Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004146.1 Hibiscus syriacus cultivar Beakdansim tig00009068_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 158016
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4142 original size:2 final size:2
Alignment explanation
Indices: 4135--4182 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4125 TTATGCATTT
4135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4177 TA TA TA
1 TA TA TA
4183 GCATCCTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4264 original size:48 final size:48
Alignment explanation
Indices: 4183--4283 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
4173 TATATATATA
* * *
4183 GCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTCTCAATTATG
1 GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCAATTATG
*
4231 GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTTTCAATTATG
1 GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCAATTATG
4279 G-ATTC
1 GCATTC
4284 GATTTAGAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 4 0.08
48 45 0.92
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (48 bp):
GCATTCTTTCATGCCTTAATGCATCATTTCATGCATTTCTCAATTATG
Found at i:4835 original size:95 final size:94
Alignment explanation
Indices: 4672--4891 Score: 253
Period size: 95 Copynumber: 2.3 Consensus size: 94
4662 ATGCTCTATA
** * * * * ** * *
4672 GTATCGATACTATTACCCTGGTACCGATACTTCTATACCATGGTATCGATACCTCCGTCCGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
* * *
4737 CGATACCGAATTTAGCTTTGATGTTT-CCTG
66 CGATACC-AA-ATAGATTCGATGTTTGCCTG
* *
4767 GTATCGATACCCTTACCATGGTATCGATACTACTATACTATAGTAAAGATACCCCCTTACGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
*
4832 CGATACCAAATAGATTCGATGTTTGCTTG
66 CGATACCAAATAGATTCGATGTTTGCCTG
* *
4861 GTATCGATACCCCTACAATGGTATCGATACT
1 GTATCGATACCCTTACCATGGTATCGATACT
4892 GATTGAATCA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
93 12 0.11
94 34 0.32
95 60 0.57
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (94 bp):
GTATCGATACCCTTACCATGGTATCGATACTACTATACCATAGTAAAGATACCCCCGTACGGTAT
CGATACCAAATAGATTCGATGTTTGCCTG
Found at i:12754 original size:20 final size:21
Alignment explanation
Indices: 12721--12759 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12711 TTTTATTGAG
12721 TAAATTACATG-TTTAGTACA
1 TAAATTACATGTTTTAGTACA
12741 TAAATTATCA-GTTTTAGTA
1 TAAATTA-CATGTTTTAGTA
12760 TCTAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
TAAATTACATGTTTTAGTACA
Found at i:13465 original size:37 final size:37
Alignment explanation
Indices: 13412--13508 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
13402 CCTTTTCGTC
* * **
13412 CTACTAGAATTCAAACTCCTAAAAATATGATTTAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * *
13449 TTACTAGGATTTAAACTCTTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
*
13486 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
13509 GATAGGATCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:14133 original size:24 final size:23
Alignment explanation
Indices: 14081--14145 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
14071 ATTTTTATTA
14081 TTACTATTATATTTATTATTATT-T
1 TTACTATTATATTT-TTATT-TTAT
*
14105 TTACTATTATATTTTTCTTTTAT
1 TTACTATTATATTTTTATTTTAT
14128 TCTACTTATTTATATTTT
1 T-TAC-TA-TTATATTTT
14146 ATATGTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 17 0.47
25 2 0.06
26 9 0.25
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (23 bp):
TTACTATTATATTTTTATTTTAT
Found at i:14156 original size:39 final size:39
Alignment explanation
Indices: 14093--14184 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
14083 ACTATTATAT
*
14093 TTATTATTAT-TTTTACTATTATATTTTTCTTTTATTCTA
1 TTATTATTATATTTTACTATTATATTTTT-TTATATTCTA
*
14132 CTTA-T-TTATATTTTA-TATGTATATTTTTTTATATTTTA
1 -TTATTATTATATTTTACTAT-TATATTTTTTTATATTCTA
14170 TTATTATTATATTTT
1 TTATTATTATATTTT
14185 TTTACTTTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
37 3 0.07
38 16 0.35
39 24 0.52
40 3 0.07
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (39 bp):
TTATTATTATATTTTACTATTATATTTTTTTATATTCTA
Found at i:14180 original size:26 final size:26
Alignment explanation
Indices: 14093--14188 Score: 76
Period size: 26 Copynumber: 3.7 Consensus size: 26
14083 ACTATTATAT
14093 TTATTATTAT-TTTTACTATTATATTTT-
1 TTATTATTATATTTT--T-TTATATTTTA
* * * *
14120 TCTTTTATTCTACTTATTTATATTTTA
1 T-TATTATTATATTTTTTTATATTTTA
*
14147 -TA-T-GTATATTTTTTTATATTTTA
1 TTATTATTATATTTTTTTATATTTTA
14170 TTATTATTATATTTTTTTA
1 TTATTATTATATTTTTTTA
14189 CTTTCTCTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
23 16 0.30
24 3 0.06
25 2 0.04
26 21 0.40
27 2 0.04
28 7 0.13
29 2 0.04
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATTATTATATTTTTTTATATTTTA
Found at i:14226 original size:12 final size:11
Alignment explanation
Indices: 14204--14233 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
14194 TCTTTCTTTT
14204 TATTATTCTTG
1 TATTATTCTTG
14215 TATTATTACTTG
1 TATTATT-CTTG
14227 TATTATT
1 TATTATT
14234 TTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:14467 original size:2 final size:2
Alignment explanation
Indices: 14462--14488 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14452 ATTTTACTAT
14462 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14489 TCTACACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14753 original size:12 final size:11
Alignment explanation
Indices: 14736--14847 Score: 61
Period size: 11 Copynumber: 10.1 Consensus size: 11
14726 AATTTATATA
14736 TATTTACTTTTT
1 TATTTA-TTTTT
*
14748 TATTTATTTTA
1 TATTTATTTTT
* *
14759 TATATATATTT
1 TATTTATTTTT
** *
14770 T-CGTACTTTGT
1 TATTTA-TTTTT
14781 TA-TTATTATTT
1 TATTTATT-TTT
* *
14792 TGTTTAATTTT
1 TATTTATTTTT
14803 T-TTTATTTTCT
1 TATTTATTTT-T
*
14814 T-TTTCTTTTT
1 TATTTATTTTT
*
14824 TATATATTTTAT
1 TATTTATTTT-T
14836 TATTTATTTTT
1 TATTTATTTTT
14847 T
1 T
14848 TTACTTACTA
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
10 13 0.17
11 43 0.57
12 20 0.26
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:17902 original size:77 final size:77
Alignment explanation
Indices: 17711--17915 Score: 283
Period size: 76 Copynumber: 2.7 Consensus size: 77
17701 CCGCTGTACA
* * * *
17711 AGGGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCACCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
**
17774 GCAAAACTGTTT
66 GCAAAACCATTT
*
17786 AGGGGGGAATCGGTTCCACCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGG
1 AGGGGGGAATCGGTTCCACCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
17850 GCCAAAACCATTT
66 G-CAAAACCATTT
* * *
17863 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 AGGGGGGAATCGGTTCCACCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTG
17916 TAATTTTTGA
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
75 25 0.22
76 53 0.46
77 38 0.33
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCACCTATGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
GCAAAACCATTT
Found at i:18368 original size:106 final size:106
Alignment explanation
Indices: 18148--19949 Score: 2186
Period size: 106 Copynumber: 17.1 Consensus size: 106
18138 TGTTTCAACA
* * ** * *
18148 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
18212 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
18253 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
18318 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
18359 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
18424 ACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
18465 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
18530 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
18571 ATATTGGACTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* ** * *
18636 ATTTCCCAATTTTGGAGCCAATTTCAACTCCACAGCGAAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
18677 ATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* **
18742 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAATGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* **
18783 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
18848 ACTTCTCAATTTCAGAGCCAATTTCAACTTCATAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
18889 ATATTGGACTGCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
18954 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
18995 ATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
19060 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
19101 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * *
19166 ACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAATG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
*
19207 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
19272 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
19313 ATATTGGACTCAAGACAACGCAAGTTCAACTTCCCGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
19378 ACTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
19419 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * ** * ** * *
19472 ACTTCTCAATTTTAGAGCCAATTTCAACTTC-ACAACGA-AGGCTATTGG
66 ACTTCCCAA-TTT-CAG---A-GCCAATTTCAACTTC-ACA-GCGA-AGG
*** ** * * * ** * * ** *
19520 ACT-CCAGACAAC-G-CAA-GTTCAACTTC-AC--GACGA--AGGGACCGCTGGTTGTCAATAAA
1 A-TATTGGACTCCAGACAACG--CAAGTTCAACTTCACGACGAAGGGAC-C-GCTGGT-TGTCAA
* * * *
19576 CAATTTCCCAATTTCAGATCCAATTTCAGATCCAATTTCAACTTCACAGCGTAGG
60 CAA----ACAACTTC----CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* *
19631 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
19696 ACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * ** * * * *
19737 ATCTTGAAC-CCAAGGTAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA
1 ATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAA
* *
19799 -AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGG
64 CAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
* * *
19837 ATATTGGACTCGAGACAACACAAGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAAC
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAAC
* ** * *
19897 AATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGG
65 AACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGG
19939 ATATTGGACTC
1 ATATTGGACTC
19950 AGAATAATGC
Statistics
Matches: 1474, Mismatches: 164, Indels: 121
0.84 0.09 0.07
Matches are distributed among these distances:
94 18 0.01
95 6 0.00
96 21 0.01
97 6 0.00
98 3 0.00
99 11 0.01
100 67 0.05
101 10 0.01
102 40 0.03
103 2 0.00
104 2 0.00
105 61 0.04
106 1147 0.78
107 2 0.00
110 13 0.01
111 6 0.00
112 17 0.01
113 10 0.01
114 11 0.01
115 8 0.01
116 3 0.00
117 7 0.00
118 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
Found at i:18514 original size:212 final size:212
Alignment explanation
Indices: 18148--19949 Score: 2585
Period size: 212 Copynumber: 8.6 Consensus size: 212
18138 TGTTTCAACA
* * ** * *
18148 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
18212 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
18277 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
18342 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
*
18359 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
18424 ACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
18489 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
18554 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
* *
18571 ATATTGGACTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* ** * * * *
18636 ATTTCCCAATTTTGGAGCCAATTTCAACTCCACAGCGAAAGATATTGGACTTCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
18701 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
**
18766 CAACTTCACAATGAAGG
196 CAACTTCACAGCGAAGG
* **
18783 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
18848 ACTTCTCAATTTCAGAGCCAATTTCAACTTCATAACGAAGGATATTGGACTGCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
18913 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
18978 CAACTTCACAACGAAGG
196 CAACTTCACAGCGAAGG
* *
18995 ATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
*
19060 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
19125 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
19190 CAACTTCACAACGAATG
196 CAACTTCACAGCGAAGG
*
19207 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
19272 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
19337 TTCAACTTCCCGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
19402 CAACTTCACAGCGAAGG
196 CAACTTCACAGCGAAGG
* *
19419 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
19472 ACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAG
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
19537 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-----C---TTC----CCAATTT
* *
19602 CAGATCCAATTTCAACTTCACAGCGTAGG
184 CAGAGCCAATTTCAACTTCACAGCGAAGG
* *
19631 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * ** *
19696 ACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTTGAAC-CCAAGGTAACACAA
66 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAA
* * * * *
19760 GCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA-AA-TT-TC-A-TTCAGAGTCAAT
130 GTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
19818 TTCAACTTCACAGCGAAGG
194 TTCAACTTCACAGCGAAGG
* * *
19837 ATATTGGACTCGAGACAACACAAGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAAC
1 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAAC
* ** * * *
19897 AATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
65 AACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
19950 AGAATAATGC
Statistics
Matches: 1446, Mismatches: 116, Indels: 66
0.89 0.07 0.04
Matches are distributed among these distances:
200 111 0.08
201 2 0.00
202 68 0.05
203 1 0.00
205 1 0.00
206 55 0.04
207 1 0.00
208 5 0.00
211 59 0.04
212 1039 0.72
213 3 0.00
216 1 0.00
222 2 0.00
223 4 0.00
224 92 0.06
225 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (212 bp):
ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGG
Found at i:18724 original size:318 final size:317
Alignment explanation
Indices: 18148--19952 Score: 2611
Period size: 318 Copynumber: 5.7 Consensus size: 317
18138 TGTTTCAACA
* ** * *
18148 ATATTGGACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGCCAACAAA-A
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * *
18212 ATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
18277 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
18342 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* *
18407 CTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAAGTTCACAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
18465 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* * * *
18530 ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAATGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
**
18595 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
18660 CAACTCCACAGCGAAAGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGAC-TCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* *
18725 CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAATGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
18783 ATATTGGACTCCACACAATACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
18848 ACTTCTCAATTTCAGAGCCAATTTCAACTTCATAACGAAGGATATTGGACTGCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* * *
18913 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * *
18978 CAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACAACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
*
19043 CTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
19101 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
19166 ACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
19231 TTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
19296 CAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCCCGACGAAGGGACCG
196 CAACTTCACAGCGAAGGATATTGGACTC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * *
19361 CTGGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGG
260 CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* * *
19419 ATATTGGACTCCAGATAACGCAAGTTCAACTTCACGACG-A---A--------TGTCAACAAATA
1 ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
* *
19472 ACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAG
66 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
19537 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATCCAATTT
131 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAG---------
*
19602 CAGATCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACG
187 -AG--CCAATTTCAACTTCACAGCGAAGGATATTGGACTC-AGACAACGCAAGTTCAACTTCACG
* *
19667 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCTCAAC
248 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
19732 GAAGG
313 GAAGG
* * ** * * *
19737 ATCTTGAAC-CCAAGGTAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA
1 ATATTGGACTCC-AGACAACACAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAA
* * * *
19799 -AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
64 CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
* ** *
19859 AGTTCAA----ACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAA
129 AGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
*
19919 TTTCAACTTCAC-GACGGAGGATATTGGACTCAGA
193 TTTCAACTTCACAG-CGAAGGATATTGGACTCAGA
19953 ATAATGCTAC
Statistics
Matches: 1362, Mismatches: 94, Indels: 74
0.89 0.06 0.05
Matches are distributed among these distances:
306 126 0.09
307 4 0.00
308 32 0.02
310 2 0.00
314 1 0.00
316 2 0.00
317 61 0.04
318 1021 0.75
319 4 0.00
320 39 0.03
324 54 0.04
325 1 0.00
326 2 0.00
327 2 0.00
328 2 0.00
329 2 0.00
330 7 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (317 bp):
ATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA
ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
TGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
Found at i:19527 original size:94 final size:94
Alignment explanation
Indices: 19366--19553 Score: 322
Period size: 94 Copynumber: 2.0 Consensus size: 94
19356 GACCGCTGGT
* *
19366 TGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
19431 AGATAACGCAAGTTCAACTTCACGACGAA
66 AGACAACGCAAGTTCAACTTCACGACGAA
* * *
19460 TGTCAACAAATAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
19525 AGACAACGCAAGTTCAACTTCACGACGAA
66 AGACAACGCAAGTTCAACTTCACGACGAA
19554 GGGACCGCTG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (94 bp):
TGTCAACAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAA
Found at i:19600 original size:12 final size:12
Alignment explanation
Indices: 19583--19615 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
19573 AAACAATTTC
19583 CCAATTTCAGAT
1 CCAATTTCAGAT
19595 CCAATTTCAGAT
1 CCAATTTCAGAT
19607 CCAATTTCA
1 CCAATTTCA
19616 ACTTCACAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (12 bp):
CCAATTTCAGAT
Found at i:19686 original size:118 final size:118
Alignment explanation
Indices: 19478--19721 Score: 416
Period size: 118 Copynumber: 2.1 Consensus size: 118
19468 AATAACTTCT
* * *
19478 CAATTTTAGAGCCAATTTCAACTTCACAACGAAGGCTATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
* *
19543 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGATC
66 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
* * *
19596 CAATTTCAGATCCAATTTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
19661 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
66 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
19714 CAATTTCA
1 CAATTTCA
19722 ACTTCTCAAC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (118 bp):
CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGC
Found at i:20742 original size:37 final size:37
Alignment explanation
Indices: 20680--20784 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
20670 CCTTTTCGTC
* *
20680 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * * *
20717 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
20754 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
20785 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:21232 original size:2 final size:2
Alignment explanation
Indices: 21225--21270 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
21215 CTTAATTAGT
21225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21267 TA TA
1 TA TA
21271 CATACTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21396 original size:24 final size:23
Alignment explanation
Indices: 21369--21477 Score: 88
Period size: 24 Copynumber: 4.9 Consensus size: 23
21359 CTTTGCATTT
21369 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
21393 TTATTTTTACTATTATATTT-TCC
1 TTATTATTACTATTATATTTAT-A
*
21416 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
21436 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
* *
21458 TTTTTATTATTATTATATTT
1 TTATTATTACTATTATATTT
21478 TTTTACTTTC
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
20 9 0.13
21 13 0.19
22 18 0.26
23 10 0.14
24 19 0.28
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:21460 original size:28 final size:26
Alignment explanation
Indices: 21428--21480 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
21418 TTATTCTACT
21428 TATTTATATTATATATGTATATTTTTTA
1 TATTTATATTAT-TAT-TATATTTTTTA
*
21456 TATTTTTATTATTATTATATTTTTT
1 TATTTATATTATTATTATATTTTTT
21481 TACTTTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
27 3 0.12
28 11 0.46
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
TATTTATATTATTATTATATTTTTTA
Found at i:21520 original size:12 final size:11
Alignment explanation
Indices: 21498--21538 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
21488 TCTTTCTTTT
21498 TATTATTCTTG
1 TATTATTCTTG
21509 TATTATTACTTG
1 TATTATT-CTTG
* *
21521 TATTATTTTTA
1 TATTATTCTTG
21532 TATTATT
1 TATTATT
21539 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:22091 original size:12 final size:12
Alignment explanation
Indices: 22070--22139 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
22060 TACTTTGTTA
* *
22070 TTATTATTTTGT
1 TTATTTTTTTAT
22082 TTATTTTTTTAT
1 TTATTTTTTTAT
*
22094 TTATTTTCTT-T
1 TTATTTTTTTAT
*
22105 TTCTTTTTTATAT
1 TTATTTTTT-TAT
* *
22118 ATATTTTATTAT
1 TTATTTTTTTAT
22130 TTATTTTTTT
1 TTATTTTTTT
22140 TACTTACTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 8 0.17
12 31 0.67
13 7 0.15
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:22112 original size:24 final size:25
Alignment explanation
Indices: 22013--22141 Score: 72
Period size: 24 Copynumber: 5.2 Consensus size: 25
22003 AATTTATTAA
22013 TTTATATA-TTTACTT-TTTATTTATT
1 TTTATATATTTTA-TTATTTATTT-TT
* * * *
22038 ATATATATATATATATTATTCATACTTT
1 -TTTATATAT-TTTATTATTTAT-TTTT
* *
22066 GTTAT-TATTATT-TTGTTTA-TTTT
1 TTTATATATT-TTATTATTTATTTTT
* * *
22089 TTTATTTATTTTCTT-TTTCTTTTT
1 TTTATATATTTTATTATTTATTTTT
*
22113 TATATATATTTTATTATTTATTTTT
1 TTTATATATTTTATTATTTATTTTT
22138 TTTA
1 TTTA
22142 CTTACTATTT
Statistics
Matches: 77, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
23 12 0.16
24 22 0.29
25 17 0.22
26 11 0.14
27 5 0.06
28 9 0.12
29 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTATATATTTTATTATTTATTTTT
Found at i:24238 original size:42 final size:42
Alignment explanation
Indices: 24180--24289 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
24170 ACAATAGTTA
**
24180 ATATATGTAACTTATAGTATGTGTATACATGCAATGTAAACT
1 ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
*
24222 ATATATGTAACTTATAGTACATGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
*
24264 ATATATGAAACTTATAGTACATGTAT
1 ATATATGTAACTTATAGTACATGTAT
24290 GTATAAACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (42 bp):
ATATATGTAACTTATAGTACATGTATACATGCAATGTAAACT
Found at i:24496 original size:54 final size:54
Alignment explanation
Indices: 24414--24882 Score: 771
Period size: 54 Copynumber: 8.7 Consensus size: 54
24404 TAAAGTGACG
24414 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* *
24468 CCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCTCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* ** *
24522 CCTCTTTCTTCAGGGAGTATAGAACTC-AGATATCTTCTTCTTACAGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGA-ACATCTTCTTCAAACGGGTTCGCTC
24576 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* * *
24630 TCTCTTTATTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGATTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
24684 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
*
24738 CCTCTTTCTTCACGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
* * * *
24792 CCTCTTTCTTCAAGGAGTATAGAACTCAAACATCTTCTTTAAATGGGTTCGCTC
1 CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
*
24846 CCTCTTTCTCCAGGGAGTATAGAACAT-GAACATCTTC
1 CCTCTTTCTTCAGGGAGTATAGAAC-TCGAACATCTTC
24883 ATTTGCTTCA
Statistics
Matches: 386, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
53 1 0.00
54 383 0.99
55 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (54 bp):
CCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTC
Found at i:24749 original size:25 final size:25
Alignment explanation
Indices: 24718--24804 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 25
24708 CTCGAACATC
24718 TTCTTCAAACGGGTTCGCTCCCTCT
1 TTCTTCAAACGGGTTCGCTCCCTCT
* *
24743 TTCTTC--ACGGAGTATAGAACTCGAACATC-
1 TTCTTCAAACGG-GT-TCG--CTC---CCTCT
24772 TTCTTCAAACGGGTTCGCTCCCTCT
1 TTCTTCAAACGGGTTCGCTCCCTCT
24797 TTCTTCAA
1 TTCTTCAA
24805 GGAGTATAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
23 4 0.08
24 5 0.10
25 16 0.33
27 6 0.12
29 8 0.17
30 5 0.10
31 4 0.08
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (25 bp):
TTCTTCAAACGGGTTCGCTCCCTCT
Found at i:25292 original size:37 final size:37
Alignment explanation
Indices: 25251--25409 Score: 192
Period size: 37 Copynumber: 4.3 Consensus size: 37
25241 AAGGTTTACA
** *
25251 ATGGATTTGCTTCACTACCCTTCGGTGAAGACTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
* * *
25288 ATGGATTGGCTTCACCACTCTTCGGTGAAGGCTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
* * *
25325 ATGGAGTTGCTTCACTAATCTTTGGTGAAGGCTTAAT
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
** *
25362 ATGGAGCTGCTTCACTAATCTTTGGTGAAGGCTTAAG
1 ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
*
25399 ATTGACTTTGC
1 ATGGA-TTTGC
25410 CCCAATATAC
Statistics
Matches: 106, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 103 0.97
38 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (37 bp):
ATGGATTTGCTTCACTAATCTTCGGTGAAGGCTTAAG
Found at i:26974 original size:125 final size:123
Alignment explanation
Indices: 26738--26994 Score: 383
Period size: 125 Copynumber: 2.1 Consensus size: 123
26728 GACTTCACTA
* *
26738 GTGCCCCAACAATCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCT
1 GTGCCCCAACAACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGGCT
* *
26803 CATTCTCAATGCCTTCTTGGTCTGAAACTTGTTATCTCAACATGATGTGGGTTCAGTC
66 CATTCTCAATGCCTCCTTGGTCTGAAACTTGTCATCTCAACATGATGTGGGTTCAGTC
* * *
26861 GTGCCCCAACATTACCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAGCTCAAATCGTAAGG
1 GTGCCCCAACA--ACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGG
* *
26926 CTCATTCTTC-ATGCCTCCTTGGTCT-AAATCTTGTCATCTCAACCTGATGTTGGTTCAGTC
64 CTCATTC-TCAATGCCTCCTTGGTCTGAAA-CTTGTCATCTCAACATGATGTGGGTTCAGTC
26986 GTGCCCCAA
1 GTGCCCCAA
26995 AATGGGTACT
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
123 11 0.09
124 3 0.02
125 105 0.87
126 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (123 bp):
GTGCCCCAACAACCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATCGTAAGGCT
CATTCTCAATGCCTCCTTGGTCTGAAACTTGTCATCTCAACATGATGTGGGTTCAGTC
Found at i:28838 original size:15 final size:17
Alignment explanation
Indices: 28805--28842 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
28795 TCTTTCCTTC
*
28805 TCTTTTTTTCCAATTTT
1 TCTTTTTTTCCAATATT
28822 TCTTTTTTT-C-ATATT
1 TCTTTTTTTCCAATATT
28837 TCTTTT
1 TCTTTT
28843 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (17 bp):
TCTTTTTTTCCAATATT
Found at i:29059 original size:518 final size:527
Alignment explanation
Indices: 28122--29097 Score: 1693
Period size: 518 Copynumber: 1.9 Consensus size: 527
28112 CAAACCAAGG
28122 ATCAATTTGTTCTGCTGTCTTCAACCTTACTCTGCCTGATTTGAATCTGCTCGTGCATCTTCTAT
1 ATCAATTTGTTCTGCTGTCTTCAACCTTACTCTGCCTGATTTGAATCTGCTCGTGCATCTTCTAT
28187 TCTTCTTTTTTTCCTTCAATGTTTCACGATTGACTTGAGATGTTTGAACCGATCGTCTTGAAGTT
66 TCTTCTTTTTTTCCTTCAATGTTTCACGATTGACTTGAGATGTTTGAACCGATCGTCTTGAAGTT
* * * *
28252 TTGGGTAAGTTTTCTTTCCTTCTCTTTCTTTATTTTCATTTTTTCATTTCCAATTTTTCTTTTTT
131 TTGGGTAAGTTTTCTTTCCTTCTC-TTCTTTATTTCCAATTTTTCA-TT---ATTTTTCTATATT
*
28317 TCATTTTTTCTTTTCTTTTTCTCTTTCTACATTTCTCTTCTTTCTCTTCATGATGTCAACTCAAT
191 TCATTTTCTCTTTTCTTTTTCTCTTTCTACATTTCTCTTCTTTCTCTTCATGATGTCAACTCAAT
*
28382 TTGATCTTAGAGCGCTTTGTATTTGGTATGCCTCATGGTATCATGACTTGCTTCTGTAGCGAAAT
256 TTGATCTTAGAGCGCTTTGTATTTGGTATGCCTCATGGTATCATGACTTGCTTCTATAGCGAAAT
28447 CCGGACTGATAATCTTCACTCGCGCGAGCAGATGTTATTCACCTTTGCCCCCCAGTGTGGAGGGT
321 CCGGACTGATAATCTTCACTCGCGCGAGCAGATGTTATTCACCTTTGCCCCCCAGTGTGGAGGGT
* * * * *
28512 GATCTTTTGTTTGGGTTGAATCTGAAGAAAAATACTATTA-GCTCAAAAGGGGACCACAAGGGGT
386 GATCCTTGGTTTGGGTTGAATCCGAAGAAAAATACT-GTAGGCTCAAAAGGGGACAACAAGGGGT
28576 ATATATACATATATTTAAAGGGATAAATGAAACAAAGCTGTTCATCATCTCATACATGGAAGTCT
450 ATATATACATATATTTAAAGGGATAAATGAAACAAAGCTGTTCATCATCTCATACATGGAAGTCT
28641 TCGTAATAGAGGT
515 TCGTAATAGAGGT
*
28654 ATCAATTTGTTCTGTTGTCTTCAA-CTTACTCTGCCTGATTTGAATCTGCTCGTGCATCTTCTAT
