
*
23955 TGTTTAAGG-
1 TTTTTAAGGA
*
23964 TCATTTTAAGCA
1 T--TTTTAAGGA
* **
23976 TTTTAAAGTT
1 TTTTTAAGGA
*
23986 TTTTTCATGGA
1 TTTTT-AAGGA
**
23997 TTTCAAAGGA
1 TTTTTAAGGA
*
24007 GTTTTAAAGTG-
1 -TTTTTAAG-GA
* *
24018 GTTTCAAGGA
1 TTTTTAAGGA
*
24028 TTTTAAAGAGA
1 TTTTTAAG-GA
*
24039 -TTTTATGGA
1 TTTTTAAGGA
*
24048 TTTTCAAGG-
1 TTTTTAAGGA
*
24057 TTTTGTAAGTAA
1 TTTT-TAAG-GA
* *
24069 TTTTAAAAAGA
1 TTTT-TAAGGA
**
24080 TTTTTAAAGTC
1 TTTTT-AAGGA
*
24091 TTTTTAATGA
1 TTTTTAAGGA
* **
24101 ATTTTAAGTTT
1 TTTTTAAG-GA
*
24112 TTTTTCATGGA
1 TTTTT-AAGGA
**
24123 TTTTTAAACA
1 TTTTTAAGGA
24133 TTTTTAAGG-
1 TTTTTAAGGA
24142 TCCTTTTAAGGA
1 T--TTTTAAGGA
*
24154 TATTTAAGG-
1 TTTTTAAGGA
* *
24163 TTTTTTAGACA
1 TTTTTAAG-GA
24174 TTTTTAAAGGA
1 TTTTT-AAGGA
* *
24185 ATTTGAAGGA
1 TTTTTAAGGA
* *
24195 TTTTTTATG-
1 TTTTTAAGGA
24204 TTTTTAAGGGCA
1 TTTTTAA-GG-A
*
24216 -TTTTAA--T
1 TTTTTAAGGA
**
24223 TTTTTAATTA
1 TTTTTAAGGA
24233 TTTATTACA--A
1 TTT-TTA-AGGA
* *
24243 ATTTTAAAGA
1 TTTTTAAGGA
*
24253 TTTTTTAAAGCA
1 -TTTTT-AAGGA
*
24265 TTTTCAAGGA
1 TTTTTAAGGA
* *
24275 TTTTTAGGGTC
1 TTTTTAAGG-A
24286 TTTTTAAGGA
1 TTTTTAAGGA
*
24296 TGTTTAAGG-
1 TTTTTAAGGA
* **
24305 TCATTCTAAATA
1 T--TTTTAAGGA
*
24317 TTTTTAAGGTT
1 TTTTTAAGG-A
* *
24328 TTTTTCATGAA
1 TTTTT-AAGGA
*
24339 TTTTAAAGGA
1 TTTTTAAGGA
24349 TTTTTAAGG-
1 TTTTTAAGGA
*
24358 TTGTTTCAATGA
1 TT-TTT-AAGGA
*
24370 TTTTTTAGGGA
1 -TTTTTAAGGA
*
24381 -TTTTATGGA
1 TTTTTAAGGA
*
24390 TTTTTAAAG-
1 TTTTTAAGGA
*
24399 TTTTTAAAGTCA
1 TTTTT-AAG-GA
*
24411 TTTTTAAAAGA
1 TTTTT-AAGGA
**
24422 TTTTTAAAGTC
1 TTTTT-AAGGA
*
24433 TTTTTAAAGAA
1 TTTTT-AAGGA
* **
24444 TTTTAAAGTT
1 TTTTTAAGGA
*
24454 TTTTTCATGGA
1 TTTTT-AAGGA
**
24465 TTTTTAAACA
1 TTTTTAAGGA
*
24475 TTTTTAATG-
1 TTTTTAAGGA
24484 TCCTTTTAAGGA
1 T--TTTTAAGGA
*
24496 TATTTAA-GA
1 TTTTTAAGGA
24505 TTTTT-AGAGA
1 TTTTTAAG-GA
*
24515 TTTTTAAAAGAA
1 TTTTT--AAGGA
*
24527 TTTGTAA-GA
1 TTTTTAAGGA
* *
24536 TTTTTTATG-
1 TTTTTAAGGA
24545 TTTTTAAGAGA
1 TTTTTAAG-GA
24556 TTTTTAA
1 TTTTTAA
24563 TTTTTAATTA
Statistics
Matches: 446, Mismatches: 132, Indels: 125
0.63 0.19 0.18
Matches are distributed among these distances:
8 8 0.02
9 59 0.13
10 174 0.39
11 155 0.35
12 46 0.10
13 4 0.01
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.50
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:23970 original size:23 final size:24
Alignment explanation
Indices: 23920--23963 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
23910 TTTTTTTAAG
*
23920 ATTTTTTAAAGGATTTTTAAGGGT
1 ATTTTTTAAAGGATGTTTAAGGGT
23944 -TTTTTTAAA-GATGTTTAAGG
1 ATTTTTTAAAGGATGTTTAAGG
23964 TCATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (24 bp):
ATTTTTTAAAGGATGTTTAAGGGT
