Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 126 of 186
Found at i:41924419 original size:20 final size:20
Alignment explanation
Indices: 41924374--41924425 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
41924364 ATAAATTACT
* *
41924374 GGTTATATGGATGAACTACT
1 GGTTATATGAATGAACTACA
*
41924394 GGTTATATGAATGAATTACA
1 GGTTATATGAATGAACTACA
* *
41924414 GTTTATACGAAT
1 GGTTATATGAAT
41924426 AAAAATGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (20 bp):
GGTTATATGAATGAACTACA
Found at i:41930637 original size:23 final size:23
Alignment explanation
Indices: 41930601--41930710 Score: 109
Period size: 23 Copynumber: 4.8 Consensus size: 23
41930591 GGACTCACCA
*
41930601 CAGCTCATATGAGCTTACCGATT
1 CAGCTCATAAGAGCTTACCGATT
* *
41930624 CAGCTCGTAAGAGCTTACCGTTT
1 CAGCTCATAAGAGCTTACCGATT
* *
41930647 CAGCTCATTAGAGCTTA-CTATT
1 CAGCTCATAAGAGCTTACCGATT
* *
41930669 CAGCTCGAT-AGAGCTTACTGTTTT
1 CAGCTC-ATAAGAGCTTACCG-ATT
41930693 CAGCTCA-ATAGAGCTTAC
1 CAGCTCATA-AGAGCTTAC
41930711 TGTTTTCAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
22 17 0.24
23 38 0.53
24 17 0.24
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACCGATT
Found at i:41930694 original size:46 final size:45
Alignment explanation
Indices: 41930601--41930744 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
41930591 GGACTCACCA
* *
41930601 CAGCTCATATGAGCTTACCGATTCAGCTCG-TAAGAGCTTACCG-TTT
1 CAGCTCATA-GAGCTTA-CTATTCAGCTCGAT-AGAGCTTACTGTTTT
41930647 CAGCTCATTAGAGCTTACTATTCAGCTCGATAGAGCTTACTGTTTT
1 CAGCTCA-TAGAGCTTACTATTCAGCTCGATAGAGCTTACTGTTTT
* * * *
41930693 CAGCTCAATAGAGCTTACTGTTTTCAGCTCAATACAGCTTATTGTTTAT
1 CAGCTC-ATAGAGCTTAC--TATTCAGCTCGATAGAGCTTACTGTTT-T
41930742 CAG
1 CAG
41930745 ATCAGGAGGA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
45 21 0.25
46 34 0.40
47 3 0.04
48 23 0.27
49 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (45 bp):
CAGCTCATAGAGCTTACTATTCAGCTCGATAGAGCTTACTGTTTT
Found at i:41930703 original size:24 final size:24
Alignment explanation
Indices: 41930633--41930744 Score: 140
Period size: 24 Copynumber: 4.8 Consensus size: 24
41930623 TCAGCTCGTA
* *
41930633 AGAGCTTACCG-TTTCAGCTCATT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
41930656 AGAGCTTAC--TATTCAGCTCGAT
1 AGAGCTTACTGTTTTCAGCTCAAT
41930678 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
41930702 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
41930726 ACAGCTTATTGTTTATCAG
1 AGAGCTTACTGTTT-TCAG
41930745 ATCAGGAGGA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
22 18 0.23
23 9 0.12
24 47 0.60
25 4 0.05
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAT
Found at i:41933215 original size:25 final size:25
Alignment explanation
Indices: 41933157--41933215 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
41933147 TTAATGAGTA
* *
41933157 TAAAATATT-AATAATTCAATAAATT
1 TAAAAT-TTAAATAATTAAATAAAAT
*
41933182 TAAATTTTAAATAATTAAATAAAAT
1 TAAAATTTAAATAATTAAATAAAAT
41933207 TAAAATTTA
1 TAAAATTTA
41933216 GGAGAAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TAAAATTTAAATAATTAAATAAAAT
Found at i:41933954 original size:16 final size:15
Alignment explanation
Indices: 41933929--41933962 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
41933919 AAAGTTGATA
*
41933929 ATAATTAATATATATT
1 ATAATAAATATA-ATT
41933945 ATAATAAATATAATT
1 ATAATAAATATAATT
41933960 ATA
1 ATA
41933963 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:41934084 original size:30 final size:30
Alignment explanation
Indices: 41934028--41934085 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
41934018 GCCTTTAAAA
* * *
41934028 ATATTTACAGAAAGAGACATCTAATTTTTG
1 ATATTTACAAAAAGAGACACCAAATTTTTG
41934058 ATATTTACAAAAAGA-ACAACCAAATTTT
1 ATATTTACAAAAAGAGAC-ACCAAATTTT
41934086 AAAATAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
ATATTTACAAAAAGAGACACCAAATTTTTG
Found at i:41939731 original size:43 final size:43
Alignment explanation
Indices: 41939664--41939830 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
41939654 AGCTCGTACA
* * * *
41939664 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATATCG
** * * * * * *
41939706 ATGCCAATGTCTTAGACATAGTCTTATACGAAATCATATAACG
1 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATATCG
* * *
41939749 ATGCCAATATCCCAAAAATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATAT-CG
* *
41939792 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACAT
41939831 CTCGGTAATC
Statistics
Matches: 96, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
42 6 0.06
43 90 0.94
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATATCG
Found at i:41944696 original size:26 final size:25
Alignment explanation
Indices: 41944667--41944720 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
41944657 ATATTTTGAT
* **
41944667 TTTAAGGAAGTAATTTAAAACTAAAA
1 TTTAACGAAGTAAAATAAAA-TAAAA
*
41944693 TTTAACTAAGTAAAATAAAATAAAA
1 TTTAACGAAGTAAAATAAAATAAAA
41944718 TTT
1 TTT
41944721 CCATTCCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
TTTAACGAAGTAAAATAAAATAAAA
Found at i:41948231 original size:28 final size:28
Alignment explanation
Indices: 41948199--41948256 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
41948189 ATCCATAAAC
* *
41948199 TCATCATTACTTAGACTGATATAAGCAT
1 TCATCATTACTTAGACGGATATAACCAT
41948227 TCATCATTACTTAGACGGATATAACCAT
1 TCATCATTACTTAGACGGATATAACCAT
41948255 TC
1 TC
41948257 TTTGTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (28 bp):
TCATCATTACTTAGACGGATATAACCAT
Found at i:41960968 original size:11 final size:11
Alignment explanation
Indices: 41960948--41960976 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
41960938 ATCTGTGTTC
41960948 TTTA-TTTTAT
1 TTTATTTTTAT
41960958 TTTATTTTTAT
1 TTTATTTTTAT
41960969 TTTATTTT
1 TTTATTTT
41960977 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:41964188 original size:22 final size:22
Alignment explanation
Indices: 41964160--41964202 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
41964150 TTAGAAAAGC
*
41964160 AAGTAAATTGTACTTAAGTCAG
1 AAGTAAATTGTACCTAAGTCAG
41964182 AAGTAAATTGTACCTAAGTCA
1 AAGTAAATTGTACCTAAGTCA
41964203 AAAGGGGTAC
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:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (22 bp):
AAGTAAATTGTACCTAAGTCAG
Found at i:41965966 original size:40 final size:40
Alignment explanation
Indices: 41965889--41966069 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
41965879 GCCCAAGTAT
* * *
41965889 CTTCGGGATTTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
41965928 CTTCGGGTCTTAGCCCTGATATAGTCATTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
41965968 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
41966008 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
41966048 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
41966070 CATTCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.09
40 114 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:41968768 original size:5 final size:5
Alignment explanation
Indices: 41968758--41968791 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
41968748 TTGTGTGTTC
41968758 TTTAT TTTAT TTTAT GTTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTT
41968792 CACACTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:41968779 original size:16 final size:16
Alignment explanation
Indices: 41968758--41968788 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
41968748 TTGTGTGTTC
41968758 TTTATTTTATTTTATG
1 TTTATTTTATTTTATG
41968774 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
41968789 TTTCACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTTATTTTATG
Found at i:41972915 original size:13 final size:12
Alignment explanation
Indices: 41972865--41972924 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
41972855 ATTAGATAAA
41972865 TATTATTT-TAT
1 TATTATTTATAT
* *
41972876 TAATATTTTTAT
1 TATTATTTATAT
* *
41972888 GAGATATTTATTAT
1 TA-TTATTTA-TAT
41972902 TATTATATTATAT
1 TATTAT-TTATAT
41972915 TATTATTTAT
1 TATTATTTAT
41972925 TTAGTATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.17
12 8 0.20
13 18 0.45
14 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:41972932 original size:19 final size:19
Alignment explanation
Indices: 41972873--41972932 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
41972863 AATATTATTT
* *
41972873 TATTAATATTTTTATGAG-A
1 TATTATTATTATTAT-AGTA
*
41972892 TATTTATTATTATTATATTA
1 TA-TTATTATTATTATAGTA
41972912 TATTATTATTTATT-TAGTA
1 TATTATTA-TTATTATAGTA
41972931 TA
1 TA
41972933 AAAGGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TATTATTATTATTATAGTA
Found at i:41975134 original size:46 final size:46
Alignment explanation
Indices: 41975067--41975246 Score: 234
Period size: 46 Copynumber: 3.9 Consensus size: 46
41975057 TCTCTGATAT
* *
41975067 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
* * * *
41975113 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
* * *
41975159 GAAATGTGTAGGACCATGGTTGAAAAATACCATGGCAACATGACAG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
* * * * *
41975205 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
41975247 TCAAAGATAA
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
Found at i:41975227 original size:92 final size:92
Alignment explanation
Indices: 41975065--41975241 Score: 282
Period size: 92 Copynumber: 1.9 Consensus size: 92
41975055 GCTCTCTGAT
* * *
41975065 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCAT
* *
41975130 GGTTGAAAGATACCATGGCAGCGTGAC
66 AGTTGAAAGACACCATGGCAGCGTGAC
* *
41975157 ATGAAATGTGTAGGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCAT
*
41975222 AGTTGAAAGACACTATGGCA
66 AGTTGAAAGACACCATGGCA
41975242 TCATGTCAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCAT
AGTTGAAAGACACCATGGCAGCGTGAC
Found at i:41975548 original size:16 final size:17
Alignment explanation
Indices: 41975527--41975559 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41975517 ATGATGGTGC
41975527 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
41975543 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
41975560 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:41978016 original size:44 final size:47
Alignment explanation
Indices: 41977928--41978021 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
41977918 CCATATTTTA
41977928 GTTCTGGCAACTCGACTGCAATAATAGTGGCTCGACCACACATATCT
1 GTTCTGGCAACTCGACTGCAATAATAGTGGCTCGACCACACATATCT
* * * * * *
41977975 GTTCTGGCAGCTTGGCTGTAAT-ATAGTGGCTTGACCACATATATCT
1 GTTCTGGCAACTCGACTGCAATAATAGTGGCTCGACCACACATATCT
41978021 G
1 G
41978022 ATATGATAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 23 0.56
47 18 0.44
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (47 bp):
GTTCTGGCAACTCGACTGCAATAATAGTGGCTCGACCACACATATCT
Found at i:41982713 original size:20 final size:20
Alignment explanation
Indices: 41982688--41982734 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
41982678 ATAAAAACTT
* *
41982688 CATTTTAATATTT-TTTTATA
1 CATTTTAAT-TTTATTGTACA
41982708 CATTTTAATTTTATTGTACA
1 CATTTTAATTTTATTGTACA
41982728 CATTTTA
1 CATTTTA
41982735 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
CATTTTAATTTTATTGTACA
Found at i:41983072 original size:7 final size:7
Alignment explanation
Indices: 41983060--41983086 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
41983050 ATATGCTTCA
41983060 TTATTTG
1 TTATTTG
41983067 TTATTTG
1 TTATTTG
41983074 TTATTTG
1 TTATTTG
41983081 TTATTT
1 TTATTT
41983087 TTAACATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
TTATTTG
Found at i:41985638 original size:24 final size:24
Alignment explanation
Indices: 41985611--41985682 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
41985601 TATTTTACTA
41985611 AATTTATTATAAATTATTTATATT
1 AATTTATTATAAATTATTTATATT
* * * *
41985635 AATTT-TAATTAAATTCTGTAGTACT
1 AATTTATTA-TAAATTATTTA-TATT
* *
41985660 -ATTTATTGTTAATTATTTATATT
1 AATTTATTATAAATTATTTATATT
41985683 TAATCAAGGA
Statistics
Matches: 35, Mismatches: 10, Indels: 7
0.67 0.19 0.13
Matches are distributed among these distances:
23 5 0.14
24 26 0.74
25 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (24 bp):
AATTTATTATAAATTATTTATATT
Found at i:41986967 original size:15 final size:17
Alignment explanation
Indices: 41986946--41987006 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
41986936 CGAGATAATG
41986946 AAAAATAATAAATT-TT
1 AAAAATAATAAATTATT
41986962 -AAAATAA-AAATTGATT
1 AAAAATAATAAATT-ATT
* *
41986978 AAAAATAATAATTTAAT
1 AAAAATAATAAATTATT
41986995 AAATAA-AATAAA
1 AAA-AATAATAAA
41987007 CTGGAAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.14
15 7 0.19
16 2 0.05
17 17 0.46
18 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATAATAAATTATT
Found at i:41986984 original size:17 final size:15
Alignment explanation
Indices: 41986946--41987002 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
41986936 CGAGATAATG
41986946 AAAAATAATAAATTTT
1 AAAAATAA-AAATTTT
41986962 -AAAATAAAAATTGATT
1 AAAAATAAAAATT--TT
*
41986978 AAAAATAATAA-TTT
1 AAAAATAAAAATTTT
41986992 AATAAATAAAA
1 AA-AAATAAAA
41987003 TAAACTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 9 0.26
15 14 0.40
16 3 0.09
17 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAAATAAAAATTTT
Found at i:41992542 original size:15 final size:16
Alignment explanation