1 ATCAATTTGTTCTGCTGTCTTCAACCTTACTCTGCCTGATTTGAATCTGCTCGTGCATCTTCTAT
*
28718 TCTTCTTTTTTTCCTTCAATGTTTCACGATTGACTTGAGATGTTTGAACTGATCGTCTTGAAGTT
66 TCTTCTTTTTTTCCTTCAATGTTTCACGATTGACTTGAGATGTTTGAACCGATCGTCTTGAAGTT
*
28783 TTGGGTGAGTTTTCTTTCCTTCTC-T-TTT-TTTCCAATTTTTC-TT-TTTTTC-ATATTTC-TT
131 TTGGGTAAGTTTTCTTTCCTTCTCTTCTTTATTTCCAATTTTTCATTATTTTTCTATATTTCATT
28841 TTCT-TTTTCTTTTTCTCTTTCTACATTTCTCTTCTTTCTCTTCATGATGTCAACTCAATTTGAT
196 TTCTCTTTTCTTTTTCTCTTTCTACATTTCTCTTCTTTCTCTTCATGATGTCAACTCAATTTGAT
*
28905 CTTAGAGCGCTTTGTATTTGGTCTGCCTCATGGTATCATGACTTGCTTCTATAGCGAAATCCGGA
261 CTTAGAGCGCTTTGTATTTGGTATGCCTCATGGTATCATGACTTGCTTCTATAGCGAAATCCGGA
28970 CTGATAATCTTCACTCGCGCGAGCAGATGTTATTCACCTTTGCCCCCCAGTGTGGAGGGTGATCC
326 CTGATAATCTTCACTCGCGCGAGCAGATGTTATTCACCTTTGCCCCCCAGTGTGGAGGGTGATCC
29035 TTGGTTTGGGTTGAATCCGAAGAAAAATACTGTAGGCTCAAAAGGGGACAACAAGGGGTATAT
391 TTGGTTTGGGTTGAATCCGAAGAAAAATACTGTAGGCTCAAAAGGGGACAACAAGGGGTATAT
29098 GTATATTGAA
Statistics
Matches: 428, Mismatches: 15, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
517 2 0.00
518 243 0.57
519 5 0.01
520 5 0.01
521 6 0.01
525 2 0.00
527 11 0.03
528 3 0.01
529 1 0.00
531 127 0.30
532 23 0.05
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (527 bp):
ATCAATTTGTTCTGCTGTCTTCAACCTTACTCTGCCTGATTTGAATCTGCTCGTGCATCTTCTAT
TCTTCTTTTTTTCCTTCAATGTTTCACGATTGACTTGAGATGTTTGAACCGATCGTCTTGAAGTT
TTGGGTAAGTTTTCTTTCCTTCTCTTCTTTATTTCCAATTTTTCATTATTTTTCTATATTTCATT
TTCTCTTTTCTTTTTCTCTTTCTACATTTCTCTTCTTTCTCTTCATGATGTCAACTCAATTTGAT
CTTAGAGCGCTTTGTATTTGGTATGCCTCATGGTATCATGACTTGCTTCTATAGCGAAATCCGGA
CTGATAATCTTCACTCGCGCGAGCAGATGTTATTCACCTTTGCCCCCCAGTGTGGAGGGTGATCC
TTGGTTTGGGTTGAATCCGAAGAAAAATACTGTAGGCTCAAAAGGGGACAACAAGGGGTATATAT
ACATATATTTAAAGGGATAAATGAAACAAAGCTGTTCATCATCTCATACATGGAAGTCTTCGTAA
TAGAGGT
Found at i:29135 original size:58 final size:58
Alignment explanation
Indices: 29045--29161 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
29035 TTGGTTTGGG
*
29045 TTGAATCCGAAGAAAAATACTGTAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
1 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
29103 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
1 TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
29161 T
1 T
29162 ATATTTGAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (58 bp):
TTGAATCCGAAGAAAAATACTATAGGCTCAAAAGGGGACAACAAGGGGTATATGTATA
Found at i:34478 original size:9 final size:9
Alignment explanation
Indices: 34464--34491 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
34454 ATAAATTGTA
34464 TGTATAAAC
1 TGTATAAAC
34473 TGTATAAAC
1 TGTATAAAC
34482 TGTATAAAC
1 TGTATAAAC
34491 T
1 T
34492 ATGTAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (9 bp):
TGTATAAAC
Found at i:38252 original size:20 final size:21
Alignment explanation
Indices: 38206--38266 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
38196 TTCCCCTGTG
38206 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
38229 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
38249 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
38267 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:42116 original size:22 final size:21
Alignment explanation
Indices: 42074--42113 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42064 GAGTTTGTTT
*
42074 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
42095 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
42114 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:44491 original size:24 final size:22
Alignment explanation
Indices: 44454--44512 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
44444 ATATAAACTA
*
44454 TATATATAACCTATAATATATG
1 TATATATAAACTATAATATATG
*
44476 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAATATATG
44499 T-TATATAAACTATA
1 TATATATAAACTATA
44513 TATGTTACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAATATATG
Found at i:48015 original size:20 final size:20
Alignment explanation
Indices: 47987--48043 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
47977 CCCTTCAAAT
* *
47987 GGGGAATCGGTTCCCTCATG
1 GGGGGATCGATTCCCTCATG
48007 GGGGGATCGATTCCCTCATG
1 GGGGGATCGATTCCCTCATG
48027 GGGGGATCGATTCCCTC
1 GGGGGATCGATTCCCTC
48044 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.26, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGGGATCGATTCCCTCATG
Found at i:51888 original size:22 final size:21
Alignment explanation
Indices: 51846--51885 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51836 GAGTTTGTTT
*
51846 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
51867 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
51886 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:58038 original size:31 final size:31
Alignment explanation
Indices: 57982--58051 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
57972 TAAACTATAC
57982 AATA-TAA-TTTATAACATATAGTTTATATT
1 AATATTAATTTTATAACATATAGTTTATATT
*
58011 AATATTAATTTTATAGAC-TATATTTTATATT
1 AATATTAATTTTATA-ACATATAGTTTATATT
58042 AATATTAATT
1 AATATTAATT
58052 AAAAATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 4 0.11
30 3 0.08
31 28 0.76
32 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
AATATTAATTTTATAACATATAGTTTATATT
Found at i:58102 original size:12 final size:12
Alignment explanation
Indices: 58085--58127 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
58075 TAATATAAGT
58085 TAATATTAATTA
1 TAATATTAATTA
58097 TAATATATAATTA
1 TAATAT-TAATTA
58110 TTTTAATATTAATTA
1 ---TAATATTAATTA
58125 TAA
1 TAA
58128 ATACCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
15 6 0.22
16 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATATTAATTA
Found at i:58102 original size:28 final size:28
Alignment explanation
Indices: 58065--58127 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
58055 AATTATAAAC
*
58065 TATATTATATTAATATAAGTTAATATTAAT
1 TATAATATA-TAAT-TAAGTTAATATTAAT
**
58095 TATAATATATAATTATTTTAATATTAAT
1 TATAATATATAATTAAGTTAATATTAAT
58123 TATAA
1 TATAA
58128 ATACCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 18 0.60
29 4 0.13
30 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATAATATATAATTAAGTTAATATTAAT
Found at i:58122 original size:22 final size:23
Alignment explanation
Indices: 58066--58127 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
58056 ATTATAAACT
*
58066 ATATT-ATATTAATATA-AGTTA
1 ATATTAATATTAATATATAATTA
58087 ATATTAAT-TATAATATATAATT-
1 ATATTAATAT-TAATATATAATTA
*
58109 ATTTTAATATTAAT-TATAA
1 ATATTAATATTAATATATAA
58128 ATACCATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 11 0.31
22 20 0.57
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTAATATTAATATATAATTA
Found at i:60386 original size:20 final size:20
Alignment explanation
Indices: 60363--60407 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60353 ATTCTATTTT
**
60363 ATATTGTTTGCTTCTGTTTG
1 ATATTGTTTGCTTCTACTTG
* *
60383 ATATTTTTTGTTTCTACTTG
1 ATATTGTTTGCTTCTACTTG
60403 ATATT
1 ATATT
60408 TGTAAGGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.09, G:0.13, T:0.62
Consensus pattern (20 bp):
ATATTGTTTGCTTCTACTTG
Found at i:61242 original size:15 final size:16
Alignment explanation
Indices: 61178--61243 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
61168 AATATTAAGC
61178 TATTATCA-ATTTAAT
1 TATTATCATATTTAAT
*
61193 TATTAATCATGTTTAA-
1 TATT-ATCATATTTAAT
* *
61209 TATTA--ATATTCAGT
1 TATTATCATATTTAAT
61223 TATTATCA-ATTTAAT
1 TATTATCATATTTAAT
61238 TATTAT
1 TATTAT
61244 TTTATTGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 5 0.12
14 5 0.12
15 16 0.40
16 9 0.22
17 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTATCATATTTAAT
Found at i:61352 original size:14 final size:14
Alignment explanation
Indices: 61333--61379 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
61323 ATATTTTCTT
61333 TATATAAATTAAAC
1 TATATAAATTAAAC
61347 TATAT-AATT----
1 TATATAAATTAAAC
61356 TATATAAATTAAAC
1 TATATAAATTAAAC
*
61370 TATATTAATT
1 TATATAAATT
61380 TTCCTTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:61357 original size:23 final size:24
Alignment explanation
Indices: 61331--61380 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
61321 TTATATTTTC
61331 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
61354 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
61378 TTT
1 TTT
61381 TCCTTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:61439 original size:24 final size:24
Alignment explanation
Indices: 61403--61461 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
61393 ATTAATAATG
*
61403 TTTTATCTAATTTACATTTAAATAA
1 TTTTATATAATTTACA-TTAAATAA
**
61428 TTTTAT-TAATTTTTATTAAATAA
1 TTTTATATAATTTACATTAAATAA
61451 TTTTATATAAT
1 TTTTATATAAT
61462 AGGTCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 14 0.45
24 11 0.35
25 6 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTATATAATTTACATTAAATAA
Found at i:61454 original size:13 final size:13
Alignment explanation
Indices: 61420--61456 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
61410 TAATTTACAT
61420 TTAAATAATTTTA
1 TTAAATAATTTTA
61433 TT-AAT--TTTTA
1 TTAAATAATTTTA
61443 TTAAATAATTTTA
1 TTAAATAATTTTA
61456 T
1 T
61457 ATAATAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 7 0.33
11 3 0.14
12 3 0.14
13 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:61669 original size:16 final size:16
Alignment explanation
Indices: 61648--61704 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
61638 ACAGGCCAGA
61648 TTAAAAACATGTCAGG
1 TTAAAAACATGTCAGG
*
61664 TTAAAAACATGTCAAG
1 TTAAAAACATGTCAGG
* * *
61680 TTGAAAGCAAGTCAGG
1 TTAAAAACATGTCAGG
*
61696 TTGAAAACA
1 TTAAAAACA
61705 GGTCGGGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (16 bp):
TTAAAAACATGTCAGG