Found at i:24148 original size:21 final size:20
Alignment explanation
Indices: 24124--24180 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
24114 TTTCATGGAT
24124 TTTTAAACATTTTTAAGGTCC
1 TTTTAAACATTTTTAAGGT-C
** * *
24145 TTTTAAGGATATTTAAGGTT
1 TTTTAAACATTTTTAAGGTC
*
24165 TTTTAGACATTTTTAA
1 TTTTAAACATTTTTAA
24181 AGGAATTTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (20 bp):
TTTTAAACATTTTTAAGGTC
Found at i:24289 original size:21 final size:21
Alignment explanation
Indices: 24265--24306 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24255 TTTTAAAGCA
* *
24265 TTTTCAAGGATTTTTAGGGTC
1 TTTTCAAGGATGTTTAAGGTC
*
24286 TTTTTAAGGATGTTTAAGGTC
1 TTTTCAAGGATGTTTAAGGTC
24307 ATTCTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (21 bp):
TTTTCAAGGATGTTTAAGGTC
Found at i:24353 original size:11 final size:11
Alignment explanation
Indices: 24339--24481 Score: 77
Period size: 11 Copynumber: 13.5 Consensus size: 11
24329 TTTTCATGAA
24339 TTTTAAAGGAT
1 TTTTAAAGGAT
24350 TTTT-AAGG-T
1 TTTTAAAGGAT
* *
24359 TGTTTCAATGAT
1 T-TTTAAAGGAT
* *
24371 TTTTTAGGGA-
1 TTTTAAAGGAT
*
24381 TTTT-ATGGAT
1 TTTTAAAGGAT
24391 TTTTAAA-G-T
1 TTTTAAAGGAT
*
24400 TTTTAAAGTCAT
1 TTTTAAAG-GAT
*
24412 TTTTAAAAGAT
1 TTTTAAAGGAT
**
24423 TTTTAAAGTCT
1 TTTTAAAGGAT
*
24434 TTTTAAA-GAA
1 TTTTAAAGGAT
**
24444 TTTTAAAGTTT
1 TTTTAAAGGAT
* *
24455 TTTTCATGGAT
1 TTTTAAAGGAT
*
24466 TTTTAAA-CAT
1 TTTTAAAGGAT
24476 TTTTAA
1 TTTTAA
24482 TGTCCTTTTA
Statistics
Matches: 98, Mismatches: 25, Indels: 19
0.69 0.18 0.13
Matches are distributed among these distances:
9 14 0.14
10 31 0.32
11 43 0.44
12 10 0.10
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (11 bp):
TTTTAAAGGAT
Found at i:24366 original size:342 final size:339
Alignment explanation
Indices: 23923--24608 Score: 1013
Period size: 342 Copynumber: 2.0 Consensus size: 339
23913 TTTTAAGATT
* * * *
23923 TTTTAAAGGATTTTTAAGGGTTTTTTTAAAGATGTTTAAGGTCATTTTAAGCATTTTAAAGTTTT
1 TTTTCAAGGATTTTTAAGGGTCTTTTTAAAGATGTTTAAGGTCATTCTAAACATTTTAAAGTTTT
*
23988 TTTCATGGATTTCAAAGGAGTTTTAAAGTGGTTTCAAGGATTTTAAAGAGATTTTATGGATTTTC
66 TTTCATGAATTTCAAAGGAGTTTTAAAGTGGTTTCAAGGATTTTAAAGAGATTTTATGGATTTTC
* *
24053 AAGGTTTTGT-AAGTAATTTTAAAAAGATTTTTAAAGTCTTTTTAATGAATTTT-AAGTTTTTTT
131 AAAGTTTT-TAAAGTAATTTTAAAAAGATTTTTAAAGTCTTTTTAAAGAATTTTAAAG-TTTTTT
*
24116 TCATGGATTTTTAAACATTTTTAAGGTCCTTTTAAGGATATTTAAGGTTTTTTAGACATTTTTAA
194 TCATGGATTTTTAAACATTTTTAAGGTCCTTTTAAGGATATTTAA-GATTTTTAGACATTTTTAA
* *
24181 AGGAATTTG-AAGGATTTTTTATGTTTTTAAGGGCA-TTTTAATTTTTTAATTATTTATTACAAA
258 AAGAATTTGTAA-GATTTTTTATGTTTTTAAGAG-ATTTTTAA-TTTTTAATTATTTATTACAAA
24244 TTTTAAAGATTTTTTAAAGCA
320 TTTTAAAGA-TTTTTAAAGCA
* * *