Indices: 41992522--41992556 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
41992512 TTGGCTAGGT
41992522 TTTTG-AGGTAAGCTA
1 TTTTGAAGGTAAGCTA
41992537 TTTTGAAGGTAAGCTA
1 TTTTGAAGGTAAGCTA
41992553 TTTT
1 TTTT
41992557 CAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (16 bp):
TTTTGAAGGTAAGCTA
Found at i:41994176 original size:19 final size:19
Alignment explanation
Indices: 41994131--41994176 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
41994121 ATAACTGTCA
* *
41994131 ATTTCATTATTTAAATTTT
1 ATTTTATTATTTAAAATTT
* *
41994150 GTTCTATTATTTAAAATTT
1 ATTTTATTATTTAAAATTT
41994169 ATTTTATT
1 ATTTTATT
41994177 CTATATTCTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTATTATTTAAAATTT
Found at i:41996183 original size:17 final size:17
Alignment explanation
Indices: 41996163--41996206 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
41996153 ATAACTTTAT
41996163 TTGAACCTATATGAGTC
1 TTGAACCTATATGAGTC
41996180 TTGAACCTATATGAGTC
1 TTGAACCTATATGAGTC
*
41996197 TTGATCCTAT
1 TTGAACCTAT
41996207 TGAAGCGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (17 bp):
TTGAACCTATATGAGTC
Found at i:41998017 original size:15 final size:14
Alignment explanation
Indices: 41997998--41998070 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
41997988 TAATTCATAT
41997998 TTTAATAATAATTA
1 TTTAATAATAATTA
*
41998012 TATTAAAAAT-ATTA
1 T-TTAATAATAATTA
* *
41998026 TTAAATTATATATTA
1 TTTAATAATA-ATTA
* *
41998041 TTTTATTAA-ATTGTA
1 -TTTAATAATAAT-TA
41998056 TTTAATAATAATTA
1 TTTAATAATAATTA
41998070 T
1 T
41998071 GTGAAAATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
13 5 0.12
14 17 0.40
15 16 0.37
16 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
TTTAATAATAATTA
Found at i:41998111 original size:61 final size:59
Alignment explanation
Indices: 41997968--41998128 Score: 193
Period size: 61 Copynumber: 2.7 Consensus size: 59
41997958 TTTTTCTAAT
* *
41997968 ATTATATATTATATTTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAA
1 ATTATATA-T-TATTTTTATTAAATT-ATA-TTTAATAATAATTATAGTAAAAATATGATTAA
* *
41998030 ATTATATATTA-TTTTATTAAATTGTATTTAATAATAATTAT-GTGAAAATATGATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATAGTAAAAATATGATTAA
*
41998087 ATTATTTATTTTTATTTTTATTAAATTATATTTAATAATAAT
1 ATTA--TA-TATTATTTTTATTAAATTATATTTAATAATAAT
41998129 CTTTGTTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
57 17 0.19
58 15 0.17
59 11 0.12
60 10 0.11
61 27 0.31
62 8 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (59 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTATAGTAAAAATATGATTAA
Found at i:42003881 original size:17 final size:18
Alignment explanation
Indices: 42003849--42003882 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42003839 TAATCCTCAT
42003849 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
42003867 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
42003883 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:42006874 original size:21 final size:21
Alignment explanation
Indices: 42006850--42006897 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
42006840 ATTTTCTCCT
* *
42006850 TTATTATTTTATTTTAATTAC
1 TTATTATTTTATCTTAATGAC
*
42006871 TTATTATTTTATCTTAATGAT
1 TTATTATTTTATCTTAATGAC
42006892 TTATTA
1 TTATTA
42006898 CTTAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTATTTTATCTTAATGAC
Found at i:42012432 original size:20 final size:20
Alignment explanation
Indices: 42012407--42012444 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42012397 TATTTTTTCC
*
42012407 TTATTATTTTATTTTAATTA
1 TTATTATTTTATCTTAATTA
42012427 TTATTATTTTATCTTAAT
1 TTATTATTTTATCTTAAT
42012445 GATTTATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATTTTATCTTAATTA
Found at i:42016455 original size:17 final size:18
Alignment explanation
Indices: 42016423--42016456 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42016413 TATTCCTCAT
42016423 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
42016441 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
42016457 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:42032608 original size:3 final size:3
Alignment explanation
Indices: 42032600--42032632 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
42032590 AGGGTTTTCT
42032600 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42032633 CATGAAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:42037682 original size:47 final size:49
Alignment explanation
Indices: 42037624--42037717 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 49
42037614 TATAAATGAC
* * * *
42037624 TTAGGGGTTACAATATAATGAATTT-A-GGGGTTATGGACATTCATTCT
1 TTAGGGATTACAATAGAATAAATTTGAGGGGGTTATGGACATCCATTCT
*
42037671 TTAGGGATTACAATAGGATAAATTTGAGGGGGTTATGGACATCCATT
1 TTAGGGATTACAATAGAATAAATTTGAGGGGGTTATGGACATCCATT
42037718 TATCATGGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 21 0.52
48 1 0.03
49 18 0.45
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.35
Consensus pattern (49 bp):
TTAGGGATTACAATAGAATAAATTTGAGGGGGTTATGGACATCCATTCT
Found at i:42041066 original size:46 final size:44
Alignment explanation
Indices: 42040971--42041193 Score: 189
Period size: 46 Copynumber: 4.8 Consensus size: 44
42040961 GGGGTAAGGT
* * *
42040971 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-TTCATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCTTGA-G
42041017 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCTTGAG
* * ** *
42041063 GCCGATGCATGTCTCAGACATGTCTTACACTAGCGCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCATCTTGAG
* * * * *
42041109 GTCGATACCATGTCCCAGATATGGTCTTATACTGGCTC-TCATAATGTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCATC-T--TGAG
* *
42041157 GCCGATGCATGTACCAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
42041194 CACAAGTGAC
Statistics
Matches: 143, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
44 12 0.08
45 16 0.11
46 69 0.48
47 30 0.21
48 16 0.11
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTTGAG
Found at i:42042759 original size:14 final size:14
Alignment explanation
Indices: 42042740--42042770 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
42042730 TATAACATTT
42042740 GGTTATTCTAATTA
1 GGTTATTCTAATTA
42042754 GGTTATTCTAATTA
1 GGTTATTCTAATTA
42042768 GGT
1 GGT
42042771 CAGTAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (14 bp):
GGTTATTCTAATTA
Found at i:42043427 original size:18 final size:19
Alignment explanation
Indices: 42043399--42043438 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
42043389 TTTAATTCAA
42043399 TAATCTAAAACTAA-TCATT
1 TAATCTAAAAC-AATTCATT
42043418 TAAT-TAAAACAATTCATT
1 TAATCTAAAACAATTCATT
42043436 TAA
1 TAA
42043439 ACAAGCAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATCTAAAACAATTCATT
Found at i:42045581 original size:18 final size:16
Alignment explanation
Indices: 42045550--42045587 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
42045540 TTCTATATGG
42045550 ATTTTACTTTTATTTT
1 ATTTTACTTTTATTTT
42045566 ATTTTACTACTTTATTTT
1 ATTTTACT--TTTATTTT
42045584 ATTT
1 ATTT
42045588 AAATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTACTTTTATTTT
Found at i:42057692 original size:3 final size:3
Alignment explanation
Indices: 42057680--42057709 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
42057670 AGACTCAATG
42057680 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
42057710 AGAAACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:42060040 original size:16 final size:16
Alignment explanation
Indices: 42059993--42060057 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
42059983 ATACTTAATT
*
42059993 TTATATTATTTTTAAT-
1 TTAT-TTATTTTAAATA
42060009 TT-TTTATTTCTAAATA
1 TTATTTATTT-TAAATA
42060025 TTATTTATTTTAAATA
1 TTATTTATTTTAAATA
* **
42060041 TTAGTTACATTAAATA
1 TTATTTATTTTAAATA
42060057 T
1 T
42060058 GTTATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.14
15 5 0.12
16 24 0.57
17 7 0.17
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATTTATTTTAAATA
Found at i:42061722 original size:16 final size:15
Alignment explanation
Indices: 42061671--42061722 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
42061661 TAAAAATTTT
* *
42061671 ATATAAAATATAAAA
1 ATATTAAATTTAAAA
42061686 ATATTAAA-TTAAAA
1 ATATTAAATTTAAAA
42061700 ATTTATTGAAATTTAAAA
1 A--TATT-AAATTTAAAA
42061718 ATATT
1 ATATT
42061723 TTTATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 7 0.23
16 8 0.26
17 3 0.10
18 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
ATATTAAATTTAAAA
Found at i:42067799 original size:43 final size:43
Alignment explanation
Indices: 42067734--42067819 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
42067724 CCTCTCGCAG
*
42067734 AATCTCTTGAATAAGTTTATTGTTCTTGGGTACACAAACTCTA
1 AATCTCTTGAATAAGTTCATTGTTCTTGGGTACACAAACTCTA
42067777 AATCTCTTGAATAAGTTCATTGTTCTTGGGTACACAAACTCTA
1 AATCTCTTGAATAAGTTCATTGTTCTTGGGTACACAAACTCTA
42067820 TCTCTGAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (43 bp):
AATCTCTTGAATAAGTTCATTGTTCTTGGGTACACAAACTCTA
Found at i:42069454 original size:45 final size:45
Alignment explanation
Indices: 42069353--42069479 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
42069343 TTTTCTCAAA
* *
42069353 TCACCGGTATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
42069395 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* ** * *
42069439 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
42069480 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (45 bp):
TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:42069920 original size:43 final size:43
Alignment explanation
Indices: 42069796--42069913 Score: 191
Period size: 43 Copynumber: 2.7 Consensus size: 43
42069786 ACATATCATT
* *
42069796 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCAGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCAGAATACACA
* * *
42069839 TCACCGGCACGAAGCCTACTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCAGAATACACA
42069882 TCACCGGCACTAAGCCTGCTAGGCACGAAGGC
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGC
42069914 TCGAATATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCAGAATACACA
Found at i:42076721 original size:46 final size:44
Alignment explanation
Indices: 42076637--42076757 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
42076627 ATATTTGTGT
* *
42076637 CGATGCCATATCCCAGAAATGGTCTTACACTGACACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGGC
*
42076683 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGGC
* *
42076729 CGATGCATGTGCTAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
42076758 AGCACTCGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 12 0.18
45 13 0.19
46 42 0.63
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGGC
Found at i:42076780 original size:46 final size:46
Alignment explanation
Indices: 42076637--42076805 Score: 130
Period size: 46 Copynumber: 3.6 Consensus size: 46
42076627 ATATTTGTGT
* * * *
42076637 CGATGCCATATCCCAGAAATGGTCTTACACT-GAC-ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTACATCTC-AAGGC
* * *
42076683 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAGGC
* * * *
42076729 CGATGCATGTGCTAGACATGTCTTACACTAGCACT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-CTACATCTCAAGGC
* * *
42076775 TGATGCCATATCCCAGAGATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
42076806 GGCTCTCATA
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 10 0.10
45 14 0.14
46 55 0.55
47 11 0.11
48 10 0.10
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAGGC
Found at i:42078485 original size:41 final size:40
Alignment explanation
Indices: 42078432--42078601 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
42078422 AGTCCGACTC
*
42078432 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
42078471 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * * *
42078511 TTATGACACTGGCTCTAAAAAGCCCTTTGAAACTAAGTTCAGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTC-G-GA
42078556 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
42078595 TTCAGAC
1 TT-AGAC
42078602 CCCGATTAGC
Statistics
Matches: 103, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
39 7 0.07
40 17 0.17
41 48 0.47
42 16 0.16
43 11 0.11
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:42082740 original size:37 final size:37
Alignment explanation
Indices: 42082666--42082805 Score: 181
Period size: 37 Copynumber: 3.8 Consensus size: 37
42082656 CAATAACAAG
* **
42082666 TTCTACTGTTATACTGAATGAAGCTTAAGGGAGCAAA
1 TTCTACTGTTATACTGAATGAAGCTCAAACGAGCAAA
** * * *
42082703 TTCTTTTTTTATACTAAATGAAGCTCAAACGAACAAA
1 TTCTACTGTTATACTGAATGAAGCTCAAACGAGCAAA
* * *
42082740 TTCCACTGTTATATTGAATGAAGCTCAAACGAGCAAT
1 TTCTACTGTTATACTGAATGAAGCTCAAACGAGCAAA
42082777 TTCTACTGTTATACTGAATGAAGCTCAAA
1 TTCTACTGTTATACTGAATGAAGCTCAAA
42082806 TGAGAAAAAT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (37 bp):
TTCTACTGTTATACTGAATGAAGCTCAAACGAGCAAA
Found at i:42082827 original size:37 final size:37
Alignment explanation
Indices: 42082667--42082827 Score: 110
Period size: 37 Copynumber: 4.4 Consensus size: 37
42082657 AATAACAAGT
* * ** * *
42082667 TCTACTGTTATACTGAATGAAGCTTAAGGGAGCAAAT
1 TCTACTGATATACTGAATGAAGCTCAAACGAGAAAAA
** ** * *
42082704 TCTTTTTTTATACTAAATGAAGCTCAAACGA-ACAAAT
1 TCTACTGATATACTGAATGAAGCTCAAACGAGA-AAAA
* * * * **
42082741 TCCACTGTTATATTGAATGAAGCTCAAACGAGCAATT
1 TCTACTGATATACTGAATGAAGCTCAAACGAGAAAAA