Found at i:62446 original size:20 final size:20
Alignment explanation
Indices: 62418--62462 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62408 GTCTTTTAAT
* *
62418 ATTTTATTTTAAAAATAAAA
1 ATTTAATTTCAAAAATAAAA
* *
62438 ATTTAATTTCATAGATAAAA
1 ATTTAATTTCAAAAATAAAA
62458 ATTTA
1 ATTTA
62463 TTAAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTAATTTCAAAAATAAAA
Found at i:64228 original size:11 final size:11
Alignment explanation
Indices: 64212--64241 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64202 GTTAATATAA
64212 AAATTTAATTT
1 AAATTTAATTT
64223 AAATTTAATTT
1 AAATTTAATTT
*
64234 AATTTTAA
1 AAATTTAA
64242 AATAACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:65015 original size:3 final size:3
Alignment explanation
Indices: 65009--65051 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
64999 TATTATAAAA
* * *
65009 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAA T-T TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
65052 CAAATTCTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:66478 original size:39 final size:39
Alignment explanation
Indices: 66430--66546 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
66420 TTAAAATAAT
*
66430 TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
66469 TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
*
66508 TTATTTTAAAATAAATTATTATAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
66547 AATAAATTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (39 bp):
TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
Found at i:66478 original size:54 final size:53
Alignment explanation
Indices: 66415--66608 Score: 232
Period size: 54 Copynumber: 3.7 Consensus size: 53
66405 ATAAGGTTAT
*
66415 TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTTA-TTAAA
* * * *
66469 TTATTTTAAAATAATTTATTATAAAATAATTTATTTT-AATTATTTTAAAATAAA
1 TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTT--ATTAAA
* * * ** * *
66523 TTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAAT-ATGGATTGAT
1 TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAAA
66575 TTATTTTAAAATAATTTATTTT-AAATAATTTATT
1 TTATTTTAAAATAATTTATTTTAAAATAATTTATT
66609 AGTATGGTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
51 11 0.09
52 24 0.20
53 7 0.06
54 73 0.61
55 4 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (53 bp):
TTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAAA
Found at i:66602 original size:14 final size:15
Alignment explanation
Indices: 66413--66608 Score: 193
Period size: 15 Copynumber: 13.5 Consensus size: 15
66403 TAATAAGGTT
66413 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
66428 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
66443 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
66458 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
66468 A-TTATTTTAAAATA
1 ATTTATTTTAAAATA
*
66482 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
66497 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
66507 A-TTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
66521 AATTATTATAAAATA
1 ATTTATTTTAAAATA
66536 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
66551 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
66570 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
66588 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
66602 ATTTATT
1 ATTTATT
66609 AGTATGGTTT
Statistics
Matches: 153, Mismatches: 9, Indels: 39
0.76 0.04 0.19
Matches are distributed among these distances:
9 6 0.04
10 12 0.08
14 23 0.15
15 92 0.60
16 4 0.03
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.03
22 6 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:66621 original size:47 final size:52
Alignment explanation
Indices: 66413--66694 Score: 218
Period size: 54 Copynumber: 5.4 Consensus size: 52
66403 TAATAAGGTT
* * ** *
66413 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTT
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAAT-ATGGA-TTG
* * * * * * ** * *
66467 AATTATTTTAAAATAATTTATTATAAAATAATTTATTTTAATTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAA--AATATGGATTG
* *
66521 AATTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
* * *
66573 ATTTATTTTAAAATAATTTATTTT-AAAT-AA-T-TTAT-TAGTATGGTTTG
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
** * * * *
66620 ATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATGGATTG
66674 ATTTATTTT-AAATAATTTATT
1 ATTTATTTTAAAATAATTTATT
66695 AGTATGGATT
Statistics
Matches: 188, Mismatches: 30, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
46 12 0.06
47 18 0.10
48 5 0.03
49 2 0.01
50 4 0.02
51 5 0.03
52 28 0.15
53 3 0.02
54 107 0.57
55 2 0.01
56 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (52 bp):
ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
Found at i:66624 original size:32 final size:32
Alignment explanation
Indices: 66588--67049 Score: 264
Period size: 32 Copynumber: 14.4 Consensus size: 32
66578 TTTTAAAATA
*
66588 ATTTATTTTAAATAATTTATTAGTATGGTTTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
66620 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
66652 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
66674 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
66706 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 ATTTATTTT-AAATA---ATTTA-TTAGTA-TGGA-TTG
* * *
66745 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTA
1 -AT--TTA------TTTTAAATAATTTATTAGTATGGATTG
*
66786 ATTTA-TTT---TAA---A--A-TATGGATCG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
66808 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
66840 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
66872 ATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTG
1 ATTTATTTT--AA-ATA-ATTTA-TTAGTA-TGGA-TTG
* * *
66911 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTG
1 -AT--TTA------TTTTAAATAATTTATTAGTATGGATTG
66952 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
66974 ATTTATTTTAAATAATTTATTAGTATGGACTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
67006 ATTTATTTTAAATAATTTATTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
67038 ATTTATTTTAAA
1 ATTTATTTTAAA
67050 ATATGGATTG
Statistics
Matches: 335, Mismatches: 33, Indels: 124
0.68 0.07 0.25
Matches are distributed among these distances:
22 39 0.12
23 12 0.04
25 3 0.01
26 9 0.03
28 9 0.03
29 3 0.01
31 12 0.04
32 151 0.45
33 5 0.01
34 2 0.01
35 3 0.01
36 8 0.02
37 9 0.03
38 8 0.02
39 6 0.02
40 8 0.02
41 5 0.01
42 7 0.02
43 10 0.03
44 8 0.02
45 3 0.01
46 2 0.01
47 5 0.01
48 8 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:66668 original size:22 final size:22
Alignment explanation
Indices: 66643--66685 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
66633 AATTTATTAG
66643 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
66665 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
66686 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:66680 original size:54 final size:54
Alignment explanation
Indices: 66611--67066 Score: 267
Period size: 54 Copynumber: 8.3 Consensus size: 54
66601 AATTTATTAG
*
66611 TATGGTTTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
66665 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
66719 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
* * * * * * *
66766 TA---ATTTATTAGTATGGATTAATTTATTT-TAAAATATGGATCGATTTATTTTAAATAATTTA
1 TATGGATTGATT--TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTA-TTT---TAA---A
66827 TTA
54 --A
*
66830 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
66885 TATAGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
* * * * * *
66932 TA---ATTTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-TTT---TAA---A
66993 TTA
54 --A
* * *
66996 GTATGGACTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
67051 TATGGATTGATTTATT
1 TATGGATTGATTTATT
67067 ATTGTAGTTG
Statistics
Matches: 313, Mismatches: 34, Indels: 110
0.68 0.07 0.24
Matches are distributed among these distances:
43 3 0.01
44 10 0.03
45 1 0.00
46 2 0.01
47 10 0.03
48 45 0.14
49 4 0.01
50 9 0.03
51 2 0.01
52 6 0.02
54 124 0.40
55 8 0.03
57 2 0.01
58 2 0.01
59 2 0.01
60 6 0.02
62 2 0.01
63 6 0.02
64 37 0.12
65 5 0.02
66 5 0.02
68 16 0.05
69 6 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:66773 original size:134 final size:132
Alignment explanation
Indices: 66564--66861 Score: 460
Period size: 134 Copynumber: 2.2 Consensus size: 132
66554 TATTATAAAA
* *
66564 TATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGTTTGATTTATTTT
1 TATGGATTGATTTATTTTAAAATAATTGATTTT-AATAATTTATTAGTATGGATTGATTTATTTT
* *
66629 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
65 AAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATCGATTTATTTTAAATAATTTAT
66694 TAG
130 TAG
*
66697 TATGGATTGATTTATTTTAAAATATGGATTGA-TTT-ATTATTGTAGTT-GTATGGATTGATTTA
1 TATGGATTGATTTATTTTAAAATA---ATTGATTTTAATAATT-TA-TTAGTATGGATTGATTTA
66759 TTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATCGATTTATTTTAAATAAT
61 TTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATCGATTTATTTTAAATAAT
66824 TTATTAG
126 TTATTAG
*
66831 TATGGATTGATTTATTTT-AAATAATTTATTT
1 TATGGATTGATTTATTTTAAAATAATTGATTT
66862 GTATGGATTG
Statistics
Matches: 153, Mismatches: 6, Indels: 14
0.88 0.03 0.08
Matches are distributed among these distances:
130 4 0.03
131 2 0.01
133 34 0.22
134 104 0.68
135 5 0.03
136 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (132 bp):
TATGGATTGATTTATTTTAAAATAATTGATTTTAATAATTTATTAGTATGGATTGATTTATTTTA
AATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATCGATTTATTTTAAATAATTTATT
AG
Found at i:66790 original size:80 final size:80
Alignment explanation
Indices: 66665--67146 Score: 725
Period size: 80 Copynumber: 5.9 Consensus size: 80