24265 TTTTCAAGGATTTTT-AGGGTCTTTTTAAGGATGTTTAAGGTCATTCTAAATATTTTTAAGGTTT
1 TTTTCAAGGATTTTTAAGGGTCTTTTTAAAGATGTTTAAGGTCATTCTAAACA-TTTTAAAGTTT
* * * * * ** *
24329 TTTTCATGAATTTTAAAGGATTTTTAAGGTTGTTTCAATGATTTTTTAGGGATTTTATGGATTTT
65 TTTTCATGAATTTCAAAGGAGTTTTAAAGTGGTTTCAAGGATTTTAAAGAGATTTTATGGATTTT
* * *
24394 TAAAGTTTTTAAAGTCATTTTTAAAAGATTTTTAAAGTCTTTTTAAAGAATTTTAAAGTTTTTTT
130 CAAAGTTTTTAAAGTAATTTTAAAAAGATTTTTAAAGTCTTTTTAAAGAATTTTAAAGTTTTTTT
* *
24459 CATGGATTTTTAAACATTTTTAATGTCCTTTTAAGGATATTTAAGATTTTTAGAGATTTTTAAAA
195 CATGGATTTTTAAACATTTTTAAGGTCCTTTTAAGGATATTTAAGATTTTTAGACATTTTTAAAA
*
24524 GAATTTGTAAGATTTTTTATGTTTTTAAGAGATTTTTAATTTTTAATTATTTATTACGAATTTTA
260 GAATTTGTAAGATTTTTTATGTTTTTAAGAGATTTTTAATTTTTAATTATTTATTACAAATTTTA
*
24589 AAGATTTTTAAAGCC
325 AAGATTTTTAAAGCA
24604 TTTTC
1 TTTTC
24609 GGAGATTTTT
Statistics
Matches: 311, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
339 15 0.05
340 30 0.10
341 84 0.27
342 179 0.58
343 3 0.01
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (339 bp):
TTTTCAAGGATTTTTAAGGGTCTTTTTAAAGATGTTTAAGGTCATTCTAAACATTTTAAAGTTTT
TTTCATGAATTTCAAAGGAGTTTTAAAGTGGTTTCAAGGATTTTAAAGAGATTTTATGGATTTTC
AAAGTTTTTAAAGTAATTTTAAAAAGATTTTTAAAGTCTTTTTAAAGAATTTTAAAGTTTTTTTC
ATGGATTTTTAAACATTTTTAAGGTCCTTTTAAGGATATTTAAGATTTTTAGACATTTTTAAAAG
AATTTGTAAGATTTTTTATGTTTTTAAGAGATTTTTAATTTTTAATTATTTATTACAAATTTTAA
AGATTTTTAAAGCA
Found at i:24382 original size:32 final size:32
Alignment explanation
Indices: 24316--24384 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
24306 CATTCTAAAT
*
24316 ATTTTTAAGGTTTTTTTCATGAATTTTAAAGG
1 ATTTTTAAGGTTTGTTTCATGAATTTTAAAGG
* * *
24348 ATTTTTAAGG-TTGTTTCAATGATTTTTTAGGG
1 ATTTTTAAGGTTTGTTTC-ATGAATTTTAAAGG
24380 ATTTT
1 ATTTT
24385 ATGGATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (32 bp):
ATTTTTAAGGTTTGTTTCATGAATTTTAAAGG
Found at i:24413 original size:21 final size:22
Alignment explanation
Indices: 24389--24481 Score: 97
Period size: 21 Copynumber: 4.4 Consensus size: 22
24379 GATTTTATGG
24389 ATTTTTAAAG-TTTTTAAAGTC
1 ATTTTTAAAGATTTTTAAAGTC
24410 ATTTTTAAAAGATTTTTAAAGTC
1 ATTTTT-AAAGATTTTTAAAGTC
*
24433 -TTTTTAAAGAATTTTAAAGT-
1 ATTTTTAAAGATTTTTAAAGTC
* **
24453 TTTTTTCATGGATTTTTAAA--C
1 ATTTTT-AAAGATTTTTAAAGTC
24474 ATTTTTAA
1 ATTTTTAA
24482 TGTCCTTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.02
21 30 0.49
22 19 0.31
23 11 0.18
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (22 bp):
ATTTTTAAAGATTTTTAAAGTC
Found at i:24599 original size:10 final size:10
Alignment explanation
Indices: 24388--24601 Score: 104
Period size: 10 Copynumber: 21.1 Consensus size: 10
24378 GGATTTTATG
24388 GATTTTTAAA
1 GATTTTTAAA
24398 G-TTTTTAAA
1 GATTTTTAAA