* *
42082778 TCTACTGTTATACTGAATGAAGCTCAAATGAGAAAAA
1 TCTACTGATATACTGAATGAAGCTCAAACGAGAAAAA
42082815 TCTA-TGGATATAC
1 TCTACT-GATATAC
42082828 GGATATAAAG
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
36 1 0.01
37 97 0.99
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (37 bp):
TCTACTGATATACTGAATGAAGCTCAAACGAGAAAAA
Found at i:42088956 original size:26 final size:26
Alignment explanation
Indices: 42088927--42089008 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
42088917 TGGTACAAAT
42088927 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
42088953 TGATAACGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42088979 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
42089005 TGAT
1 TGAT
42089009 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:42090872 original size:33 final size:34
Alignment explanation
Indices: 42090807--42090881 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
42090797 CCATACTGTT
*
42090807 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTA
1 ATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTA
** *
42090841 ATCTGAA-AA-GGGCTCTGGCCCAGTATCATTGTT
1 ATCTGAATAAGGGGCTAAGGCCCAGT-TCATTGTA
*
42090874 ACCTGAAT
1 ATCTGAAT
42090882 GGGCTTAGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 13 0.38
33 14 0.41
34 7 0.21
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTA
Found at i:42092124 original size:16 final size:16
Alignment explanation
Indices: 42092100--42092134 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
42092090 TGTTAGGGAT
*
42092100 AAACCAGTTAAACAAC
1 AAACAAGTTAAACAAC
*
42092116 AAACAAGTTAAATAAC
1 AAACAAGTTAAACAAC
42092132 AAA
1 AAA
42092135 GAAATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.06, T:0.14
Consensus pattern (16 bp):
AAACAAGTTAAACAAC
Found at i:42098516 original size:3 final size:3
Alignment explanation
Indices: 42098510--42098537 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42098500 TTTTAGGACT
42098510 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42098538 ATACCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42099399 original size:6 final size:6
Alignment explanation
Indices: 42099381--42099458 Score: 70
Period size: 6 Copynumber: 12.8 Consensus size: 6
42099371 AAGAAACATT
* *
42099381 ATCAGA A-CTAGA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
42099431 A-CAGA ATCAAA ATCATA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
42099459 GTAACAGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 3 0.05
6 52 0.88
7 3 0.05
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:42099438 original size:31 final size:31
Alignment explanation
Indices: 42099401--42099481 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
42099391 GAATGAGAAT
*
42099401 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
42099432 CAGAATCAAAATCATAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
42099463 CAGAATAAAATATCAGAAT
1 CAGAATCAAA-ATCAGAAT
42099482 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 38 0.84
32 7 0.16
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:42099656 original size:27 final size:26
Alignment explanation
Indices: 42099618--42099719 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
42099608 GCTCAGTTAT
*
42099618 CAGATATTGTGGCAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
42099645 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
42099671 CAGATATTAGTGGCATAGCCACCAGAAA
1 CAGATATT-GTGGCAGAGCCACCAG-AA
* * *
42099699 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
42099720 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 9 0.13
27 51 0.75
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:42099906 original size:22 final size:23
Alignment explanation
Indices: 42099878--42099939 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
42099868 GCAAATACGT
*
42099878 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
42099900 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
42099922 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
42099940 TAGAAGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:42100481 original size:80 final size:80
Alignment explanation
Indices: 42100397--42100690 Score: 457
Period size: 80 Copynumber: 3.7 Consensus size: 80
42100387 GGTATCTCAG
* * *
42100397 TAATTCCACCCTACAAGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
42100461 CTACAGGGTATTGCGA
65 CTACAGGGTATTGCGA
* *
42100477 TAATTCTACCCTATAGGGGTATTTCGATAATTCTACTCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
42100542 TACAGGGTATTGCGA
66 TACAGGGTATTGCGA
* *
42100557 TAATTCTACCCTATAGGGGTATTTCGATAATTCTACTCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
42100622 TACAGGGGTATTTC-A
66 TACA-GGGTATTGCGA
* *
42100637 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCG
1 -TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCG
42100691 ATATTATACA
Statistics
Matches: 201, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
80 143 0.71
81 58 0.29
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGTATTGCGA
Found at i:42100690 original size:27 final size:27
Alignment explanation
Indices: 42100369--42100690 Score: 434
Period size: 27 Copynumber: 12.0 Consensus size: 27
42100359 GGGGCAAAAT
* * * *
42100369 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
42100395 AGTAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42100422 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42100449 GGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42100475 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42100502 GATAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42100529 GGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42100555 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42100582 GATAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42100609 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42100636 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42100663 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42100690 G
1 G
42100691 ATATTATACA
Statistics
Matches: 263, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 59 0.22
27 204 0.78
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42100722 original size:107 final size:107
Alignment explanation
Indices: 42100397--42100722 Score: 419
Period size: 107 Copynumber: 3.0 Consensus size: 107
42100387 GGTATCTCAG
* * *
42100397 TAATTCCACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* *
42100462 TACA-GGGTATTGCGATAATTCTACCCTATAG-GGGTATTTCGA
66 TACAGGGGTATTTCGATAATTCTA--CTATCGAGGGTATTTCGA
* * * *
42100504 TAATTCTACTCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTGCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* * *
42100568 TATAGGGGTATTTCGATAATTCTACTCTAC-AGGGGTATTTCGG
66 TACAGGGGTATTTCGATAATTCTACTAT-CGA-GGGTATTTCGA
*
42100611 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* * * *
42100676 TACAGGGGTATTTCGAT-ATTATACAAATCGAGAGTATTTTGA
66 TACAGGGGTATTTCGATAATTCTAC-TATCGAGGGTATTTCGA
42100718 TAATT
1 TAATT
42100723 TCACAAATCA
Statistics
Matches: 188, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
105 3 0.02
106 23 0.12
107 125 0.66
108 37 0.20
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (107 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTTCGATAATTCTACTATCGAGGGTATTTCGA
Found at i:42100739 original size:27 final size:27
Alignment explanation
Indices: 42100678--42100859 Score: 149
Period size: 27 Copynumber: 6.8 Consensus size: 27
42100668 TTCTATCCTA
* *
42100678 CAGGGGTATTTCGAT-ATTATACAAAT
1 CAGGGGTATTTTGATAATTTTACAAAT
* *
42100704 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GGGTATTTTGATAATTTTACAAAT
* *
42100731 CAGGGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGATAATTTTACAAAT
* *
42100758 CAAGGGTATTTT-AGTAATTTTACAAAC
1 CAGGGGTATTTTGA-TAATTTTACAAAT
* * *
42100785 CAAGGTTATTTTTG-TAATTTTACAAAC
1 CAGGGGTA-TTTTGATAATTTTACAAAT
* ***
42100812 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGATAATTTTACAAAT
*
42100839 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGATAATTTT
42100860 GTAAACTAAG
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 17 0.13
27 106 0.82
28 5 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAT
Found at i:42100776 original size:54 final size:53
Alignment explanation
Indices: 42100678--42100876 Score: 170
Period size: 54 Copynumber: 3.7 Consensus size: 53
42100668 TTCTATCCTA
* * * * * *
42100678 CAGGGGTATTTCGAT-ATTATACAAATCGAGAGTATTTTGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTG-TAATTTTACAAAT
* *
42100731 CAGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTT-GTAATTTTACAAAT
* * * * * ***
42100785 CAAGGTTATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTT-GTAATTTTACAAAT
**
42100839 C-GAGGGTATTTTGGTAATTTTGTAAA-CTAAGGGTATTT
1 CAG-GGGTATTTTGGTAATTTTACAAATC-AAGGGTATTT
42100877 CAATAATTTT
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
53 14 0.12
54 102 0.87
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGTAATTTTACAAAT
Found at i:42100871 original size:27 final size:27
Alignment explanation
Indices: 42100734--42100876 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
42100724 CACAAATCAG
* *
42100734 GGGTATTTTGGTAATTTTA-CAAGTCAA
1 GGGTATTTTGGTAATTTTATAAACT-AA
* * *
42100761 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACTAA
* * * * *
42100788 GGTTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACTAA
** *
42100815 GGGTATTTTGGTAATTTTATTGA-TCGA
1 GGGTATTTTGGTAATTTTATAAACT-AA
*
42100842 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACTAA
42100869 GGGTATTT
1 GGGTATTT
42100877 CAATAATTTT
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
27 91 0.97
28 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAA
Found at i:42100876 original size:81 final size:82
Alignment explanation
Indices: 42100712--42100876 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 82
42100702 ATCGAGAGTA
*
42100712 TTTTGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATT
1 TTTTGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATT
*
42100777 TTACAAACCAAGGTTAT
66 TTACAAACCAAGGGTAT
* ** * *
42100794 TTTTG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTA-TTGATCGAGGGTATTTTGGTAAT
1 TTTTGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAG-TCAAGGGTATTTTAGTAAT
** *
42100857 TTTGTAAACTAAGGGTAT
65 TTTACAAACCAAGGGTAT
42100875 TT
1 TT
42100877 CAATAATTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 66 0.92
82 5 0.07
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (82 bp):
TTTTGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATT
TTACAAACCAAGGGTAT
Found at i:42100895 original size:54 final size:53
Alignment explanation
Indices: 42100709--42100897 Score: 150
Period size: 54 Copynumber: 3.5 Consensus size: 53
42100699 CAAATCGAGA
* * *
42100709 GTATTTT-GATAATTTCACAAATC-AGGGGTATTTTGGTAA-TTTTACAAGTCAAGG
1 GTATTTTAG-TAATTTTATAAATCGA-GGGTATTTTGGTAATTTTTA-AACT-AAGG
* * * * * * * *
42100763 GTATTTTAGTAATTTTACAAACCAAGGTTATTTTTGTAATTTTACAAACCAGGG
1 GTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTT-TAAACTAAGG
* **
42100817 GTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTT-TAAACTAAGG
* * *
42100871 GTATTTCAATAATTTTGTAAATCGAGG
1 GTATTTTAGTAATTTTATAAATCGAGG
42100898 ATAAAACAGT
Statistics
Matches: 105, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
54 97 0.92
55 7 0.07
56 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (53 bp):
GTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTTAAACTAAGG
Found at i:42100910 original size:27 final size:27
Alignment explanation
Indices: 42100880--42101858 Score: 1787
Period size: 27 Copynumber: 36.3 Consensus size: 27
42100870 GGTATTTCAA
* * * **
42100880 TAATTTTGTAAATCGAGGATAAAACAG
1 TAATTCTGTAAATTGAGGGTAAAATGG
* *
42100907 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
* * *
42100934 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
*
42100961 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42100988 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101015 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101042 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101069 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101096 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101123 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101150 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101177 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101204 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101231 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101258 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101285 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101312 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101339 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101366 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101393 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101420 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101447 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101474 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101501 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101528 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101555 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101582 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101609 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101636 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101663 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101690 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