66655 TATTTTAAAA
66665 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
66730 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
66745 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATCGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
66810 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* *
66831 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
66896 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
66911 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
66976 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* * *
66997 TATGGACTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
67062 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
67077 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGTATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
67142 TTATT
66 TTATT
67147 TTAAATAATT
Statistics
Matches: 367, Mismatches: 19, Indels: 32
0.88 0.05 0.08
Matches are distributed among these distances:
80 205 0.56
81 4 0.01
82 8 0.02
84 8 0.02
85 4 0.01
86 138 0.38
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:66792 original size:166 final size:163
Alignment explanation
Indices: 66588--67141 Score: 803
Period size: 166 Copynumber: 3.3 Consensus size: 163
66578 TTTTAAAATA
* * *
66588 ATTTATTTTAAATAATTTATTAGTATGGTTTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-AA-TTATT-G-ATCGATTTA
* * *
66653 TTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
62 TTTATTTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAA
66717 AATATGGATTGATTTATTATTGTAGTTGTATGGATTG
127 AATATGGATTGATTTATTATTGTAGTTGTATGGATTG
* *
66754 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTT-AAAA-TATGGATCGATTTATTTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAATTATTGATCGATTTA-TTT
66817 AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA
65 --AT--TTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA
*
66882 AAATATAGATTGATTTATTATTGTAGTTGTATGGATTG
126 AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
* * *
66920 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAAA-TATGGATTGATTTATTTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAATTATTGATCGATTTA-TTT
* *
66983 AAATAATTTATTAGTATGGACTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTA
65 --AT--TTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTA
67048 AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
126 AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
67086 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGTATTGAT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA-AT-TATTGAT
67142 TTATTTTAAA
Statistics
Matches: 361, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
160 7 0.02
161 4 0.01
162 3 0.01
163 2 0.01
164 2 0.01
165 6 0.02
166 327 0.91
167 3 0.01
168 1 0.00
170 6 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (163 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAATTATTGATCGATTTATTTA
TTTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATA
TGGATTGATTTATTATTGTAGTTGTATGGATTG
Found at i:66802 original size:22 final size:22
Alignment explanation
Indices: 66777--66819 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
66767 AATTTATTAG
*
66777 TATGGATTAATTTATTTTAAAA
1 TATGGATCAATTTATTTTAAAA
*
66799 TATGGATCGATTTATTTTAAA
1 TATGGATCAATTTATTTTAAA
66820 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGGATCAATTTATTTTAAAA
Found at i:66875 original size:18 final size:18
Alignment explanation
Indices: 66822--66879 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
66812 ATTTTAAATA
*
66822 ATTTATTAGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
66840 ATTTATTT-TA---AATA
1 ATTTATTTGTATGGATTG
66854 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
66872 ATTTATTT
1 ATTTATTT
66880 TAAAATATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 10 0.32
15 2 0.06
17 2 0.06
18 17 0.55
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:67142 original size:166 final size:166
Alignment explanation
Indices: 66665--67161 Score: 922
Period size: 166 Copynumber: 3.0 Consensus size: 166
66655 TATTTTAAAA
*
66665 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
66730 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
66795 AAAATATGGATCGATTTATTTTAAATAATTTATTAG
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
66831 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
66896 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66961 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
* *
66997 TATGGACTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
67062 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
67127 AAAATATGTATTGATTTATTTTAAATAATTTATTA
131 AAAATATGGATTGATTTATTTTAAATAATTTATTA
67162 TTGTAGTTGT
Statistics
Matches: 321, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 321 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:67148 original size:54 final size:54
Alignment explanation
Indices: 66745--67161 Score: 390
Period size: 54 Copynumber: 7.6 Consensus size: 54
66735 ATTGTAGTTG
*
66745 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
66799 TATGGATCGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A
* * * ***
66859 TTTGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTG
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
*
66911 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
66965 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * * ***
67018 TA---ATTTATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
67077 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
67131 TATGTATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
67162 TTGTAGTTGT
Statistics
Matches: 294, Mismatches: 38, Indels: 62
0.75 0.10 0.16
Matches are distributed among these distances:
48 18 0.06
49 5 0.02
50 16 0.05
52 4 0.01
53 8 0.03
54 147 0.50
55 11 0.04
56 5 0.02
57 10 0.03
58 22 0.07
59 5 0.02
60 5 0.02
62 16 0.05
63 5 0.02
64 17 0.06
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:67160 original size:22 final size:22
Alignment explanation
Indices: 67109--67151 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
67099 AATTTATTAG
*
67109 TATGGATTGATTTATTTTAAAA
1 TATGTATTGATTTATTTTAAAA
67131 TATGTATTGATTTATTTTAAA
1 TATGTATTGATTTATTTTAAA
67152 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGTATTGATTTATTTTAAAA
Found at i:67211 original size:31 final size:31
Alignment explanation
Indices: 67176--67234 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
67166 AGTTGTATGG
*
67176 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTTCAGTATTGCAAAACTAAA
67207 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTGCAAAACT
67235 CTTTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTGCAAAACTAAA
Found at i:72694 original size:7 final size:8
Alignment explanation
Indices: 72675--72725 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
72665 GCTTGAAGTA
72675 AGAAAAAG
1 AGAAAAAG
72683 AGAAAAAGG
1 AGAAAAA-G
*
72692 AAAAAAAG
1 AGAAAAAG
72700 AGAAAAA-
1 AGAAAAAG
*
72707 AGAAAAAAA
1 AG-AAAAAG
72716 AGAAAAAG
1 AGAAAAAG
72724 AG
1 AG
72726 GGATTGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.05
8 26 0.70
9 9 0.24
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:72697 original size:9 final size:8
Alignment explanation
Indices: 72677--72722 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 8
72667 TTGAAGTAAG
72677 AAAAAGAGA
1 AAAAAGA-A
*
72686 AAAAGGAA
1 AAAAAGAA
72694 AAAAAGAGA
1 AAAAAGA-A
72703 AAAAAGAAA
1 AAAAAG-AA
72712 AAAAAGAA
1 AAAAAGAA
72720 AAA
1 AAA
72723 GAGGGATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 12 0.36
9 20 0.61
10 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:72699 original size:17 final size:17
Alignment explanation
Indices: 72677--72723 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
72667 TTGAAGTAAG
72677 AAAAAGAGAAAAAGGAA
1 AAAAAGAGAAAAAGGAA
*
72694 AAAAAGAGAAAAAAGAA
1 AAAAAGAGAAAAAGGAA
72711 AAAAA-AGAAAAAG
1 AAAAAGAGAAAAAG
72724 AGGGATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAGGAA
Found at i:73207 original size:18 final size:18
Alignment explanation
Indices: 73181--73337 Score: 139
Period size: 18 Copynumber: 8.9 Consensus size: 18
73171 GTCATCCATC
*
73181 AGAAGAAAAAAAGAAAAA
1 AGAAAAAAAAAAGAAAAA
73199 AGAAAAAAAGAAA-AAAAA
1 AGAAAAAAA-AAAGAAAAA
* *
73217 GGAAAAAGAAAA-AAAAA
1 AGAAAAAAAAAAGAAAAA
73234 A-AAAAAAAAAA-AAAAA
1 AGAAAAAAAAAAGAAAAA
73250 AGAAAAAAAAAAG--AAA
1 AGAAAAAAAAAAGAAAAA
* * *
73266 GGAAAAAAGGAAAG-GAAA
1 AGAAAAAA-AAAAGAAAAA
*
73284 AGAGAAGAAAAAAGAAAAA
1 AGA-AAAAAAAAAGAAAAA
* *
73303 AGAAAGAAAAAAGAAAAG
1 AGAAAAAAAAAAGAAAAA
**
73321 AGAGGAAAAAAAGAAAA
1 AGAAAAAAAAAAGAAAA
73338 GAAATTGAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
16 25 0.21
17 22 0.19
18 57 0.49
19 13 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAGAAAAA
Found at i:73213 original size:23 final size:23
Alignment explanation
Indices: 73183--73337 Score: 135
Period size: 24 Copynumber: 6.7 Consensus size: 23
73173 CATCCATCAG
73183 AAGAAAAAAAGAAAAAAGAAAAA
1 AAGAAAAAAAGAAAAAAGAAAAA
*
73206 AAGAAAAAAAAGGAAAAAG-AAAA
1 AAG-AAAAAAAGAAAAAAGAAAAA
73229 AA-AAAAAAA-AAAAAA-AAAAA
1 AAGAAAAAAAGAAAAAAGAAAAA
73249 AAGAAAAAAA-AAAGAAAGGAAAAA
1 AAGAAAAAAAGAAA-AAA-GAAAAA
* *
73273 AGGAAAGGAAAAGAGAAGAAA-AAAGA
1 AAGAAA--AAAAGA-AA-AAAGAAAAA
*
73299 AA-AAAGAAAGAAAAAAGAAAAGA
1 AAGAAAAAAAGAAAAAAGAAAA-A
*
73322 GAGGAAAAAAAGAAAA
1 -AAGAAAAAAAGAAAA
73338 GAAATTGAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
20 11 0.10
21 20 0.18
22 8 0.07
23 15 0.14
24 25 0.23
25 14 0.13
26 9 0.08
27 1 0.01
28 6 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAGAAAAAAGAAAAA
Found at i:73223 original size:11 final size:11
Alignment explanation