24407 GTCATTTTTAAAA
1 G--ATTTTT-AAA
24420 GATTTTTAAA
1 GATTTTTAAA
*
24430 GTCTTTTTAAA
1 G-ATTTTTAAA
*
24441 GAATTTTAAA
1 GATTTTTAAA
* **
24451 GTTTTTTTCATG
1 G-ATTTTT-AAA
24463 GATTTTTAAA
1 GATTTTTAAA
* *
24473 CATTTTTAAT
1 GATTTTTAAA
*
24483 G-TCCTTTTAAG
1 GAT--TTTTAAA
*
24494 GATATTT-AA
1 GATTTTTAAA
*
24503 GATTTTTAGA
1 GATTTTTAAA
24513 GATTTTTAAAA
1 GATTTTT-AAA
*
24524 GAATTTGT-AA
1 G-ATTTTTAAA
* *
24534 GATTTTTTAT
1 GATTTTTAAA
24544 G-TTTTTAAGA
1 GATTTTTAA-A
24554 GATTTTT--A
1 GATTTTTAAA
*
24562 -ATTTTTAAT
1 GATTTTTAAA
* *
24571 TATTTATT-AC
1 GATTT-TTAAA
*
24581 GAATTTTAAA
1 GATTTTTAAA
24591 GATTTTTAAA
1 GATTTTTAAA
24601 G
1 G
24602 CCTTTTCGGA
Statistics
Matches: 153, Mismatches: 30, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
7 6 0.04
8 1 0.01
9 30 0.20
10 58 0.38
11 41 0.27
12 13 0.08
13 4 0.03
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (10 bp):
GATTTTTAAA
Found at i:24617 original size:58 final size:58
Alignment explanation
Indices: 24552--24679 Score: 256
Period size: 58 Copynumber: 2.2 Consensus size: 58
24542 ATGTTTTTAA
24552 GAGATTTTTAATTTTTAATTATTTATTACGAATTTTAAAGATTTTTAAAGCCTTTTCG
1 GAGATTTTTAATTTTTAATTATTTATTACGAATTTTAAAGATTTTTAAAGCCTTTTCG
24610 GAGATTTTTAATTTTTAATTATTTATTACGAATTTTAAAGATTTTTAAAGCCTTTTCG
1 GAGATTTTTAATTTTTAATTATTTATTACGAATTTTAAAGATTTTTAAAGCCTTTTCG
24668 GAGATTTTTAAT
1 GAGATTTTTAAT
24680 GTCTTTTTAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 70 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (58 bp):
GAGATTTTTAATTTTTAATTATTTATTACGAATTTTAAAGATTTTTAAAGCCTTTTCG
Found at i:24778 original size:20 final size:20
Alignment explanation
Indices: 24740--24778 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24730 ATGGAATTTA
*
24740 AAGGATTTTAAGGTGTTTTC
1 AAGGATTTTAAGATGTTTTC
24760 AAGGATTTTATAGAT-TTTT
1 AAGGATTTTA-AGATGTTTT
24779 AAAGTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
AAGGATTTTAAGATGTTTTC
Found at i:24909 original size:20 final size:20
Alignment explanation
Indices: 24870--24909 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24860 TTTTAAAGTC
*
24870 TTTTTAAAAATATTTTAAGA
1 TTTTTAAAAATATTTCAAGA
24890 TTTTTAGAAAAT-TTTCAAGA
1 TTTTTA-AAAATATTTCAAGA
24910 AATTTGAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (20 bp):
TTTTTAAAAATATTTCAAGA
Found at i:25149 original size:41 final size:41
Alignment explanation
Indices: 25073--25150 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
25063 ATTTCAAAGA
*
25073 ATTTTTAAGGTGTTTTCAAAGATTTTCAAGGGATTTTATAG
1 ATTTTTAAGGTGTTTTCAAAGATTTTCAAGAGATTTTATAG
*
25114 ATTTTTAAGGT-TTTT-AAAGTCATTTTCAATAGATTTT
1 ATTTTTAAGGTGTTTTCAAAG--ATTTTCAAGAGATTTT
25151 TAAAGTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.12