*
42101717 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101744 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
* *
42101771 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATTGAGGGTAAAATGG
* * * *
42101798 TAATTCTATAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATTGAGGGTAAAATGG
*
42101825 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATTGAGGGTAAAATGG
42101852 TAATTCT
1 TAATTCT
42101859 ATCTTATTTT
Statistics
Matches: 934, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 934 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (27 bp):
TAATTCTGTAAATTGAGGGTAAAATGG
Found at i:42101903 original size:27 final size:26
Alignment explanation
Indices: 42101873--42101957 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
42101863 TATTTTAGTG
*
42101873 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
* *
42101900 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATCGAGGGTA-TTTGGTA
* *
42101927 ATTTTACAAGTCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
42101954 ATTT
1 ATTT
42101958 GGTAAACTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTTTACAAATCGAGGGTATTTGGTA
Found at i:42105535 original size:32 final size:32
Alignment explanation
Indices: 42105488--42105554 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
42105478 GGTTCAGTGG
* * *
42105488 AATGGAATAGGGTTGTAATGAAATAGGGTTGT
1 AATGGAATAGAGTTGTAATGAAATAGAGTTAT
*
42105520 AATGTAATAGAGTTGTAATGAAATAGAGTTAT
1 AATGGAATAGAGTTGTAATGAAATAGAGTTAT
42105552 AAT
1 AAT
42105555 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (32 bp):
AATGGAATAGAGTTGTAATGAAATAGAGTTAT
Found at i:42105546 original size:16 final size:16
Alignment explanation
Indices: 42105488--42105554 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
42105478 GGTTCAGTGG
* *
42105488 AATGGAATAGGGTTGT
1 AATGAAATAGAGTTGT
*
42105504 AATGAAATAGGGTTGT
1 AATGAAATAGAGTTGT
*
42105520 AATGTAATAGAGTTGT
1 AATGAAATAGAGTTGT
*
42105536 AATGAAATAGAGTTAT
1 AATGAAATAGAGTTGT
42105552 AAT
1 AAT
42105555 CAGTAATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (16 bp):
AATGAAATAGAGTTGT
Found at i:42106246 original size:18 final size:18
Alignment explanation
Indices: 42106210--42106246 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42106200 CCTAAGGAGA
* *
42106210 TAGAGAATCCTTCATTTT
1 TAGAGAATCCTTAAATTT
42106228 TAGAGAATCCTTAAATTT
1 TAGAGAATCCTTAAATTT
42106246 T
1 T
42106247 CTCTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
TAGAGAATCCTTAAATTT
Found at i:42107440 original size:15 final size:15
Alignment explanation
Indices: 42107396--42107444 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
42107386 TATGTGATTG
42107396 ATATTGAAATGGAAA
1 ATATTGAAATGGAAA
* *
42107411 AGA-TGAGATGAGAAA
1 ATATTGAAATG-GAAA
42107426 ATATTGAAATGGAAA
1 ATATTGAAATGGAAA
42107441 ATAT
1 ATAT
42107445 GAGATATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (15 bp):
ATATTGAAATGGAAA
Found at i:42112802 original size:13 final size:13
Alignment explanation
Indices: 42112784--42112824 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
42112774 TAGTAAATAG
42112784 TAAATAATATAAA
1 TAAATAATATAAA
42112797 TAAATAATA-AAA
1 TAAATAATATAAA
*
42112809 TAAA-AAAATAAA
1 TAAATAATATAAA
42112821 -AAAT
1 TAAAT
42112825 TTGGGTTGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAATATAAA
Found at i:42112805 original size:16 final size:16
Alignment explanation
Indices: 42112786--42112824 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
42112776 GTAAATAGTA
* *
42112786 AATAATATAAATAAAT
1 AATAAAATAAAAAAAT
42112802 AATAAAATAAAAAAAT
1 AATAAAATAAAAAAAT
42112818 AA-AAAAT
1 AATAAAAT
42112825 TTGGGTTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAAAAAAAT
Found at i:42120765 original size:23 final size:23
Alignment explanation
Indices: 42120737--42120783 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
42120727 ATTGTAGATT
42120737 TTATGATCAGAAATTATAATTTA
1 TTATGATCAGAAATTATAATTTA
*
42120760 TTATGATCATAAATTATAATTTA
1 TTATGATCAGAAATTATAATTTA
42120783 T
1 T
42120784 AATTACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
TTATGATCAGAAATTATAATTTA
Found at i:42121558 original size:16 final size:18
Alignment explanation
Indices: 42121532--42121565 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
42121522 ACTTACATTA
42121532 CACTAAACCCA-AAACCC
1 CACTAAACCCACAAACCC
42121549 CACT-AACCCACAAACCC
1 CACTAAACCCACAAACCC
42121566 AAACAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (18 bp):
CACTAAACCCACAAACCC
Found at i:42122120 original size:13 final size:14
Alignment explanation
Indices: 42122102--42122132 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
42122092 TGCGAATCGA
42122102 TTTTCC-TTCTTTT
1 TTTTCCTTTCTTTT
42122115 TTTTCCTTTCTTTT
1 TTTTCCTTTCTTTT
42122129 TTTT
1 TTTT
42122133 TTCTTTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCCTTTCTTTT
Found at i:42122132 original size:16 final size:16
Alignment explanation
Indices: 42122103--42122144 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
42122093 GCGAATCGAT
42122103 TTTCCTTCTTTTTTTTCC
1 TTTCCTT-TTTTTTTT-C
42122121 TTT-CTTTTTTTTTTC
1 TTTCCTTTTTTTTTTC
42122136 TTTCCTTTT
1 TTTCCTTTT
42122145 CCTACTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 3 0.13
18 3 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCCTTTTTTTTTTC
Found at i:42123275 original size:22 final size:24
Alignment explanation
Indices: 42123241--42123289 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
42123231 TATATATGTA
*
42123241 TATATTATGTATA-TTTTA-ATAT
1 TATATTATCTATACTTTTATATAT
*
42123263 TATATTGTCTATACGTTTTATATAT
1 TATATTATCTATAC-TTTTATATAT
42123288 TA
1 TA
42123290 CGAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
TATATTATCTATACTTTTATATAT
Found at i:42135875 original size:259 final size:259
Alignment explanation
Indices: 42135416--42135926 Score: 979
Period size: 259 Copynumber: 2.0 Consensus size: 259
42135406 ATCATGTAGG
42135416 CATAAAGGCATTTAAGACCAACATGTGCATATCATGATAACATCATGCATGACATATACAAGTAC
1 CATAAAGGCATTTAAGACCAACATGTGCATATCATGATAACATCATGCATGACATATACAAGTAC
42135481 TCCAGCAGAGCAAGAAATTTTGAATGATAGTTATACTAGATCAAGGAAAAGACACCTGAGTTCCA
66 TCCAGCAGAGCAAGAAATTTTGAATGATAGTTATACTAGATCAAGGAAAAGACACCTGAGTTCCA
42135546 CCAGATGACATCTGTTGGTATTTTGATGTTTTTATTTCTATTTTCAAAAAAATCAACTCATATTG
131 CCAGATGACATCTGTTGGTATTTTGATGTTTTTATTTCTATTTTCAAAAAAATCAACTCATATTG
*
42135611 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTTTTTCAATTTCTAC
196 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-AATTTTCAATTTCTGCTTTTCAATTTCTAC
42135675 CATAAAGGCATTTAAGACCAACATGTGCATATCATGATAACATCATGCATGACATATACAAGTAC
1 CATAAAGGCATTTAAGACCAACATGTGCATATCATGATAACATCATGCATGACATATACAAGTAC
42135740 TCCAGCAGAGCAAGAAATTTTGAATGATAGTTATACTAGATCAAGGAAAAGACACCTGAGTTCCA
66 TCCAGCAGAGCAAGAAATTTTGAATGATAGTTATACTAGATCAAGGAAAAGACACCTGAGTTCCA
42135805 CCAGATGACATCTGTTGGTATTTTGATGTTTTTATTTCTATTTTCAAAAAAATCAACTCATATTG
131 CCAGATGACATCTGTTGGTATTTTGATGTTTTTATTTCTATTTTCAAAAAAATCAACTCATATTG
* *
42135870 CGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTCTGCTTTTCAA
196 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTCTGCTTTTCAA
42135927 AAAAATCAAC
Statistics
Matches: 248, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
258 2 0.01
259 246 0.99
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (259 bp):
CATAAAGGCATTTAAGACCAACATGTGCATATCATGATAACATCATGCATGACATATACAAGTAC
TCCAGCAGAGCAAGAAATTTTGAATGATAGTTATACTAGATCAAGGAAAAGACACCTGAGTTCCA
CCAGATGACATCTGTTGGTATTTTGATGTTTTTATTTCTATTTTCAAAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTCTGCTTTTCAATTTCTAC
Found at i:42135931 original size:75 final size:75
Alignment explanation
Indices: 42135845--42136690 Score: 1265
Period size: 75 Copynumber: 11.1 Consensus size: 75
42135835 TTTATTTCTA
42135845 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42135910 CAATTTCTGC
66 CAATTTCTGC
42135920 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42135985 CAATTTCTGC
66 CAATTTCTGC
* *
42135995 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG-AATTT
*
42136059 TCAATTTCT-A
65 TCAATTTCTGC
* * *
42136069 TATTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACACTGAGGTATTT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTT
* * **
42136132 TCAAATGCTAT
65 TCAATTTCTGC
* * * * *
42136143 TTTTC--AAAAATCAATTCATATGGCGAGAGGTGAGTTGAACCT-GGGTTCACGTACTGAGGTAT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-GCACG--CTGAGGAAT
*
42136205 TTTCAATTTCTGTT
63 TTTCAATTTCTG-C
42136219 TTTTCAAATTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTC--A--A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
42136284 CTGAGGAATTTTCAATTTCTGC
54 CTGAGGAATTTTCAATTTCTGC
42136306 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136371 CAATTTCTGC
66 CAATTTCTGC
42136381 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136446 CAATTTCTGC
66 CAATTTCTGC
42136456 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136521 CAATTTCTGC
66 CAATTTCTGC
42136531 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136596 CAATTTCTGC
66 CAATTTCTGC
** *
42136606 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGGAATT
* * *
42136671 TTCAGTTTATGT
64 TTCAATTTCTGC
42136683 TTTTCAAA
1 TTTTCAAA
42136691 TTTCTGTTTG
Statistics
Matches: 714, Mismatches: 32, Indels: 48
0.90 0.04 0.06
Matches are distributed among these distances:
72 4 0.01
73 97 0.14
74 2 0.00
75 508 0.71
76 8 0.01
77 27 0.04
83 1 0.00
85 1 0.00
87 5 0.01
88 20 0.03
90 38 0.05
91 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (75 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
CAATTTCTGC
Found at i:42136025 original size:150 final size:150
Alignment explanation
Indices: 42135845--42136884 Score: 1339
Period size: 150 Copynumber: 6.8 Consensus size: 150
42135835 TTTATTTCTA
42135845 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42135910 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
66 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
42135975 GAGGAATTTTCAATTTCTGC
131 GAGGAATTTTCAATTTCTGC
* *
42135995 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG-AATTT
* * *
42136059 TCAATTTCT-ATATTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACA
65 TCAATTTCTGCT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
* * * **
42136121 CTGAGGTATTTTCAAATGCTAT
129 CTGAGGAATTTTCAATTTCTGC
* * * * *
42136143 TTTTC--AAAAATCAATTCATATGGCGAGAGGTGAGTTGAACCT-GGGTTCACGTACTGAGGTAT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-GCACG--CTGAGGAAT
*
42136205 TTTCAATTTCTGTTTTTTCAAATTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 TTTCAATTTCTG-CTTTTC--A--A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
42136270 AGCCTCGGGGCACGCTGAGGAATTTTCAATTTCTGC
115 AGCCTCGGGGCACGCTGAGGAATTTTCAATTTCTGC
42136306 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136371 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
66 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
42136436 GAGGAATTTTCAATTTCTGC
131 GAGGAATTTTCAATTTCTGC
42136456 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
42136521 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
66 CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
42136586 GAGGAATTTTCAATTTCTGC
131 GAGGAATTTTCAATTTCTGC
** *
42136606 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGGAATT
* * *
42136671 TTCAGTTTATGTTTTTCAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
64 TTCAATTTCTGCTTTTC-AA------------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
42136736 GCCTCAGGGCACGCTGAGGTATTTTCAATTTATGT
116 GCCTCGGGGCACGCTGAGGAATTTTCAATTTCTGC
* * * *
42136771 TTTTC--AAAAATCAA-TGCATATTGCCAGAGGTGATTTGAGCCT-GGGTCACATG-TCGAGGTA
1 TTTTCAAAAAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCT-GAGGAA
* ** * * *
42136831 TTTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAAAAGTGAGTTGA
62 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
42136885 ACCGCGGGTC
Statistics
Matches: 800, Mismatches: 48, Indels: 85
0.86 0.05 0.09
Matches are distributed among these distances:
145 2 0.00
146 38 0.05
147 1 0.00
148 83 0.10
149 35 0.04
150 341 0.43
151 2 0.00
152 24 0.03
153 2 0.00
158 1 0.00
160 1 0.00
161 3 0.00
162 38 0.05
163 119 0.15
165 107 0.13
166 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (150 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTT
CAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGAATTTTCAATTTCTGC
Found at i:42136629 original size:225 final size:228
Alignment explanation
Indices: 42136238--42136884 Score: 914
Period size: 225 Copynumber: 2.8 Consensus size: 228
42136228 TATGTTTTTC
42136238 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTC
42136303 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAAT
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAAT
*
42136368 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
131 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCAC
*
42136433 -GCTGAGGAATTTTCAATTTCTGCTTTTC-AA-
196 AGCTGAGGAATTTTCAATTTATGCTTTTCAAAT
42136463 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTC
42136528 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAAT
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAAT
*
42136593 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
131 TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCAC
* * *
42136658 ATGCTGAGGTATTTTCAGTTTATGTTTTTCAAATTTCTGTTTGT
196 A-GCTGAGGAATTTTCAATTTATGCTTTTCAAA----------T
* *
42136702 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTT
* * * * *
42136767 ATGTTTTTC--AAAAATCAA-TGCATATTGCCAGAGGTGATTTGAGCCT-GGGTCACATG-TCGA
65 CTGCTTTTCAAAAAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCT-GA
* * ** * * *
42136827 GGTATTTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAAAAGTGAGTTGA
126 GGAATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
42136885 ACCGCGGGTC
Statistics
Matches: 383, Mismatches: 20, Indels: 24
0.90 0.05 0.06
Matches are distributed among these distances:
225 193 0.50
227 24 0.06
228 2 0.01
237 7 0.02
238 34 0.09
239 54 0.14
240 69 0.18
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (228 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTTTCAATTTC
TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAAT
TTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCAC
AGCTGAGGAATTTTCAATTTATGCTTTTCAAAT
Found at i:42136717 original size:165 final size:163
Alignment explanation
Indices: 42136517--42136852 Score: 493
Period size: 165 Copynumber: 2.0 Consensus size: 163
42136507 CGCTGAGGAA
*
42136517 TTTTC-AATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC
1 TTTTCAAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* *
42136581 ACGCTGAGGAATTTTCAATTTCTGCTTTTCAAAAAAATCAACT-CATATTGCGAGAGGTGAGTTG
65 ACGCTGAGGAATTTTCAATTTATGCTTTTC--AAAAATCAA-TGCATATTGCCAGAGGTGAGTTG
* *
42136645 AGCCTCGGCTCACATG-CTGAGGTATTTTCAGTTTATGT
127 AGCCT-GGCTCACATGTC-GAGGTATTTTCAATTTATAT
42136683 TTTTCAAATTTCTG-TTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTCAAATTTCTGCTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* * *
42136746 ACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAATCAATGCATATTGCCAGAGGTGATTTGAGC
65 ACGCTGAGGAATTTTCAATTTATGCTTTTCAAAAATCAATGCATATTGCCAGAGGTGAGTTGAGC
*
42136811 CTGGGTCACATGTCGAGGTATTTTCAATTTATAT
130 CTGGCTCACATGTCGAGGTATTTTCAATTTATAT
42136845 TTTTCAAA
1 TTTTCAAA
42136853 AAAGTCAACT
Statistics
Matches: 157, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
162 36 0.23
163 34 0.22
165 69 0.44
166 8 0.05
167 10 0.06
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (163 bp):
TTTTCAAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGCTGAGGAATTTTCAATTTATGCTTTTCAAAAATCAATGCATATTGCCAGAGGTGAGTTGAGCC
TGGCTCACATGTCGAGGTATTTTCAATTTATAT
Found at i:42136739 original size:240 final size:238
Alignment explanation
Indices: 42136442--42136913 Score: 659
Period size: 239 Copynumber: 2.0 Consensus size: 238
42136432 CGCTGAGGAA
*
42136442 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
1 TTTTCAATTTCTGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* *
42136507 CGCTGAGGAATTTTCAATTTCTGCTTTTCAAAAAAATCAACT-CATATTGCGAGAGGTGAGTTGA
65 CGCTGAGGAATTTTCAATTTATGCTTTTC--AAAAATCAA-TGCATATTGCCAGAGGTGAGTTGA
* *
42136571 GCCTCGGGGCAC-G-CTGAGGAATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGA
127 GCCT-GGGGCACAGTC-GAGGAATTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGA
* * * *
42136634 GAGGTGAGTTGAGCCTCGGCTCACATG-CTGAGGTATTTTCAGTTTATGT
190 AAAGTGAGTTGAACCGCGGCTCACATGTC-GAGGTATTTTCAGTTTATGT
42136683 TTTTCAAATTTCTG-TTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTC-AATTTCTGCTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* * *
42136746 ACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAATCAATGCATATTGCCAGAGGTGATTTGAGC
64 ACGCTGAGGAATTTTCAATTTATGCTTTTCAAAAATCAATGCATATTGCCAGAGGTGAGTTGAGC
* * * *
42136811 CTGGGTCACATGTCGAGGTATTTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAAAA
129 CTGGGGCACA-GTCGAGGAATTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGAAAA
*
42136876 GTGAGTTGAACCGCGGGTCACATGTCGAGGTATTTTCA
193 GTGAGTTGAACCGCGGCTCACATGTCGAGGTATTTTCA
42136914 AAATCTATTT
Statistics
Matches: 207, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
237 7 0.03
238 33 0.16
239 78 0.38
240 71 0.34
241 8 0.04
242 10 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (238 bp):
TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GCTGAGGAATTTTCAATTTATGCTTTTCAAAAATCAATGCATATTGCCAGAGGTGAGTTGAGCCT
GGGGCACAGTCGAGGAATTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTGCGAAAAGTG
AGTTGAACCGCGGCTCACATGTCGAGGTATTTTCAGTTTATGT
Found at i:42136925 original size:77 final size:74
Alignment explanation
Indices: 42136683--42136914 Score: 267
Period size: 73 Copynumber: 3.1 Consensus size: 74
42136673 CAGTTTATGT
* * *
42136683 TTTTCAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CA
1 TTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-C-GGGTCA
42136747 C--G-CTGAGGTA
63 CATGTC-GAGGTA
* * * *
42136757 TTTTCAATTTATGTTTTTCAAAAATCAA-TGCATATTGCCAGAGGTGATTTGAGCCTGGGTCACA
1 TTTTCAATTTATATTTTTCAAAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCCGGGTCACA
42136821 TGTCGAGGTA
65 TGTCGAGGTA
* * *
42136831 TTTTCAATTTATATTTTTCAAAAAAGTCAACTCATATTGCGAAAAGTGAGTTGAACCGCGGGTCA
1 TTTTCAATTTATATTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCC-CGGGTCA
42136896 CATGTCGAGGTA
63 CATGTCGAGGTA
42136908 TTTTCAA
1 TTTTCAA
42136915 AATCTATTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
71 3 0.02
72 4 0.03
73 44 0.32
74 30 0.22
75 6 0.04
76 24 0.18
77 26 0.19
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCGGGTCACAT
GTCGAGGTA
Found at i:42137186 original size:44 final size:44
Alignment explanation
Indices: 42137123--42137234 Score: 152
Period size: 44 Copynumber: 2.5 Consensus size: 44
42137113 GGCCTCTCTA
* * *
42137123 AAGTTGCAGCGGAGCAGGTCAAAGTTGCAAGTTTTGTCTCCCTG
1 AAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGTCTCCCTG
**
42137167 AAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGTCTTTCTG
1 AAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGTCTCCCTG
** *
42137211 AAGTTATAGTGAAGCAGATCAAAG
1 AAGTTGCAGTGAAGCAGGTCAAAG
42137235 CCACAAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGTCTCCCTG
Found at i:42138091 original size:14 final size:14
Alignment explanation
Indices: 42138067--42138107 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
42138057 TGCCAATCGA
42138067 TTTTC-TTTCTTTT
1 TTTTCTTTTCTTTT
42138080 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
*
42138094 TTTTCTTTCCTTTT
1 TTTTCTTTTCTTTT
42138108 CCTACTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:42138736 original size:3 final size:3
Alignment explanation
Indices: 42138728--42138773 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
42138718 CTACTTTAAT
42138728 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42138774 GTGTTGTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:42139178 original size:19 final size:19
Alignment explanation
Indices: 42139137--42139182 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
42139127 TACTACGTTC
*
42139137 TATATATATTTTTATATCA
1 TATATATATTTTTAAATCA
*
42139156 TATATATA-TTTTAAATTA
1 TATATATATTTTTAAATCA
42139174 T-TATATATT
1 TATATATATT
42139183 AAGTATCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 10 0.42
19 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATATATTTTTAAATCA
Found at i:42139299 original size:28 final size:29
Alignment explanation
Indices: 42139256--42139322 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
42139246 AAGTTCATTT
*
42139256 TATATTATTGTCATTTCTA-GTA-TATGTA
1 TATATTATTGTCATTT-TATATATTATGTA
42139284 TATATTATATGT-ATTTTATATATTATGTA
1 TATATTAT-TGTCATTTTATATATTATGTA
42139313 TATTATTATT
1 TA-TATTATT
42139323 TTTATCATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
27 2 0.06
28 14 0.41
29 12 0.35
30 6 0.18
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (29 bp):
TATATTATTGTCATTTTATATATTATGTA
Found at i:42139310 original size:16 final size:15
Alignment explanation
Indices: 42139278--42139322 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
42139268 ATTTCTAGTA
42139278 TATGTATA-TATTA-
1 TATGTATATTATTAT
*
42139291 TATGTATTTTATATAT
1 TATGTATATTAT-TAT
42139307 TATGTATATTATTAT
1 TATGTATATTATTAT
42139322 T
1 T
42139323 TTTATCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.26
14 3 0.11
15 6 0.22
16 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATGTATATTATTAT
Found at i:42139316 original size:18 final size:19
Alignment explanation
Indices: 42139282--42139321 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
42139272 CTAGTATATG
*
42139282 TATATATTATATGTATT-T
1 TATATATTATATATATTAT
*
42139300 TATATATTATGTATATTAT
1 TATATATTATATATATTAT
42139319 TAT
1 TAT
42139322 TTTTATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TATATATTATATATATTAT
Found at i:42139405 original size:21 final size:22
Alignment explanation
Indices: 42139366--42139418 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
42139356 TCATGTTATT
*
42139366 TATATAT-TTTATTACATAT-G
1 TATATATCTTTAATACATATAG
*
42139386 TATATATCTTTAATATATATAG
1 TATATATCTTTAATACATATAG
*
42139408 -GTATATCTTTA
1 TATATATCTTTA
42139419 TGTAAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.25
21 20 0.71
22 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
TATATATCTTTAATACATATAG
Found at i:42139666 original size:3 final size:3
Alignment explanation
Indices: 42139658--42139713 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
42139648 TTTTCCTTAG
* *
42139658 TAT TAT TAT TAT TAT TAT T-T TCCT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
42139703 TAT TAT CAT TA
1 TAT TAT TAT TA
42139714 GTATACGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:42139678 original size:27 final size:27
Alignment explanation
Indices: 42139648--42139701 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
42139638 TACATATATC
42139648 TTTTCCTTAGTATTATTATTATTATTA
1 TTTTCCTTAGTATTATTATTATTATTA
*
42139675 TTTTCCTTATTATTATTATTATTATTA
1 TTTTCCTTAGTATTATTATTATTATTA
42139702 CTATTATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCCTTAGTATTATTATTATTATTA
Found at i:42141809 original size:75 final size:74
Alignment explanation
Indices: 42141653--42141797 Score: 166
Period size: 74 Copynumber: 1.9 Consensus size: 74
42141643 TTTCCTTGCC
* * * **
42141653 TTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAAAAAATATCTATAGAGAAACTAATT
1 TTCAAATATGTTAACAATCTCCCCCTTTAGAAATTTTTGAAAAAATATATATAGAGAAAATAAAA
* * *
42141718 TCTTCTTGCC
66 TCATC-TACA
* * *
42141728 TTCAAATATGTTAACAAT-TTCCCCTTTAGAAATTTTTGAATAAATATATATAGGGAAAAATAAA
1 TTCAAATATGTTAACAATCTCCCCCTTTAGAAATTTTTGAAAAAATATATATAGAG-AAAATAAA
42141792 ATCATC
65 ATCATC
42141798 ACAATTACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
74 32 0.53
75 28 0.47
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (74 bp):
TTCAAATATGTTAACAATCTCCCCCTTTAGAAATTTTTGAAAAAATATATATAGAGAAAATAAAA
TCATCTACA
Found at i:42143629 original size:775 final size:775
Alignment explanation
Indices: 42141714--42148816 Score: 7912
Period size: 776 Copynumber: 9.1 Consensus size: 775
42141704 TAGAGAAACT
* *
42141714 AATTTCTT-CTTGCCTTCAAATATGTTAACAAT-TTCCCCTTTAGAAATTTTTGAATAAATATAT
1 AATTT-TTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATAT
*
42141777 ATAGGGAAAAATAAAATCATCACAATTACAAATTCTCCCCTTAAGGATCTCCCCCTTAATCAAAG
65 ATAGGGAAAAATAAAATCATCACAGTTACAAATTCT-CCCTTAAGGATCTCCCCCTTAATCAAAG
* * *
42141842 AATTTCAACTACCTCATCTCAAAGTAATTTAACCATTAATAAATGTATTAACACAAAAAAGACAA
129 AATCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACAA
* * * * *
42141907 CAATATATTATTCAAAATAAGGAAATGAGTAAAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
194 TAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
* * * *
42141972 AAGCAGAAGAATCACCACACTAGACTGATGAGAATTTAAACCCTAAGTTTGTGTTTATTATTGT-
259 AAGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTA
*
42142036 CCAAAAAAGAACATCATACTTCACTGCACTACTCCCTCTTTTTTGTTCAATGATTGCAAAGGGAT
324 CCAAAAAA-AACATCATACTTCACTTCACTACTCCCTCTTTTTT-TTCAATGATTGCAAAGGGAT
* * * *
42142101 CATTGAAGCTATTTGACCATGATATCCAACTTCATGGCCAATAACTTATTGTTGCATGCTTTGAT
387 CACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAG
* * * *
42142166 ATCCTTGATCTAATCACTTTTCTATAAAGTAAAGCTAAAAATCAGCATAGGATAATCTTTACATA
451 GTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACATA
* * *
42142231 ATTCCATAAGAGTCTCGATGTAATCCACTACCTTCAAATATGGAAAGTGACTTTATTTGA-CTCG
516 ATTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATC-CG
* * * * * *
42142295 CGAGTAACTGATCTTAAAATCATCAACTTTAACTCAATCGATCTTCTTGTTTTGGGCTCTAACT-
580 CGAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTC
* *
42142359 AGTCTAAATATCTCCAAAACAAATAG-CCAATTGCTTTCGTTCTAAAATTTTCCAACTCTAAAAA
645 A-TCTAAATATCTCCAAAACAAATAGTCCAA-TGCTTTTGTTCTACAATTTTCCAACTCTAAAAA
* * * ** *
42142423 TAGACTAGTAAAGCAATGAAACAAAGCCTTAAGTTGTGGCCAC-TATT------T----CAACCA
708 TAGACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATAAAACAACCA
42142477 TAG
773 TAG
* * *
42142480 AATTTTTCCTTGCCTCCAAATATGTTAACAATCTCCCCCTTTAGTAATTTTTGAATAAAAATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
* * * *
42142545 GAGGGAAAAATAAAATAATCACAGTTGCAAATTCTCCCCTTAAGGATATCCCCCTTAATCAAAGA
66 TAGGGAAAAATAAAATCATCACAGTTACAAATTCT-CCCTTAAGGATCTCCCCCTTAATCAAAGA
* * *
42142610 ATCTCAACTACCTCATCTCAAACTAATTTAACCATTAATGAATGTATTAACACAATAAAGACAAT