Indices: 73201--73320 Score: 77
Period size: 11 Copynumber: 10.7 Consensus size: 11
73191 AAGAAAAAAG
73201 AAAAAAA-G-A
1 AAAAAAAGGAA
73210 AAAAAAAGGAA
1 AAAAAAAGGAA
*
73221 AAAGAAAA-AAA
1 AAA-AAAAGGAA
**
73232 AAAAAAAAAAA
1 AAAAAAAGGAA
*
73243 AAAAAAAAGAA
1 AAAAAAAGGAA
*
73254 AAAAAAAAGAA
1 AAAAAAAGGAA
73265 AGGAAAAAAGGAA
1 A--AAAAAAGGAA
**
73278 AGGAAAAGAGAA
1 AAAAAAAG-GAA
*
73290 GAAAAAA-GAA
1 AAAAAAAGGAA
*
73300 AAAAGAAAGAAA
1 AAAA-AAAGGAA
73312 AAAGAAAAG
1 AAA-AAAAG
73321 AGAGGAAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
9 7 0.08
10 11 0.12
11 42 0.46
12 20 0.22
13 11 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAGGAA
Found at i:73254 original size:58 final size:61
Alignment explanation
Indices: 73186--73341 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 61
73176 CCATCAGAAG
73186 AAAAAAAGAAAAAAGAAAAAAAGAAAAA-AAAGGAAAA-AGAA-AAAAAAAAAAAAAAAAA
1 AAAAAAAGAAAAAAGAAAAAAAGAAAAAGAAAGGAAAAGAGAAGAAAAAAAAAAAAAAAAA
* *
73244 AAAAAAAGAAAAAA-AAAAGAAAGGAAAAAAGGAAAGGAAAAGAGAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAGAAAAAAGAAAA-AAA-G-AAAAA-GAAAGGAAAAGAGAAGAAAAAAAAAAAAAAAAA
*
73308 GAAAAAAGAAAAGAGAGGAAAAAAAG-AAAAGAAA
1 AAAAAAAGAAAA-A-A-GAAAAAAAGAAAAAGAAA
73342 TTGAATTAAG
Statistics
Matches: 84, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
57 4 0.05
58 17 0.20
59 1 0.01
60 5 0.06
62 9 0.11
63 8 0.10
64 30 0.36
65 1 0.01
66 2 0.02
67 3 0.04
68 4 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (61 bp):
AAAAAAAGAAAAAAGAAAAAAAGAAAAAGAAAGGAAAAGAGAAGAAAAAAAAAAAAAAAAA
Found at i:73273 original size:1 final size:1
Alignment explanation
Indices: 73186--73261 Score: 89
Period size: 1 Copynumber: 76.0 Consensus size: 1
73176 CCATCAGAAG
* * * ** *
73186 AAAAAAAGAAAAAAGAAAAAAAGAAAAAAAAGGAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
73251 GAAAAAAAAAA
1 AAAAAAAAAAA
73262 GAAAGGAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:73331 original size:35 final size:34
Alignment explanation
Indices: 73183--73341 Score: 144
Period size: 29 Copynumber: 4.9 Consensus size: 34
73173 CATCCATCAG
73183 AAGAAAA-A-AAGAAAAAAGAAAAAAAGAAAAAAA
1 AAGAAAAGAGAAGAAAAAAG-AAAAAAGAAAAAAA
*
73216 AGGAAAA-AG-A-AAAAAA-AAAAAA-AAAAAAA
1 AAGAAAAGAGAAGAAAAAAGAAAAAAGAAAAAAA
* *
73245 AA-AAAAGA-AA-AAAAAA-AGAAAGGAAAAAAGGA
1 AAGAAAAGAGAAGAAAAAAGAAAAAAGAAAAAA--A
73277 AAGGAAAAGAGAAGAAAAAAGAAAAAAGAAAGAAAA
1 AA-GAAAAGAGAAGAAAAAAGAAAAAAGAAA-AAAA
* *
73313 AAGAAAAGAGAGGAAAAAA-AGAAAAGAAA
1 AAGAAAAGAGAAGAAAAAAGAAAAAAGAAA
73342 TTGAATTAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
28 4 0.04
29 20 0.19
30 12 0.11
32 9 0.08
33 8 0.08
34 15 0.14
35 18 0.17
36 9 0.08
37 8 0.08
38 3 0.03
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (34 bp):
AAGAAAAGAGAAGAAAAAAGAAAAAAGAAAAAAA
Found at i:74969 original size:52 final size:50
Alignment explanation
Indices: 74833--74974 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 50
74823 GGTTCACATT
* * *
74833 ATCCATGTGGGCATCTTGAAGGCTTACATCAGCAAGAAAAGGAAAAAGTA
1 ATCCATGTGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGAAAAAGTA
* * *
74883 ATCCATGCGGGTATCTTGAAGGCTCACATCAGCATGAAAAAGATAGAAGTA
1 ATCCATGTGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGA-AAAAGTA
74934 ATCCATGTGGGGCATCTTGAAGGCTCACA-CTAGCATGAAAA
1 ATCCATGT-GGGCATCTTGAAGGCTCACATC-AGCATGAAAA
74975 GGTTGGGATA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 38 0.47
51 14 0.17
52 29 0.36
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (50 bp):
ATCCATGTGGGCATCTTGAAGGCTCACATCAGCATGAAAAAGAAAAAGTA
Found at i:76541 original size:43 final size:43
Alignment explanation
Indices: 76480--76561 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
76470 AAGAGACAAA
*
76480 CTTGAGTGACCAACGTGATATGTAGGGGTTCCTTGATGAAAAG
1 CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAAAAG
* *
76523 CTTGAGGGACTAACGTGATATGTAGGGGTTTCTTGATGA
1 CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
76562 CAATTAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGAAAAG
Found at i:76689 original size:89 final size:90
Alignment explanation
Indices: 76565--76736 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 90
76555 TTGATGACAA
* * *
76565 TTAAGAAACTAAGCCTTCAGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTC
1 TTAAAAAACTAAGCCTTCAGGGGTTTCATGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTC
76630 AGTGCAGGATGTTTTCAAATGAGAT
66 AGTGCAGGATGTTTTCAAATGAGAT
* *
76655 TTAAAAAACTAAGCCTT-GGGGGTTTCATGATTTGTAAGTCTTTCAGGCCATCCATAAGACCTTC
1 TTAAAAAACTAAGCCTTCAGGGGTTTCATGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTC
*
76719 AGTGCTGGATGTTTTCAA
66 AGTGCAGGATGTTTTCAA
76737 TATTTCTGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 60 0.79
90 16 0.21
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (90 bp):
TTAAAAAACTAAGCCTTCAGGGGTTTCATGATTTGTAAGTCCTTCAGGCCATCCATAAGACCTTC
AGTGCAGGATGTTTTCAAATGAGAT
Found at i:77004 original size:136 final size:134
Alignment explanation
Indices: 76752--77139 Score: 493
Period size: 136 Copynumber: 2.9 Consensus size: 134
76742 CTGTTGCTCG
* * * *
76752 ATTCGCGACATTTTGAATCAGTGATGCCTTGCTTAAGGGATTGGCATTTCCAATTGAGAGTTAAT
1 ATTCACGACATTTTGAATCAGTGATGCCTCGCTTGAGGGATTGGCATTT-CAATTGAGAGTTCAT
** *
76817 AATGAGAAGAACTCATTTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTTGACCTAT
65 AATGAGAAGAACTCATCCGACAGAGGGAGAA-AAGTTCATAATGAGAAGAGCTTGTTCGACCTAT
76882 CACTCA
129 CACTCA
* * * *
76888 ATTTATGGCATTTTGAATCAGTGATGCCTCGCTTGAGGGATTGGAATTTCTAATTGAGAGTTCAT
1 ATTCACGACATTTTGAATCAGTGATGCCTCGCTTGAGGGATTGGCATTTC-AATTGAGAGTTCAT
76953 AATGAGAAGAACTCATCCGACAGAGGGAGAATAAGTTCATAATGAGAAGAGCTTGTTCGACCTAT
65 AATGAGAAGAACTCATCCGACAGAGGGAGAA-AAGTTCATAATGAGAAGAGCTTGTTCGACCTAT
*
77018 CACTCG
129 CACTCA
** * * *
77024 ATTCACGACATTTCAAATCAGTGACT-TCTCGCTTGAGGGATTGTCATTTCCA--GAAGAGTTCA
1 ATTCACGACATTTTGAATCAGTGA-TGCCTCGCTTGAGGGATTGGCATTTCAATTG-AGAGTTCA
* * *
77086 TAATGAGAAGAACTCATCCTA-A-A-GGAG-AAAGCTCATAATGAGAAGAACTTGTTC
64 TAATGAGAAGAACTCATCCGACAGAGGGAGAAAAGTTCATAATGAGAAGAGCTTGTTC
77140 CTTTCAAATT
Statistics
Matches: 224, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
129 24 0.11
130 1 0.00
131 4 0.02
132 1 0.00
133 2 0.01
134 28 0.12
135 2 0.01
136 161 0.72
137 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (134 bp):
ATTCACGACATTTTGAATCAGTGATGCCTCGCTTGAGGGATTGGCATTTCAATTGAGAGTTCATA
ATGAGAAGAACTCATCCGACAGAGGGAGAAAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA
CTCA
Found at i:77250 original size:105 final size:109
Alignment explanation
Indices: 77078--77467 Score: 427
Period size: 105 Copynumber: 3.5 Consensus size: 109
77068 CATTTCCAGA
*
77078 AGAGTTCATAATGAGAAGAACTCATCCTAA-AGG-AG-AAAGCTCATAATGAGAAGAACTTGTTC
1 AGAGTTCATAATGAGAAGAACTCATCC-AAGAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTC
* *
77140 CTTTCAAATTCACCATAGAAGAAGGTGAACCAACATTTCCAA-AG
65 CTTTCAAATTCACCACAGAAGAAGGTGGACCAACATTTCCAATAG
* * *
77184 -GATTTCATAATGAGAGGAACTCGTCCTAA-A-GAAG-AAAGTTCATAATGAGAAGAACTTGTTC
1 AGAGTTCATAATGAGAAGAACTCATCC-AAGAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
77245 CTTTCAAGTCCACCGCAGAAGGAGGTGGATCAACATTTTCAATGG
65 CTTTCAAATTCACCACAGAAGAAGGTGGACCAACATTTCCAATAG
* *
77290 AGAGTTCATAATGAGAAGAAGTCATCCAATGAGGAAGAAAAAGTTCATAATAAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAA-GAGGAAG-AAAAGTTCATAATGAGAAGAACTTGTT
** * * *
77355 CAACCTTGGTTTGATTTCATCACAGAAGAAGGTGGACCAACATTTTCAATAG
64 ---CC-T--TTCAAATTCACCACAGAAGAAGGTGGACCAACATTTCCAATAG
*
77407 AGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTTATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAACTCATCCAA-GAGGAAGAA-AAGTTCATAATGAGAAGAACT
77468 CATTCAACCC
Statistics
Matches: 239, Mismatches: 30, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
104 1 0.00
105 89 0.37
106 3 0.01
107 22 0.09
108 1 0.00
109 4 0.02
111 25 0.10
114 2 0.01
115 1 0.00
116 2 0.01
117 89 0.37
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (109 bp):
AGAGTTCATAATGAGAAGAACTCATCCAAGAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCC
TTTCAAATTCACCACAGAAGAAGGTGGACCAACATTTCCAATAG
Found at i:77410 original size:117 final size:117
Alignment explanation
Indices: 77260--77476 Score: 353
Period size: 117 Copynumber: 1.9 Consensus size: 117
77250 AAGTCCACCG
* * * *
77260 CAGAAGGAGGTGGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAAGTCATCCAATGAGGA
1 CAGAAGAAGGTGGACCAACATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGA
**
77325 AGAAAAAGTTCATAATAAGAAGAACTTGTTCAACCTTGGTTTGATTTCATCA
66 AGAAAAAGTTCATAATAAGAAGAACTCATTCAACCTTGGTTTGATTTCATCA
77377 CAGAAGAAGGTGGACCAACATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGA
1 CAGAAGAAGGTGGACCAACATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGA
* * *
77442 AGAAGAAGTTTATAATGAGAAGAACTCATTCAACC
66 AGAAAAAGTTCATAATAAGAAGAACTCATTCAACC
77477 CCGCATCAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (117 bp):
CAGAAGAAGGTGGACCAACATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGA
AGAAAAAGTTCATAATAAGAAGAACTCATTCAACCTTGGTTTGATTTCATCA
Found at i:77739 original size:3 final size:3
Alignment explanation
Indices: 77733--77784 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
77723 ATATTATAAA
* * *
77733 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAA T-T TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
77780 TAT TA
1 TAT TA
77785 CAAATTTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:81077 original size:16 final size:16
Alignment explanation
Indices: 81037--81078 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
81027 GGAAGATTGC
*
81037 TTGTCTCCACTTGGCT
1 TTGTCTCCACTTAGCT
*
81053 TTATCTCCACTTAGCT
1 TTGTCTCCACTTAGCT
*
81069 TTGTTTCCAC
1 TTGTCTCCAC
81079 CAGCCATCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.45
Consensus pattern (16 bp):