40 4 0.12
41 25 0.76
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.50
Consensus pattern (41 bp):
ATTTTTAAGGTGTTTTCAAAGATTTTCAAGAGATTTTATAG
Found at i:25350 original size:26 final size:26
Alignment explanation
Indices: 25299--25350 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
25289 TCTTTTGGAA
*
25299 TTATTCAATTCTTTCCAATTTATCTT
1 TTATTCAATTCTTTCAAATTTATCTT
25325 TTATTCAAATT-TATTCAAATTT-TCTT
1 TTATTC-AATTCT-TTCAAATTTATCTT
25351 ATAAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTCAATTCTTTCAAATTTATCTT
Found at i:26000 original size:2 final size:2
Alignment explanation
Indices: 25993--26035 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25983 AATTAAGTAA
25993 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
26035 A
1 A
26036 ACACCATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26160 original size:31 final size:30
Alignment explanation
Indices: 26117--26201 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
26107 TATTTTTCAA
* *
26117 ATATTTTTTTTAATTTAGTCCCTCAACCTCT
1 ATATTTTGTTTAATTTAGTCCCTCAA-CTAT
* **
26148 CA-ATTTTGTTTAATTTTGTCCCTGTACTAT
1 -ATATTTTGTTTAATTTAGTCCCTCAACTAT
26178 ATATTTTTGTTTAATTTAGTCCCT
1 ATA-TTTTGTTTAATTTAGTCCCT
26202 ATAACATGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.02
30 4 0.09
31 39 0.87
32 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (30 bp):
ATATTTTGTTTAATTTAGTCCCTCAACTAT
Found at i:26334 original size:32 final size:31
Alignment explanation
Indices: 26271--26340 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
26261 TAGCATATCA
*
26271 ATGCCACATCATCATATTAGTGCCAAACGGC
1 ATGCCACATCATCATATTAATGCCAAACGGC
* **
26302 ACTGCCACATCATCA-AGTTAATGTCATGCGGC
1 A-TGCCACATCATCATA-TTAATGCCAAACGGC
26334 ATGCCAC
1 ATGCCAC
26341 GCATCATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (31 bp):
ATGCCACATCATCATATTAATGCCAAACGGC
Found at i:44371 original size:2 final size:2
Alignment explanation
Indices: 44359--44389 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
44349 CCTTATATTT
*
44359 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44390 TCTTGATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:45209 original size:26 final size:26
Alignment explanation
Indices: 45160--45209 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
45150 TTAACTGAAA
*
45160 GTGCTTTTATAGGAAAAAATGAGAAG
1 GTGCTTTTATAGCAAAAAATGAGAAG
*
45186 GTGCTTTTGTAGCAAGAAAA-GAGA
1 GTGCTTTTATAGCAA-AAAATGAGA
45210 TATGACCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.28, T:0.26
Consensus pattern (26 bp):
GTGCTTTTATAGCAAAAAATGAGAAG
Found at i:45768 original size:2 final size:2
Alignment explanation