130 ATCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACAAT
* * * *
42142675 AATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAAATTGAGTGAGTATTTGTACAAAA
195 AATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAA
* * * * *
42142740 AGAAAAAGAATCACCATAATAGACTTATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTCC
260 AGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTAC
* * * * * *
42142805 CAAAAAAAACATCATACTTCAATTCATTACTTCCTCTTCTTTCTCAATGATTGCAAAGGGATCAT
325 CAAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGATCAC
* *
42142870 TGAAGCTAGTTGACCATGATAT-C-CTTAATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCC
390 TGAAGCTATTTGACCATGATATCCACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCC
* *
42142933 TTGATCTAATCATTTTTCAATAAAGCAAAGCTAAAAATTAGCATAGGATAATCTTGACATAATTC
455 TTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACATAATTC
* * *
42142998 CATAAGATTCTCGGTGTAATCTAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGTGAGT
520 CATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGCGAGT
** * * *
42143063 AACCGATAGTCAAGTCTTCAACTTTAACTTAATTGGTCTTCATGTTTTGGGCTCTAACTCATTTA
585 AACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCATCTA
* ** * *
42143128 AATATCTCCAAAAAAAAATAGTCCAACACTTTTTTTCTACAATTTTCCAGCTCTAAAAATAGACA
650 AATATCTCC-AAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACA
*
42143193 AGTAAAGCAATGAAACAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATAGAAACAACCATAG
714 AGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATA-AAACAACCATAG
* *
42143256 AATTTCTT-CTTGCCTTCAAATATGTTAACAAT-TTCCCCTTTAGAAATTTTTGAATAAATATAT
1 AATTT-TTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATAT
* *
42143319 ATAGGGAAAAATAAAATCATCAAAATTACAAATTCTCCTCTTAAGGATCTCCCCCTTAATCAAAG
65 ATAGGGAAAAATAAAATCATCACAGTTACAAATTCTCC-CTTAAGGATCTCCCCCTTAATCAAAG
* * * * **
42143384 AATCTGAAATAACTTATCTCAAAGTAATTTAAAAATTATTGAATGTATTAACACAAAAAAGACAA
129 AATCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACAA
* * * * * *
42143449 TAGTATATCAATCAAAACAAGGAAAGGAGTACAAAATTACTAGATTAAGTGAGCAATTGTGTA-A
194 TAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
* * * *
42143513 AGAGCAGAAGAATCACCATACTAGACTGATGATAATTCAAACCCTAAGTTTGTGTTTATTATTGT
259 A-AGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGT
*
42143578 -CCGAAAAAAAACATCATACTTCACTTTACTACTCCCTCTTTTTTTTCAATGATTAG-AAAGGGA
323 ACC-AAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATT-GCAAAGGGA
* * * *
42143641 TCACTGAAGCTATTTGACCATGATATCCAACTTCATGG-ATAATAGCATATTGATACATGCTTTA
386 TCACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCA-AATAGCTTATTGTTGCATGCTTTG
* *
42143705 AGGTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATCAGCATAGGATAATCTTCACA
449 AGGTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACA
* * * *
42143770 T-ATATCCATATGAGTCTCGGTGTAACCCAATG-CTTACAAAAATAGAAAGTGACTTTATTTGAT
514 TAAT-TCCATAAGAGTCTCGGTGTAATCCAATGCCTT-CAAATATGGAAAGTGACTTTATTTGAT
* ** * *
42143833 CCACGAGTAACTAATCTTCAAGTCTTCAACTTCAACTCAATTGGTCTTCATGTTTTGGGCTCTAA
577 CCGCGAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAA
* *
42143898 CTCATCT-AA-ATCTCCAAAACAAATAGTCCAATGCTTTTGTTATAAAATTTTCCAACTCTAAAA
642 CTCATCTAAATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAA
* *
42143961 AGAGACAAGTAAAGCAATGAAACAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATCAAAACAAC
707 ATAGACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCAT-AAAACAAC
42144026 CATAG
771 CATAG
** * * *
42144031 AATTTTTCCTTAACTTCAAATATGTTAATAATCTCCCCTTTTAGCAATATTTGAATAAATATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
* * * * * * *
42144096 TAGGTAAAAATAAAATCATCAAAATTACAAATCCTTCCCTTAAAGATCTCCCACTTAACCAAAGA
66 TAGGGAAAAATAAAATCATCACAGTTACAAATTC-TCCCTTAAGGATCTCCCCCTTAATCAAAGA
* *
42144161 ATCTCAACTACCTCACCTCAAAGTAATTTAACCATTATTGAATGTATTAAAACAAAAAAGACAA-
130 ATCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACAAT
*
42144225 ACATATATGATTCAAAACAAGGAAAGGAATACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
195 A-ATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
* * * *
42144290 GAG-AAGAAGAATCACCATACTAGACTGATGAGAATTCAGACCCTAAGTTTGTGTTTATTATTGT
259 AAGCAA-AAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGT
* * * * * *
42144354 -CCAAAAAAAAACGTCATACTTCACTCCTCTACT-CCTTTTTTCTTTTCAATGATCGGAAAGGGA
323 ACC-AAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTT-TTTTCAATGATTGCAAAGGGA
* *
42144417 TCACTAAAGCTATTTGACCATGATATCCAACTTCATGGCCAATAGCTTATTGTTGCATGCTTTGA
386 TCACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGA
* * *
42144482 GGTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATCAGCATAGGATAATCTTCAAAT
450 GGTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACAT
* * * *
42144547 AAATCCATAAAAGTCTCGGTGTAATCCACTACCTTCAAATATGGAAAGTGACTTTATTTGA-CTC
515 AATTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATC-C
* * * * * *
42144611 GCGAGTAACTGATCTTAAAATCATCAACTTTAACTCAATCGATCTTCTTGTTTTGGGCTCTAACT
579 GCGAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACT
* *
42144676 -AGTCTAAATATCTCCAAAACAAATAG-CCAATTGCTTTCGTTCTAAAATTTTCCAACTCTAAAA
644 CA-TCTAAATATCTCCAAAACAAATAGTCCAA-TGCTTTTGTTCTACAATTTTCCAACTCTAAAA
* * * * * *
42144739 ATAGACAAGTAAAGCAATGAAATAGTGCCACAAGTTGTGGCCACTTTTTTAGCTGAAAAAATAGT
707 ATAGACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGC-CATAAAACA-A
42144804 CCA-ATG
770 CCATA-G
** * * * * * * **** **
42144810 CTTTTATTCTACAATTTTCCAACTCTAAAAATACACAAGTAAAGAA-ATGAAAC-AGAGCCACGA
1 AATTT-TTC--C----TTGC--CT-T-CAAAT----ATGTTAACAATCTCCCCCTTTAG-CA--A
* * * ** *** * * ** ** * *
42144873 GTTGTGGCCACTATTTCAGCCATA-GAAACAACCATAGAATTTTTTCTGGCCTT-CAAA-TAT--
48 -TTTTTG--AATAAAT-ATATATAGGGAA-AA--ATAAAATCATCAC-AG--TTACAAATTCTCC
* ** * * * ** * * * * ** *
42144933 GTTAACAATCTCCCCCTTTAGCAATATTTGAA--T-AAATATATATATATGAAA-AAATAAAATC
103 CTTAAGGATCTCCCCCTTAATCAA-A---GAATCTCAACTACCT-CATCTCAAAGTAATTTAACC
* ** * ** ** **** ** *
42144994 ATCACAGTCACAAAT-TCTTCCCTTAAAGATCTCCCCCTCAATCA-ATGAATCTCAACTACCTCA
163 AT--TA-T--TGAATGTATTAACACAAA-A-AAGACAAT-AAT-ATATG-AT-TCAA--A--ACA
*** * * ** * * * ** * * *
42145057 TCTCAAAGTAATTTAACCATTATTGAGTGTATGAACACAAAAAAGACAACGATATATGATTCAAA
213 -AGGAAAGGAGTACAA-AATTACT-AG-AT-TG----------AGTGAGC-AT-T-TG-TGC-AG
* ** ** * * * **
42145122 ACAAGGAAAAGTGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAAAGAGCAGAAGAATCACC
258 A-AAGCAAAAG-AAACACCA-TACTAGACTGA-TGAG-A-AT-TG--AA-ACCCTAAG--T----
* * * ** **** ** * *
42145187 ATACAAGACTGATGAGAATT-TAAACCCTAATTTTGTGCATCATAGTTCACTTCAATACTCCCTC
307 -T---TG--TGTTTATTATTGT--A-CC-AAAAAA-AACATCATACTTCACTTCACTACTCCCTC
* * * * *
42145251 TTTTCTTTCAATGATTGGAAAGGGATTACTGAGGCTATTTGACCATGATATCCAACTTCATGGCC
361 TTTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCA
* * * * *
42145316 AACAGCTTATTGTTCCATGCTTTGAAGACCTTGATCTAATTATTTTT-TATAAAGTAAAGCTAAA
425 AATAGCTTATTGTTGCATGCTTTGAGGTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAA
* * * * * * *
42145380 AATCAGCATAGGATAATCTTAACATAATTTCATAAGAATCTCGGTGAAAGCCAATG-TTTACAAA
490 AATTAGCATAGGATAATCTTGACATAATTCCATAAGAGTCTCGGTGTAATCCAATGCCTT-CAAA
* * *
42145444 AATGGAAAGTGACTTTATTTGATCAGCGAGTAACCGATCTTCAACTCTTCAGA-TTTAACTCAAT
554 TATGGAAAGTGACTTTATTTGATCCGCGAGTAACCGATCTTCAAGTCTTCA-ACTTTAACTCAAT
* * * * *
42145508 TGGTCTTCATGTTTTGGGCTCTAACTCGTGTAAATATCTCCGAAA-AAATAGTCCAATGCTTTTA
618 TGGTCTTCTTGTTTTGGGCTCTAACTCATCTAAATATCTCCAAAACAAATAGTCCAATGCTTTTG
* * * *
42145572 TTCTACAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAAACAGAGCCACGAGTTGTGGC
683 TTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGC
*
42145637 CACTATTTCAGCCATAGAAACAACCATAG
748 CACTTTTTCAGCCATA-AAACAACCATAG
* * *
42145666 AATTTTTTCTGGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAAT-AA-ATATA
* * * * * *
42145731 TATATGAAAAAATAAAATCATCACAGTCACAAATTCTTCCCTTAAAGATCTCCCCCTCAATCAAT
64 TATAGGGAAAAATAAAATCATCACAGTTACAAATTC-TCCCTTAAGGATCTCCCCCTTAATCAAA
* *
42145796 GAATCTCAACTACCTCATCTCAAATTAATTTAACCATTAATGAATGTATTAACACAAAAAAGACA
128 GAATCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACA
* * * *
42145861 ATAACATATGATTCAAAACAAGAAAAGGAGTACAAAATTACGAGATTGAGTGAGCATTTGTACAG
193 ATAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAG
* *
42145926 AAAGCAAAAGAAACATCATACTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGT
258 AAAGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGT
* * * *
42145991 ACC-AAAGAAACATCCTAGTTCACTTCACTACT-CC-CTTTTTTTCCAATGATTGCAAAGGGATC
323 ACCAAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGATC
* * *
42146053 AGTGAAGCTATTTGACCTTGATATCCAACTTCATGGCAAATAGCTTATTATTGCATGCTTTGAGG
388 ACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGG
* *
42146118 TCCTTAATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGAATAATCTTGGA-ATA
452 TCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTT-GACATA
* * * *
42146182 ATTTCATAAGATTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCTGT
516 ATTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGC
* * * * * * * *
42146247 AAGTAATCGATCTTCAAGTATTCAACTTTAACTCAATTGGTATTCTTGTTTTGAGCTTTAATTCG
581 GAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCA
* * * *
42146312 TCTAAATGTCTCCAAAACAAAGAGTCTAGTGCTTTTGTTCTACAATTTT-CAATCTCTAAAAATA
646 TCTAAATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAA-CTCTAAAAATA
* * *
42146376 AACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTGTTTCAACCAT-AAA-AA-C---
710 GACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATAAAACAACCATA
42146435 -
775 G
*
42146435 AA-----------C--C--ATATGTTAACAATCACCCCCTTTAGCAATTTTTGAATAAATATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
* *
42146485 TAGGGAAAAAT-AAATCATCACAGTTAAAAATTCTCCCTTTAAGGATCTCCCCTTTAATCAAAGA
66 TAGGGAAAAATAAAATCATCACAGTTACAAATTCTCCC-TTAAGGATCTCCCCCTTAATCAAAGA
* * *
42146549 ATCTCAACTAACTCATCTCAAAATAATTTAACCATTAATT-AATGTATTAACACAAAAAAAAAAC
130 ATCTCAACTACCTCATCTCAAAGTAATTTAACCATT-ATTGAATGTATTAACAC--AAAAAAGAC
* * * * *
42146613 AATAACATATAATTCAAAACAAGGAAGGGTGTACAAAATTACTAGATTGAGTGAGCATTTGTACA
192 AATAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCA
* *
42146678 GAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTG
257 GAAAGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTG
* * * * *
42146743 TACC-AATAAAACATCCTAGTTCACTTCACTACTCCCTC-TTTTTTTCAATAATTACAAAGGGAT
322 TACCAAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGAT
* * *
42146806 CACTGAAGCTATTTGACCTTGATATCCAACTTCATGTCAAATAGCTTATTGTTGCTTGCTTTGAG
387 CACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAG
** * * * * * * *
42146871 GTCCTCAACCTAATTATTTTTCTATAAAGTAAAGCAAAAAATTAGCATAGAATAATCGTGGCTTA
451 GTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACATA
* *
42146936 ATTCCATAAGAGTCTCGGTGTAATCCAATGCCTACAAATATGGAAAGTGACTTTATTTGATCTGC
516 ATTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGC
* * * **
42147001 GAGTAATCGATCTTCAAGTCTTTAACTTTAACTCAAATGGTCTTCTTGTTTTGGGCTCTAACTTT
581 GAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCA
* *
42147066 TCTAAATATCTCCAAAACAAATTGTCTAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAG
646 TCTAAATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAG
* * *
42147131 ACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTGTTCCAACCATAGAAACAACCATA
711 ACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATA-AAACAACCATA
42147196 G
775 G
*
42147197 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
* * * * * *
42147262 TAAGGAAAAATAAAATCATCACAGTCACAAATTCTCCCCTTTAA-GATCTCCTCATTATTCAATG
66 TAGGGAAAAATAAAATCATCACAGTTACAAATTCT-CCC-TTAAGGATCTCCCCCTTAATCAAAG
* * * *
42147326 AATCTCAAGTACCTCATCTCAAAGTAGTTTAACCGCATTAATGAATGTATTAACACAATAAAGAC
129 AATCTCAACTACCTCATCTCAAAGTAATTTAA-C-CATTATTGAATGTATTAACACAAAAAAGAC
42147391 AATAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCA
192 AATAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCA
*
42147456 GAAAGCAAAAGAAACACCATACTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTG
257 GAAAGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTG
* * *
42147521 TACC-AAAAACACATCATAGTTCACTTCACTACTCCCTC--TTTTTT---T--TTGCAATGGGAT
322 TACCAAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGAT
* * *
42147578 CACTAAAGCTATTTGACCTTGATATCCAAGTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAG
387 CACTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAG
* * * *
42147643 GTCCTTAATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGAATAATCTAGGCATA
451 GTCCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACATA
* * *
42147708 ATTCCATAAGAGTCTCGGTGTAATCCAATGCTTTCAAATATGGAAAATGACTTTATTTGATCTGC
516 ATTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGC
* * * * * * *
42147773 GAGTAATCGATCTTCAAGTCTTCAAGTTTAACTCAATTGGTATTCTTGTTTTGAGCTTTAATTCG
581 GAGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCA
* * * *
42147838 TCTAAATGTCTCCAAAACAAAGAGTCCAATGCTTTT-TTCTACAAGTTTCAAACTCTAAAAATAG
646 TCTAAATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAG
* *
42147902 ACAAGTAAAGTAATGAAATAGAGCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATA
711 ACAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCAT-AAAACAACCATA
42147967 G
775 G
*
42147968 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCTTTTAGCAATTTTTGAATAAATATATA
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
* * *
42148033 TAAGGAAAAAT-ATATCATCACAGTCACAAATTCTCCCTTTAAGGATCTCCCCCTTAATCAAAGA