TTGTCTCCACTTAGCT
Found at i:84526 original size:16 final size:16
Alignment explanation
Indices: 84505--84546 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
84495 GGAAGATTGC
*
84505 TTGTCTCCACTTGGCT
1 TTGTCTCCACTTAGCT
84521 TTGTCTCCACTTAGCT
1 TTGTCTCCACTTAGCT
*
84537 TTGTTTCCAC
1 TTGTCTCCAC
84547 CAGCCATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.31, G:0.14, T:0.45
Consensus pattern (16 bp):
TTGTCTCCACTTAGCT
Found at i:84698 original size:22 final size:22
Alignment explanation
Indices: 84667--84716 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
84657 CCATGAAGCG
* *
84667 ATGCAAATTGTAACATTCGGCC
1 ATGCATATTGTAACATACGGCC
* *
84689 ATGCATATTGTAACCTACGTCC
1 ATGCATATTGTAACATACGGCC
84711 ATGCAT
1 ATGCAT
84717 GCATTTCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (22 bp):
ATGCATATTGTAACATACGGCC
Found at i:88000 original size:16 final size:16
Alignment explanation
Indices: 87979--88020 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
87969 GGAAGATTGC
*
87979 TTGTCTCCACTTGGCT
1 TTGTCTCCACTTAGCT
87995 TTGTCTCCACTTAGCT
1 TTGTCTCCACTTAGCT
*
88011 TTGTTTCCAC
1 TTGTCTCCAC
88021 CAGCCATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.31, G:0.14, T:0.45
Consensus pattern (16 bp):
TTGTCTCCACTTAGCT
Found at i:91477 original size:16 final size:16
Alignment explanation
Indices: 91456--91497 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
91446 GGAAGATTGC
* *
91456 TTGTCTCCACTTGGTT
1 TTGTCTCCACTTAGCT
91472 TTGTCTCCACTTAGCT
1 TTGTCTCCACTTAGCT
*
91488 TTGTTTCCAC
1 TTGTCTCCAC
91498 CGGCCATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.29, G:0.14, T:0.48
Consensus pattern (16 bp):
TTGTCTCCACTTAGCT
Found at i:94042 original size:18 final size:18
Alignment explanation
Indices: 94019--94053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94009 GTAAACAAAA
*
94019 ATATATATTAAATATTAC
1 ATATATAATAAATATTAC
*
94037 ATATATAATATATATTA
1 ATATATAATAAATATTA
94054 TTTATAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATAATAAATATTAC
Found at i:100299 original size:16 final size:16
Alignment explanation
Indices: 100278--100315 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
100268 TTAGTGAATT
100278 TGTGGAAAATAC-TTAG
1 TGTGGAAAAT-CTTTAG
100294 TGTGGAAAATCTTTAG
1 TGTGGAAAATCTTTAG
100310 TGTGGA
1 TGTGGA
100316 TAGCTAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (16 bp):
TGTGGAAAATCTTTAG
Found at i:106202 original size:12 final size:13
Alignment explanation
Indices: 106175--106207 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
106165 ATATTACAAT
106175 TTTTCAAACATAG
1 TTTTCAAACATAG
106188 TTTTCAAAC-TAG
1 TTTTCAAACATAG
106200 TTTTCAAA
1 TTTTCAAA
106208 TTTTCCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:109596 original size:81 final size:81
Alignment explanation
Indices: 109462--110037 Score: 636
Period size: 81 Copynumber: 7.2 Consensus size: 81
109452 CACTGTTAAA
* * * * * * * *
109462 CATTTATTC-TTTCCTCTAAAGGCATTTAACCTTCCGTTTAACTTGCATTATTGGCACCTTTCTG
1 CATTTAATCTTTTACTC-AAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTG
* *
109526 CCAAATGCACAATTATG
65 CCAAATGCACAGTTAGG
* * * *
109543 CATTTAATATTTTACCCAAAGACATTTAAGCTTTCATCTAACTAGCATGATTGGCATCTTTCTGC
1 CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
*
109608 CAAATGCACAGTTAGA
66 CAAATGCACAGTTAGG
* * * *
109624 CATTTAATCTTTTACTCAAAGGCATTTAACCTTTCATCAAACTAGCATGATTGGTACCTTTCTGT
1 CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
* *
109689 TAAATG--CAGTTAGT
66 CAAATGCACAGTTAGG
* * * * * *
109703 CATTTAATGTTTTACTCGAAGGCACTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGT
1 CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
* *
109768 CAAATGCATAATTAGG
66 CAAATGCACAGTTAGG
* * * * * *
109784 CATTTAATCTTTTACT-AAA-A-A-AT-A---TTCATCTAACTAGCATTATTAGTACATTTCTAC
1 CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
*
109841 CAAATGTACAGTTAGG
66 CAAATGCACAGTTAGG
* * * *
109857 CATTTAATTTTTTATTCAAAGGCATTTAACCTTTCATCTAACTAGCATGATTAGCACCTTTCTGC
1 CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
*
109922 TAAATGCACAGTTAGG
66 CAAATGCACAGTTAGG
* *
109938 CATTTAATCTTTTACTCAAAGGA-ATTTAACATTTCATCTAACTAGCATGATTGGCACCTTTATG
1 CATTTAATCTTTTACTCAAA-GACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTG
110002 CCAAATGCACAGTTAGG
65 CCAAATGCACAGTTAGG
* *
110019 TATTTAATTTTTTTACTCA
1 CATTTAA-TCTTTTACTCA
110038 TAATAGCAAT
Statistics
Matches: 414, Mismatches: 68, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
73 53 0.13
74 3 0.01
76 2 0.00
77 2 0.00
78 2 0.00
79 71 0.17
80 2 0.00
81 263 0.64
82 16 0.04
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (81 bp):
CATTTAATCTTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGGCACCTTTCTGC
CAAATGCACAGTTAGG
Found at i:119681 original size:20 final size:20
Alignment explanation
Indices: 119656--119693 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
119646 TCAAATTATA
119656 AGTTTTA-GAAACTTATAGTC
1 AGTTTTAGGAAA-TTATAGTC
119676 AGTTTTAGGAAATTATAG
1 AGTTTTAGGAAATTATAG
119694 AAAATCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
AGTTTTAGGAAATTATAGTC
Found at i:124681 original size:25 final size:25
Alignment explanation
Indices: 124647--124715 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
124637 CAGCACTGAG
124647 AAAGATACCATTTTCTAACGCCAGAA
1 AAAG-TACCATTTTCTAACGCCAGAA
* ** **
124673 AATGTACCATTTTC-AATACTGGAA
1 AAAGTACCATTTTCTAACGCCAGAA
124697 AAAGTACCATTTTCTAACG
1 AAAGTACCATTTTCTAACG
124716 TTGGAAAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 19 0.56
25 12 0.35
26 3 0.09
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
AAAGTACCATTTTCTAACGCCAGAA
Found at i:124720 original size:25 final size:25
Alignment explanation
Indices: 124647--124742 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 25
124637 CAGCACTGAG
***
124647 AAAGATACCATTTTCTAACGCCAGAA
1 AAAG-TACCATTTTCTAACGTTGGAA
* *
124673 AATGTACCATTTTCAATAC--TGGAA
1 AAAGTACCATTTTCTA-ACGTTGGAA
124697 AAAGTACCATTTTCTAACGTTGGAA
1 AAAGTACCATTTTCTAACGTTGGAA
*
124722 AAGGTACCAATTTTC-AACGTT
1 AAAGTACC-ATTTTCTAACGTT
124743 AAAAAGGGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.03
24 17 0.29
25 29 0.49
26 11 0.19
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (25 bp):
AAAGTACCATTTTCTAACGTTGGAA
Found at i:125642 original size:32 final size:32
Alignment explanation
Indices: 125574--125648 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
125564 AGATACTAAT
* * *
125574 AGTGTTGCATTCAAATAATGTACATAAGAGTT
1 AGTGTTGTATTCAAATAATGCACATAAGAGTC
*
125606 AGTGTTGTATTCAAATAATGCACATGAA-TGTC
1 AGTGTTGTATTCAAATAATGCACAT-AAGAGTC
125638 AGTGTTGTATT
1 AGTGTTGTATT
125649 TAGATAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (32 bp):
AGTGTTGTATTCAAATAATGCACATAAGAGTC
Found at i:135298 original size:14 final size:14
Alignment explanation
Indices: 135281--135320 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
135271 ACTCACCTGG
135281 TATGCCTCACTATT
1 TATGCCTCACTATT
135295 TATGCCTCACTA-T
1 TATGCCTCACTATT
*
135308 TATGCCTTACTAT
1 TATGCCTCACTAT
135321 CGAAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (14 bp):
TATGCCTCACTATT
Found at i:140106 original size:45 final size:45
Alignment explanation
Indices: 140007--140117 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
139997 AGCTATAATA
* * **
140007 CATACTTTTCTGTTGATAATGCACCCATATGTATTTTAACTCTAG
1 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTTAACTAAAG
140052 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTCT-ACTAAAG
1 CATACTTTTCTGTTGATAATGCACCCAAATGCATTT-TAACTAAAG
* **
140097 TATGTTTTTCTGTTGATAATG
1 CATACTTTTCTGTTGATAATG
140118 TGCCCATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (45 bp):
CATACTTTTCTGTTGATAATGCACCCAAATGCATTTTAACTAAAG
Found at i:140794 original size:94 final size:95
Alignment explanation
Indices: 140595--140797 Score: 268
Period size: 94 Copynumber: 2.1 Consensus size: 95
140585 TCAGTATCAA
* *
140595 ACCCCTACTATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCA
1 ACCCTTACCATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCA
* * *
140660 AAATTAGCTTCGATGTAGCCTGGTATTGAT
66 AAATTAGCTTCGATATAGCATAGTATTGAT
* *
140690 ACCCTCACCATGGTATCGATACTA-C-TATGCTATGGTATTGATACCCCCTT-CGGTATCGATAC
1 ACCCTTACCATGGTATCGATACTACCGTA-G-TATGGTATTGATACCCCCTTCCAGTATCGATAC
* * **
140752 CAAAATTAGGTTTGATATTTCATAGTATTGAT
64 CAAAATTAGCTTCGATATAGCATAGTATTGAT
140784 ACCCTTACCATGGT
1 ACCCTTACCATGGT
140798 TTTGATATAA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
93 2 0.02
94 51 0.54
95 41 0.44
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (95 bp):
ACCCTTACCATGGTATCGATACTACCGTAGTATGGTATTGATACCCCCTTCCAGTATCGATACCA
AAATTAGCTTCGATATAGCATAGTATTGAT
Found at i:146952 original size:45 final size:45
Alignment explanation
Indices: 146893--147024 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
146883 AGCTATAATA
* * **
146893 CATACTTTTATGTTGATAATGCACCCATATGTATTTCAACTCTAG
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
*
146938 CATACTTTTCTGTTGATAATGCACCCAAATGCATTTCAACTAAAG
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
* * * *
146983 TATTCTTTTCTGTTGATAATGTACCCATATACATTTCAACTA
1 CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTA
147025 TGACATGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (45 bp):
CATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAAG
Found at i:156575 original size:20 final size:20
Alignment explanation
Indices: 156550--156596 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
156540 AAGCATAATT
156550 GGGCAATGTCCAGTTGTGGA
1 GGGCAATGTCCAGTTGTGGA
156570 GGGCAATGTCCAGTTGTGGA
1 GGGCAATGTCCAGTTGTGGA
*
156590 GGCCAAT
1 GGGCAAT
156597 TCTTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (20 bp):
GGGCAATGTCCAGTTGTGGA
Done.