Indices: 45755--45795 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
45745 CATACAGAAT
*
45755 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
45796 AGTACATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:50205 original size:20 final size:20
Alignment explanation
Indices: 50182--50229 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
50172 AATCAAATCA
*
50182 CTCAATAAATAAT-CTGAAAT
1 CTCAATAAA-AATACTCAAAT
*
50202 CTCAATCAAAATACTCAAAT
1 CTCAATAAAAATACTCAAAT
*
50222 ATCAATAA
1 CTCAATAA
50230 TTAAATACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (20 bp):
CTCAATAAAAATACTCAAAT
Found at i:55354 original size:39 final size:40
Alignment explanation
Indices: 55290--55403 Score: 144
Period size: 39 Copynumber: 2.9 Consensus size: 40
55280 ACTTTAGATT
* *
55290 CTGGCTTAGCATTGGTAAGCGGTGAAGTTGAAGTAGAG-C
1 CTGGCTTAGCATTGCTAAGCAGTGAAGTTGAAGTAGAGTC
* * *
55329 CTGGATTAGCATTGTTAAGAAGTGAAGTTGAAGTAGAGTC
1 CTGGCTTAGCATTGCTAAGCAGTGAAGTTGAAGTAGAGTC
*
55369 C-AGCTTA-CAATTGCTAAGCAGTGAAGTTGAAGTAG
1 CTGGCTTAGC-ATTGCTAAGCAGTGAAGTTGAAGTAG
55404 GTGATCGGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.02
39 62 0.95
40 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (40 bp):
CTGGCTTAGCATTGCTAAGCAGTGAAGTTGAAGTAGAGTC
Found at i:58977 original size:282 final size:285
Alignment explanation
Indices: 58455--59010 Score: 750
Period size: 282 Copynumber: 1.9 Consensus size: 285
58445 TATTTGTGTA
*
58455 ATGTAATTAATTCAGAAATTATAATTGAACGGTCATATTCTAGAATTAAGGCTCTAGGTCTAGAT
1 ATGTAATTAATTCAGAAATTATAATTGAACGGTCATATTCTAGAATCAAGGCTCTAGGTCTAG--
* ** *
58520 CCCTTCTCTATATGCTAAAACTTTATTATCTGATATCATGGTTCCGCCTCTCAGACATGGGCCTG
64 -CCTTCTCTATATGCTAAAACTTGATTATCTGATATCACAGTTCCACCTCTCAGACATGGGCC-G
*
58585 ACATTTTCCCATCTTGATTAGCAATTAGCCTTTTCAGTGATTTGCATACATGGGATTGTTAGCTT
127 ACATTTTCCCATCTTGATTAGCAATTAGCCTTTTCAGTGATTTACATACATGGGATTGTTAGCTT
* ** *
58650 AGATCAGATGCTGGTGAACCTGTGAATGATTCGAATTGGATTAATT-TGTTGTTCAAGGGTCAAT
192 AGATCAGATGCTGGTGAACCTGTGAATGATTCAAATTGGATTAATTCAATTGTTCAAGAGTCAAT
58714 GTTAAATTATTGTAATTAATATTCATGTG
257 GTTAAATTATTGTAATTAATATTCATGTG
* * *
58743 ATGTAATTAATTCAGAAATTATAGTTGAACTGTTATATTCTAGAATCAAGGCTCTAGGT-T-G-C
1 ATGTAATTAATTCAGAAATTATAATTGAACGGTCATATTCTAGAATCAAGGCTCTAGGTCTAGCC
*
58805 TTCTCTATATGCTAAAACTTGATTATCTGATATCACAGTTCCACCTCTCAGACATGGGGC-ACAT
66 TTCTCTATATGCTAAAACTTGATTATCTGATATCACAGTTCCACCTCTCAGACATGGGCCGACAT
* * * * * *
58869 GTCTTCCTATCTTGATTATG-AGTTAGTCTTATT-GGTTATTTACATACATGGGATTGTTATCTC
131 -T-TTCCCATCTTGATTA-GCAATTAGCCTT-TTCAGTGATTTACATACATGGGATTGTTAGCT-
* * * *
58932 T-TATCAGATGCTGGTGAACCTGTGAATGATTCAAATTGTATTAATTCAATTTTTCCAGAGTCAA
191 TAGATCAGATGCTGGTGAACCTGTGAATGATTCAAATTGGATTAATTCAATTGTTCAAGAGTCAA
*
58996 TGTTAAGTTATTGTA
256 TGTTAAATTATTGTA
59011 TCACTGATGC
Statistics
Matches: 237, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
280 4 0.02
281 1 0.00
282 145 0.61
283 30 0.13
286 1 0.00
287 1 0.00
288 55 0.23
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (285 bp):
ATGTAATTAATTCAGAAATTATAATTGAACGGTCATATTCTAGAATCAAGGCTCTAGGTCTAGCC
TTCTCTATATGCTAAAACTTGATTATCTGATATCACAGTTCCACCTCTCAGACATGGGCCGACAT
TTTCCCATCTTGATTAGCAATTAGCCTTTTCAGTGATTTACATACATGGGATTGTTAGCTTAGAT
CAGATGCTGGTGAACCTGTGAATGATTCAAATTGGATTAATTCAATTGTTCAAGAGTCAATGTTA
AATTATTGTAATTAATATTCATGTG
Found at i:66361 original size:36 final size:36
Alignment explanation
Indices: 66262--66367 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
66252 TCAACTCAGC
* *
66262 TCATGTGCACTCCCACACCGCACATAGCTAATATTG
1 TCATGTGCACTCCCACACCGCACATAGTTATTATTG
*
66298 TCATGTGCACTCCCACACCACACATAGTTATTATTG
1 TCATGTGCACTCCCACACCGCACATAGTTATTATTG
* *
66334 TTATGTGCACTCCCACACTGCACATAGTTATTAT
1 TCATGTGCACTCCCACACCGCACATAGTTATTAT
66368 CATCATCCCG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGTTATTATTG
Found at i:67663 original size:28 final size:28
Alignment explanation
Indices: 67619--67678 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
67609 AAGTGAATGT
*
67619 ATACTTGTAACCTACCACAAGTAGATGA
1 ATACTTGTAACCTACCAAAAGTAGATGA
* * *
67647 ATACTTTTAACAC-ACCAAAAGTGGATGG
1 ATACTTGTAAC-CTACCAAAAGTAGATGA
67675 ATAC
1 ATAC
67679 CTTAACTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (28 bp):
ATACTTGTAACCTACCAAAAGTAGATGA
Found at i:70256 original size:20 final size:20
Alignment explanation
Indices: 70231--70271 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
70221 TGATAATGAT
*
70231 ATCTATATGAAAATTTCTAA
1 ATCTATATGAAAATTCCTAA
70251 ATCTATATGAAAATTCCTAA
1 ATCTATATGAAAATTCCTAA
70271 A
1 A
70272 GGATTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (20 bp):
ATCTATATGAAAATTCCTAA
Found at i:74219 original size:27 final size:27
Alignment explanation
Indices: 74137--74221 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
74127 AATATTTGTT
* *
74137 CCTAGGCGCTTTCGA-GCTTGGAACGCT
1 CCTAGGCGCTTTC-ACGCTTAGAACGCC
* * * * * *
74164 CTTGGGCACTTCCACGCTCCA-AACACC
1 CCTAGGCGCTTTCACGCT-TAGAACGCC
74191 CCTAGGCGCTTTCACGCTTAGAACGCC
1 CCTAGGCGCTTTCACGCTTAGAACGCC
74218 CCTA
1 CCTA
74222 AAAGCTTCTG
Statistics
Matches: 41, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (27 bp):
CCTAGGCGCTTTCACGCTTAGAACGCC
Found at i:74585 original size:26 final size:27
Alignment explanation
Indices: 74549--74619 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
74539 GTTCTTGGGC
* *
74549 GCTTTTCGCAATTGGAATGCCCTCGGG-
1 GCTTTT-GCAATTGAAACGCCCTCGGGT
* *
74576 GGTTTTGCAATTGAAACGCCCTTGGGT
1 GCTTTTGCAATTGAAACGCCCTCGGGT
74603 GCTTTTGCAATTGAAAC
1 GCTTTTGCAATTGAAAC
74620 ATCCCTGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (27 bp):
GCTTTTGCAATTGAAACGCCCTCGGGT
Found at i:75238 original size:15 final size:15
Alignment explanation
Indices: 75218--75248 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75208 AAATGAAAGA
*
75218 TTTTATTTTTTATTT
1 TTTTATTATTTATTT
75233 TTTTATTATTTATTT
1 TTTTATTATTTATTT
75248 T
1 T
75249 GCAACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTATTTATTT
Found at i:75872 original size:29 final size:29
Alignment explanation
Indices: 75830--75892 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
75820 GATAGAAGGC
*
75830 GTTCAATCAATGTTTCTTCTCTTAGGGGT
1 GTTCTATCAATGTTTCTTCTCTTAGGGGT
75859 GTTCTATCAATGTTTCTTCTCTTAGGGGT
1 GTTCTATCAATGTTTCTTCTCTTAGGGGT
75888 GTTCT
1 GTTCT
75893 GAATACTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (29 bp):
GTTCTATCAATGTTTCTTCTCTTAGGGGT
Found at i:75977 original size:37 final size:37
Alignment explanation
Indices: 75866--75990 Score: 128
Period size: 37 Copynumber: 3.3 Consensus size: 37
75856 GGTGTTCTAT
* * *
75866 CAATGTTTCTTCTCTTAGGGGTGTTCTGAATACTACTCA
1 CAATGCTTCTTTTCTT--GGGTGTTCTGAATACAACTCA
* **
75905 CAATACTT-TTTCTGCAAGAGGTGTTCT-AATACAACTCA
1 CAATGCTTCTTT-T-CTTG-GGTGTTCTGAATACAACTCA
*
75943 CAATGCTTCTTTTCTTGGGTGTTTTGAATACAACTCA
1 CAATGCTTCTTTTCTTGGGTGTTCTGAATACAACTCA
75980 CAATGCTTCTT
1 CAATGCTTCTT
75991 ATTTCCATGT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
36 7 0.10
37 24 0.34
38 21 0.30
39 18 0.25
40 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (37 bp):
CAATGCTTCTTTTCTTGGGTGTTCTGAATACAACTCA
Found at i:76920 original size:17 final size:16
Alignment explanation
Indices: 76878--76920 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
76868 GCATATGAAA
*
76878 ATTTATTTAGTATTTT
1 ATTTATTTAGGATTTT
*
76894 AGTTAGTTTAGGATTTT
1 ATTTA-TTTAGGATTTT
76911 ATTTTATTTA
1 A-TTTATTTA
76921 TTTAGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (16 bp):
ATTTATTTAGGATTTT
Found at i:84704 original size:27 final size:26
Alignment explanation
Indices: 84674--84771 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 26
84664 TGCCACTTAT
84674 GTGCTTAGAACGCCCCTAGGCACTTTC
1 GTGCTT-GAACGCCCCTAGGCACTTTC
* * * *
84701 GTGCTTGAAACGCACAT-GGACGCTTCC
1 GTGCTTG-AACGCCCCTAGG-CACTTTC
* * *
84728 GTGCTTGAAAGTACACTAGGCACTTTC
1 GTGCTTGAACG-CCCCTAGGCACTTTC
*
84755 GTGCTTAGAACTCCCCT
1 GTGCTT-GAACGCCCCT
84772 GGGTATTTCT
Statistics
Matches: 51, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
26 6 0.12
27 40 0.78
28 5 0.10
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (26 bp):
GTGCTTGAACGCCCCTAGGCACTTTC
Done.