66 TAGGGAAAAATAAAATCATCACAGTTACAAATTCTCCC-TTAAGGATCTCCCCCTTAATCAAAGA
* *
42148097 ATCTCAACTAACTCATCTCAAAATAATTTAACCATTAATT-AATGTATTAACACAAAAAAGACAA
130 ATCTCAACTACCTCATCTCAAAGTAATTTAACCATT-ATTGAATGTATTAACACAAAAAAGACAA
*
42148161 TAACATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
194 TAATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGA
* * * * *
42148226 AAGCAAAAGAAACACCATACTAAATTAATGAGAATTGAAACCCAAAGTTTGTGTTTATTATTATA
259 AAGCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTA
* *
42148291 CC--AAAAAACATCATAGTTCACTTCACTACT--C-CTTTTTTTTCAATGATTGCAAGGGGATCA
324 CCAAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGATCA
* * * *
42148351 CTGAAGGTATTTGACCTTGATATCCAACTTCATGTCAAATAGCTTATTGTTGCTTGCTTTGAGGT
389 CTGAAGCTATTTGACCATGATATCC-ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGT
* * * *
42148416 CCTTAACCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGTATAGAATAATCGTTG-C----
453 CCTTGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATC-TTGACATAA
* *
42148476 TT-AATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCACG
517 TTCCATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGCG
* *
42148540 AGTAATCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAATTCAT
582 AGTAACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCAT
* * *
42148605 CCAAATGTCTCCAAAACAAAGAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCT-AAAATAGA
647 CTAAATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGA
* * *
42148669 CAAGTAAAGCAATGAAATAGAGCCATAGGTTGTGGCCACTGTTTCAGCCATAAAAACAACCATAG
712 CAAGTAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCAT-AAAACAACCATAG
*
42148734 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATT
1 AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
42148799 TAGGGAAAAAT-AAATCAT
66 TAGGGAAAAATAAAATCAT
42148817 GTGACAGCCC
Statistics
Matches: 5412, Mismatches: 699, Indels: 452
0.82 0.11 0.07
Matches are distributed among these distances:
750 4 0.00
751 89 0.02
752 18 0.00
753 165 0.03
754 399 0.07
755 4 0.00
756 4 0.00
757 2 0.00
758 2 0.00
762 2 0.00
763 213 0.04
764 79 0.01
765 11 0.00
766 376 0.07
767 340 0.06
768 162 0.03
769 14 0.00
770 66 0.01
771 288 0.05
772 282 0.05
773 2 0.00
774 11 0.00
775 576 0.11
776 739 0.14
777 192 0.04
778 535 0.10
779 19 0.00
780 22 0.00
781 1 0.00
782 8 0.00
783 1 0.00
784 1 0.00
786 2 0.00
787 1 0.00
788 2 0.00
789 1 0.00
790 4 0.00
792 3 0.00
793 3 0.00
794 12 0.00
795 3 0.00
796 3 0.00
797 2 0.00
798 8 0.00
799 25 0.00
800 18 0.00
801 25 0.00
802 5 0.00
803 16 0.00
804 10 0.00
805 6 0.00
806 3 0.00
807 6 0.00
808 6 0.00
809 8 0.00
811 1 0.00
813 2 0.00
814 9 0.00
815 5 0.00
816 2 0.00
817 1 0.00
818 2 0.00
819 2 0.00
820 1 0.00
821 2 0.00
822 4 0.00
823 8 0.00
824 2 0.00
826 1 0.00
828 8 0.00
829 5 0.00
830 6 0.00
831 4 0.00
832 6 0.00
833 10 0.00
834 12 0.00
835 8 0.00
836 26 0.00
837 19 0.00
838 26 0.00
839 9 0.00
840 2 0.00
841 7 0.00
842 5 0.00
843 7 0.00
845 5 0.00
846 1 0.00
847 2 0.00
849 2 0.00
850 1 0.00
853 2 0.00
854 1 0.00
855 9 0.00
856 9 0.00
857 88 0.02
858 167 0.03
859 117 0.02
860 7 0.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (775 bp):
AATTTTTCCTTGCCTTCAAATATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATA
TAGGGAAAAATAAAATCATCACAGTTACAAATTCTCCCTTAAGGATCTCCCCCTTAATCAAAGAA
TCTCAACTACCTCATCTCAAAGTAATTTAACCATTATTGAATGTATTAACACAAAAAAGACAATA
ATATATGATTCAAAACAAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAA
GCAAAAGAAACACCATACTAGACTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACC
AAAAAAAACATCATACTTCACTTCACTACTCCCTCTTTTTTTTCAATGATTGCAAAGGGATCACT
GAAGCTATTTGACCATGATATCCACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCT
TGATCTAATCATTTTTCTATAAAGTAAAGCTAAAAATTAGCATAGGATAATCTTGACATAATTCC
ATAAGAGTCTCGGTGTAATCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCCGCGAGTA
ACCGATCTTCAAGTCTTCAACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAACTCATCTAA
ATATCTCCAAAACAAATAGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAG
TAAAGCAATGAAATAGAGCCACAAGTTGTGGCCACTTTTTCAGCCATAAAACAACCATAG
Found at i:42144876 original size:101 final size:101
Alignment explanation
Indices: 42144696--42144884 Score: 290
Period size: 101 Copynumber: 1.9 Consensus size: 101
42144686 TCTCCAAAAC
* * *
42144696 AAATAGCCAATTGCTTTCGTTCTAAAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAA
1 AAATAGCCAATTGCTTTCATTCTAAAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAAA
* *
42144761 TAGTGCCACAAGTTGTGGCCACTTTTTTAGCTGAAA
66 CAGAGCCACAAGTTGTGGCCACTTTTTTAGCTGAAA
* *
42144797 AAATAGTCCAA-TGCTTTTATTCTACAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAA
1 AAATAG-CCAATTGCTTTCATTCTAAAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAA
*
42144861 ACAGAGCCACGAGTTGTGGCCACT
65 ACAGAGCCACAAGTTGTGGCCACT
42144885 ATTTCAGCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 75 0.95
102 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (101 bp):
AAATAGCCAATTGCTTTCATTCTAAAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAAA
CAGAGCCACAAGTTGTGGCCACTTTTTTAGCTGAAA
Found at i:42148730 original size:766 final size:768
Alignment explanation
Indices: 42144801--42148816 Score: 5597
Period size: 754 Copynumber: 5.3 Consensus size: 768
42144791 CTGAAAAAAT
* * * *
42144801 AGTCCAATGCTTTTATTCTACAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAAACAGA
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
* * * *
42144866 GCCACGAGTTGTGGCCACTATTTCAGCCATAGAAACAACCATAGAATTTTTTCTGGCCTTCAAAT
66 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
*
42144931 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATATATGAAAAAATAAAATCAT
131 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATA-A-GGAAAAATAAAATCAT
*
42144996 CACAGTCACAAATTCTTCCC-TTAAAGATCTCCCCCTCAATCAATGAATCTCAACTACCTCATCT
194 CACAGTCACAAATTC-TCCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCT
* * * ** *
42145060 CAAAGTAATTTAACCATT-ATTGAGTGTATGAACACAAAAAAGACAACGATATATGATTCAAAAC
258 CAAAATAATTTAACCATTAATT-AATGTATTAACACAAAAAAGACAATAACATATGATTCAAAAC
* * * *
42145124 AAGGAAAAGTGTACAAAATTACTAGATTGAGTGAGCATTTGTGCA-AAGAGCAGAAGAATCACCA
322 AAGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAA-AGCAAAAGAAACACCA
* * *
42145188 TACAAGACTGATGAGAATTTAAACCCTAA-TTT-TG--------TG----------CATCATAGT
386 TACTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAAAACATCATAGT
* * * * *
42145233 TCACTTCAATACTCCCTCTTTTCTTTCAATGATTGGAAAGGGATTACTGAGGCTATTTGACCATG
451 TCACTTCACTACTCCCT-TTTT-TTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTG
* * * * * * *
42145298 ATATCCAACTTCATGGCCAACAGCTTATTGTTCCATGCTTTGAAGACCTTGATCTAATTATTTTT
514 ATATCCAACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTT
* * * * *
42145363 -TATAAAGTAAAGCTAAAAATCAGCATAGGATAATCTTAACATAATTTCATAAGAATCTCGGTGA
579 CTATAAAGTAAAGCTAAAAATTAGCATAGAATAATCTT-GC-----TTCATAAGAGTCTCGGTGT
* * * * * *
42145427 AAGCCAATG-TTTACAAAAATGGAAAGTGACTTTATTTGATCAGCGAGTAACCGATCTTCAACTC
638 AATCCAATGCCTT-CAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTC
* * * * *
42145491 TTCAGA-TTTAACTCAATTGGTCTTCATGTTTTGGGCTCTAACTCGTGTAAATATCTCCGAAA-A
702 TTCA-ACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAATTCGTCTAAATGTCTCCAAAACA
*
42145554 AAT
766 AAG
* * * *
42145557 AGTCCAATGCTTTTATTCTACAATTTTCCAACTCTAAAAATACACAAGTAAAGAAATGAAACAGA
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
* * * *
42145622 GCCACGAGTTGTGGCCACTATTTCAGCCATAGAAACAACCATAGAATTTTTTCTGGCCTTCAAAT
66 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
*
42145687 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATATATGAAAAAATAAAATCAT
131 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATA-A-GGAAAAATAAAATCAT
*
42145752 CACAGTCACAAATTCTTCCC-TTAAAGATCTCCCCCTCAATCAATGAATCTCAACTACCTCATCT
194 CACAGTCACAAATTC-TCCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCT
* *
42145816 CAAATTAATTTAACCATTAATGAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACA
258 CAAAATAATTTAACCATTAATTAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACA
* * * *
42145881 AGAAAAGGAGTACAAAATTACGAGATTGAGTGAGCATTTGTACAGAAAGCAAAAGAAACATCATA
323 AGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATA
*
42145946 CTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAGAAACATCCTAGTT
388 CTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAA-AAACATCATAGTT
* *
42146011 CACTTCACTACTCCCTTTTTTTCCAATGATTGCAAAGGGATCAGTGAAGCTATTTGACCTTGATA
452 CACTTCACTACTCCCTTTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTGATA
*
42146076 TCCAACTTCATGGCAAATAGCTTATTATTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTA
517 TCCAACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTA
* *
42146141 TAAAGTAAAGCTAAAAATTAGCATAGAATAATCTTGGAATAATTTCATAAGATTCTCGGTGTAAT
582 TAAAGTAAAGCTAAAAATTAGCATAGAATAATCTT-G-----CTTCATAAGAGTCTCGGTGTAAT
** *
42146206 CCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCTGTAAGTAATCGATCTTCAAGTATTCA
641 CCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTCA
* * *
42146271 ACTTTAACTCAATTGGTATTCTTGTTTTGAGCTTTAATTCGTCTAAATGTCTCCAAAACAAAG
706 ACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAATTCGTCTAAATGTCTCCAAAACAAAG
* * *
42146334 AGTCTAGTGCTTTTGTTCTACAATTTT-CAATCTCTAAAAATAAACAAGTAAAGCAATGAAATAG
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAA-CTCTAAAAATAGACAAGTAAAGCAATGAAATAG
* *
42146398 AGCCACAAGTTGTGGCCACTGTTTCAACCAT--AAA-AA-C----AA-----------C--C--A
65 AGCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAA
* * *
42146440 TATGTTAACAATCACCCCCTTTAGCAATTTTTGAATAAATATATATAGGGAAAAAT-AAATCATC
130 TATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCATC
* * * * * *
42146504 ACAGTTAAAAATTCTCCCTTTAAGGATCTCCCCTTTAATCAAAGAATCTCAACTAACTCATCTCA
195 ACAGTCACAAATTCTCCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCTCA
* *
42146569 AAATAATTTAACCATTAATTAATGTATTAACACAAAAAAAAAACAATAACATATAATTCAAAACA
260 AAATAATTTAACCATTAATTAATGTATTAACAC--AAAAAAGACAATAACATATGATTCAAAACA
* * *
42146634 AGGAAGGGTGTACAAAATTACTAGATTGAGTGAGCATTTGTACAGAAAGCAAAAGAAACACCATA
323 AGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATA
* *
42146699 CTAGATTAATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAATAAAACATCCTAGTT
388 CTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAA-AAAACATCATAGTT
* *
42146764 CACTTCACTACTCCCTCTTTTTTTCAATAATTACAAAGGGATCACTGAAGCTATTTGACCTTGAT
452 CACTTCACTACTCCCT-TTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTGAT
* * * * *
42146829 ATCCAACTTCATGTCAAATAGCTTATTGTTGCTTGCTTTGAGGTCCTCAACCTAATTATTTTTCT
516 ATCCAACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCT
* *
42146894 ATAAAGTAAAGCAAAAAATTAGCATAGAATAATCGTGGCTTAATTCCATAAGAGTCTCGGTGTAA
581 ATAAAGTAAAGCTAAAAATTAGCATAGAATAATC-TTGC----TT-CATAAGAGTCTCGGTGTAA
* *
42146959 TCCAATGCCTACAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTT
640 TCCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTC
* * * *
42147024 AACTTTAACTCAAATGGTCTTCTTGTTTTGGGCTCTAACTT-TTCTAAATATCTCCAAAACAAAT
705 AACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAA-TTCGTCTAAATGTCTCCAAAACAAAG
* *
42147088 TGTCTAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
* * * *
42147153 GCCACAAGTTGTGGCCACTGTTCCAACCATAGAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
66 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
42147218 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCATCA
131 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCATCA
* * * *
42147283 CAGTCACAAATTCTCCCCTTT-AAGATCTCCTCATTATTCAATGAATCTCAAGTACCTCATCTCA
196 CAGTCACAAATTCT-CCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCTCA
* * * * *
42147347 AAGTAGTTTAACCGCATTAATGAATGTATTAACACAATAAAGACAATAATATATGATTCAAAACA
260 AAATAATTTAA-C-CATTAATTAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACA
42147412 AGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATA
323 AGGAAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATA
42147477 CTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAAACACATCATAGTT
388 CTAGATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAAA-ACATCATAGTT
* * *
42147542 CACTTCACTACTCCCTCTTTTTT---T--TTGCAATGGGATCACTAAAGCTATTTGACCTTGATA
452 CACTTCACTACTCCCTTTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTGATA
*
42147602 TCCAAGTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTA
517 TCCAACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTA
*
42147667 TAAAGTAAAGCTAAAAATTAGCATAGAATAATCTAGGCATAATTCCATAAGAGTCTCGGTGTAAT
582 TAAAGTAAAGCTAAAAATTAGCATAGAATAATCT-TGC----TT-CATAAGAGTCTCGGTGTAAT
* *
42147732 CCAATGCTTTCAAATATGGAAAATGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTCA
641 CCAATGCCTTCAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTCA
* * * *
42147797 AGTTTAACTCAATTGGTATTCTTGTTTTGAGCTTTAATTCGTCTAAATGTCTCCAAAACAAAG
706 ACTTTAACTCAATTGGTCTTCTTGTTTTGGGCTCTAATTCGTCTAAATGTCTCCAAAACAAAG
* * *
42147860 AGTCCAATGCTTTT-TTCTACAAGTTTCAAACTCTAAAAATAGACAAGTAAAGTAATGAAATAGA
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
42147924 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
66 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
* * *
42147989 ATGTTAACAATCTCCCCTTTTAGCAATTTTTGAATAAATATATATAAGGAAAAAT-ATATCATCA
131 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCATCA
* * *
42148053 CAGTCACAAATTCTCCCTTTAAGGATCTCCCCCTTAATCAAAGAATCTCAACTAACTCATCTCAA
196 CAGTCACAAATTCTCCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCTCAA
42148118 AATAATTTAACCATTAATTAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACAAGG
261 AATAATTTAACCATTAATTAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACAAGG
42148183 AAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATACTA
326 AAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATACTA
* * * *
42148248 AATTAATGAGAATTGAAACCCAAAGTTTGTGTTTATTATTATACCAAAAAACATCATAGTTCACT
391 GATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAAAACATCATAGTTCACT
* *
42148313 TCACTACT-CCTTTTTTTTCAATGATTGCAAGGGGATCACTGAAGGTATTTGACCTTGATATCCA
456 TCACTACTCCCTTTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTGATATCCA
* * *
42148377 ACTTCATGTCAAATAGCTTATTGTTGCTTGCTTTGAGGTCCTTAACCTAATCATTTTTCTATAAA
521 ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTATAAA
* *
42148442 GTAAAGCTAAAAATTAGTATAGAATAATCGTTGCTTAATAAGAGTCTCGGTGTAATCCAATGCCT
586 GTAAAGCTAAAAATTAGCATAGAATAATC-TTGCTTCATAAGAGTCTCGGTGTAATCCAATGCCT
**
42148507 TCAAATATGGAAAGTGACTTTATTTGATCCACGAGTAATCGATCTTCAAGTCTTCAACTTTAACT
650 TCAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTCAACTTTAACT
* *
42148572 CAATTGGTCTTCTTGTTTTGGGCTCTAATTCATCCAAATGTCTCCAAAACAAAG
715 CAATTGGTCTTCTTGTTTTGGGCTCTAATTCGTCTAAATGTCTCCAAAACAAAG
42148626 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCT-AAAATAGACAAGTAAAGCAATGAAATAGA
1 AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
* * *
42148690 GCCATAGGTTGTGGCCACTGTTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
66 GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
* * *
42148755 ATGTTAACAATCTCCCCCTTTAGCAATTTTTGAATAAATATATTTAGGGAAAAAT-AAATCAT
131 ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCAT
42148817 GTGACAGCCC
Statistics
Matches: 2950, Mismatches: 226, Indels: 158
0.88 0.07 0.05
Matches are distributed among these distances:
750 4 0.00
751 92 0.03
752 7 0.00
753 168 0.06
754 403 0.14
755 6 0.00
756 396 0.13
757 9 0.00
758 4 0.00
762 2 0.00
766 310 0.11
767 43 0.01
768 162 0.05
769 10 0.00
770 67 0.02
771 292 0.10
772 279 0.09
773 2 0.00
774 3 0.00
775 98 0.03
776 163 0.06
777 174 0.06
778 229 0.08
779 7 0.00
780 20 0.01
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (768 bp):
AGTCCAATGCTTTTGTTCTACAATTTTCCAACTCTAAAAATAGACAAGTAAAGCAATGAAATAGA
GCCACAAGTTGTGGCCACTATTTCAGCCATAAAAACAACCATAGAATTTTTCCTTGCCTTCAAAT
ATGTTAACAATCTCCCCCTTTAGCAATATTTGAATAAATATATATAAGGAAAAATAAAATCATCA
CAGTCACAAATTCTCCCTTTAAAGATCTCCCCCTTAATCAATGAATCTCAACTACCTCATCTCAA
AATAATTTAACCATTAATTAATGTATTAACACAAAAAAGACAATAACATATGATTCAAAACAAGG
AAAGGAGTACAAAATTACTAGATTGAGTGAGCATTTGTGCAGAAAGCAAAAGAAACACCATACTA
GATTGATGAGAATTGAAACCCTAAGTTTGTGTTTATTATTGTACCAAAAAACATCATAGTTCACT
TCACTACTCCCTTTTTTTTCAATGATTGCAAAGGGATCACTGAAGCTATTTGACCTTGATATCCA
ACTTCATGGCAAATAGCTTATTGTTGCATGCTTTGAGGTCCTTAATCTAATCATTTTTCTATAAA
GTAAAGCTAAAAATTAGCATAGAATAATCTTGCTTCATAAGAGTCTCGGTGTAATCCAATGCCTT
CAAATATGGAAAGTGACTTTATTTGATCTGCGAGTAATCGATCTTCAAGTCTTCAACTTTAACTC
AATTGGTCTTCTTGTTTTGGGCTCTAATTCGTCTAAATGTCTCCAAAACAAAG
Found at i:42149549 original size:39 final size:39
Alignment explanation
Indices: 42149506--42149583 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
42149496 TTAAACGTTG
*
42149506 AGGTTAGCATTTGGGTTGTTGAATATGCCAAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTAAATATGCCAAATTTGGAT
*
42149545 AGGTTAGCATTTGGGTTGTTAAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTAAATATGCCAAATTTGGAT
42149584 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTAAATATGCCAAATTTGGAT
Found at i:42150898 original size:39 final size:39
Alignment explanation
Indices: 42150844--42151715 Score: 1620
Period size: 39 Copynumber: 22.3 Consensus size: 39
42150834 TAATGGAGAA
*
42150844 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42150883 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42150922 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42150961 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151000 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151039 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151078 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151117 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151156 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151195 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151234 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151273 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151312 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151351 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151390 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151429 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151468 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151507 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151546 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42151585 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
** * * *
42151624 TTATATCCGGGCTAAAGTCTTGTAGGCATTCGTGTTGCTG
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
42151664 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTAGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
42151703 TTATATCTGGGCT
1 TTATATCCGGGCT
42151716 TTGTGGTGGC
Statistics
Matches: 818, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
39 772 0.94
40 46 0.06
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:42155803 original size:40 final size:40
Alignment explanation
Indices: 42155671--42155796 Score: 209
Period size: 40 Copynumber: 3.2 Consensus size: 40
42155661 AACCCAAGTA
* *
42155671 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42155710 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42155750 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42155790 CCTTCGG
1 CCTTCGG
42155797 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.16
40 69 0.84
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42157122 original size:13 final size:13
Alignment explanation
Indices: 42157099--42157132 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
42157089 TTATTTTATT
42157099 ATTTCTAACACAAA
1 ATTT-TAACACAAA
42157113 ATTTTAACACAAA
1 ATTTTAACACAAA
42157126 ATGTTTA
1 AT-TTTA
42157133 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:42158545 original size:218 final size:219
Alignment explanation
Indices: 42158167--42158591 Score: 834
Period size: 218 Copynumber: 1.9 Consensus size: 219
42158157 TTAACCATTA
42158167 ATGAATGTATTAACACAAAAAAGAGAATAACATATGATTCAAAATAAGGAAAGGAGTACAAAGTT
1 ATGAATGTATTAACACAAAAAAGAGAATAACATATGATTCAAAATAAGGAAAGGAGTACAAAGTT
42158232 ACTAGATTGAGTAAACATTTGTGCAGAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGA
66 ACTAGATTGAGTAAACATTTGTGCAGAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGA
42158297 AACCCTAATTTATGTTTATTATTGTACCAAAAAAACATCATAGTTCACTTCACTACTCCCTCTCT
131 AACCCTAATTTATGTTTATTATTGTACCAAAAAAACATCATAGTTCACTTCACTACTCCCTCTCT
42158362 TTTTTT-CAATGATTGCAAAGGGG
196 TTTTTTGCAATGATTGCAAAGGGG
42158385 ATGAATGTATTAACACAAAAAAGAGAATAACATATGATTCAAAATAAGGAAAGGAGTACAAAGTT
1 ATGAATGTATTAACACAAAAAAGAGAATAACATATGATTCAAAATAAGGAAAGGAGTACAAAGTT
42158450 ACTAGATTGAGTAAACATTTGTGCAGAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGA
66 ACTAGATTGAGTAAACATTTGTGCAGAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGA
*
42158515 AACCCTAATTTATGTTTATTATTGTACCAAAAAAACATCATAGTTCACTTCACTACTCCCTCTTT
131 AACCCTAATTTATGTTTATTATTGTACCAAAAAAACATCATAGTTCACTTCACTACTCCCTCTCT
42158580 TTTTTTGCAATG
196 TTTTTTGCAATG
42158592 GGATCACTAA
Statistics
Matches: 205, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
218 200 0.98
219 5 0.02
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (219 bp):
ATGAATGTATTAACACAAAAAAGAGAATAACATATGATTCAAAATAAGGAAAGGAGTACAAAGTT
ACTAGATTGAGTAAACATTTGTGCAGAAAGCAAAAGAAACACCATACTAGATTAATGAGAATTGA
AACCCTAATTTATGTTTATTATTGTACCAAAAAAACATCATAGTTCACTTCACTACTCCCTCTCT
TTTTTTGCAATGATTGCAAAGGGG
Found at i:42164968 original size:50 final size:50
Alignment explanation
Indices: 42164856--42165229 Score: 299
Period size: 50 Copynumber: 7.7 Consensus size: 50
42164846 GGTCAGTTGT
* * *
42164856 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTAT--CATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAT-ATCGAGGC
* **
42164905 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGCATATCCG-TTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATAT-CGAGGC
* * *
42164955 CGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCG-AGGC
* *
42165001 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACG--TCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGCATATCGAGGC
* *
42165047 CGATG-CATGTCCCAGACAT-GTCTTACACTACCACTCGTCTTAATACTATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG-C-----A-TATCGAGGC
* **
42165102 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGCATATCCG-TTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATAT-CGAGGC
* * *
42165152 CGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCG-AGGC
42165198 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
42165230 ACACAAATAA
Statistics
Matches: 271, Mismatches: 27, Indels: 57
0.76 0.08 0.16
Matches are distributed among these distances:
44 20 0.07
45 35 0.13
46 61 0.23
47 1 0.00
48 1 0.00
49 35 0.13
50 67 0.25
51 8 0.03
55 13 0.05
56 14 0.05
57 16 0.06
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATCGAGGC
Found at i:42167038 original size:54 final size:54
Alignment explanation
Indices: 42166980--42167094 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
42166970 GTACCAGGCT
* *
42166980 TGTAACTCTCGAAATAACCCCACACT-CCCGTGTGCCAAGCCGTGTGCTAGGCCG
1 TGTAACTCTCGAAATAACCCCACA-TGCCCGTGTGCCAAGCCGTATGCTAGGCCA
* *
42167034 TGTAACTCTCGAAATAGCCCCACATGCCCGTGTTCCAAGCCGTATGCTAGGCCA
1 TGTAACTCTCGAAATAACCCCACATGCCCGTGTGCCAAGCCGTATGCTAGGCCA
42167088 TGTAACT
1 TGTAACT
42167095 AACTGACTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (54 bp):
TGTAACTCTCGAAATAACCCCACATGCCCGTGTGCCAAGCCGTATGCTAGGCCA
Found at i:42168022 original size:35 final size:35
Alignment explanation
Indices: 42167983--42168105 Score: 129
Period size: 35 Copynumber: 3.5 Consensus size: 35
42167973 AAAATCCTAT
*
42167983 CCATCCAAAATACACCAATGCTCATACGAATTAAA
1 CCATCCAAAACACACCAATGCTCATACGAATTAAA
** * *
42168018 CCATCTGAAACACACTAATGCTCATACGAGTTAAA
1 CCATCCAAAACACACCAATGCTCATACGAATTAAA
** * * * * *
42168053 CCATCTGAAACACACTATTGCTCATAAGAACTAAT
1 CCATCCAAAACACACCAATGCTCATACGAATTAAA
*
42168088 CTATCCAAAACACACCAA
1 CCATCCAAAACACACCAA
42168106 AACAGAGAGT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.21
Consensus pattern (35 bp):
CCATCCAAAACACACCAATGCTCATACGAATTAAA
Found at i:42168730 original size:19 final size:19
Alignment explanation
Indices: 42168706--42168746 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
42168696 TTTAACATTT
42168706 TCACAATTCAATCCCTAAA
1 TCACAATTCAATCCCTAAA
* *
42168725 TCACAATTTAATCCTTAAA
1 TCACAATTCAATCCCTAAA
42168744 TCA
1 TCA
42168747 AAATCTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (19 bp):
TCACAATTCAATCCCTAAA
Found at i:42171442 original size:20 final size:22
Alignment explanation
Indices: 42171401--42171443 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
42171391 CATAAATTTC
*
42171401 AAATATTATAAGAATTGTAAAA
1 AAATATTATAAGAATGGTAAAA
42171423 AAATATTA-AA-AATGGTAAAA
1 AAATATTATAAGAATGGTAAAA
42171443 A
1 A
42171444 TTATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 2 0.10
22 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (22 bp):
AAATATTATAAGAATGGTAAAA
Found at i:42171578 original size:20 final size:19
Alignment explanation
Indices: 42171549--42171594 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
42171539 AAACGAACAT
*
42171549 AATT-CTAAAAATTGTAAA
1 AATTACTAAAAATGGTAAA
42171567 ATATTACT-AAAATGGTAAA
1 A-ATTACTAAAAATGGTAAA
42171586 AATTA-TAAA
1 AATTACTAAA
42171595 TAATCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 14 0.58
20 2 0.08
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (19 bp):
AATTACTAAAAATGGTAAA
Found at i:42172513 original size:16 final size:15
Alignment explanation
Indices: 42172494--42172532 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
42172484 TGTTTTATAT
42172494 TTTTTTCATTTTAATA
1 TTTTTT-ATTTTAATA
42172510 TTTTTATATTTTAATA
1 TTTTT-TATTTTAATA
42172526 TTTTTTA
1 TTTTTTA
42172533 CAATATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTATTTTAATA
Found at i:42174021 original size:18 final size:18
Alignment explanation
Indices: 42174000--42174036 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
42173990 TGAAATTTGG
42174000 AAATT-TTTTTATATTTTA
1 AAATTATTTTTAT-TTTTA
42174018 AAATTATTTTTATTTTTA
1 AAATTATTTTTATTTTTA
42174036 A
1 A
42174037 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AAATTATTTTTATTTTTA
Found at i:42174044 original size:23 final size:24
Alignment explanation
Indices: 42174005--42174052 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
42173995 TTTGGAAATT
42174005 TTTTTATATTTTAAAATTATTTTTA
1 TTTTTATATTTTAAAATT-TTTTTA
42174030 TTTTTA-A-TTTAAAATTTTTTTA
1 TTTTTATATTTTAAAATTTTTTTA
42174052 T
1 T
42174053 AGTTAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 9 0.39
24 1 0.04
25 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTATATTTTAAAATTTTTTTA
Found at i:42174562 original size:17 final size:17
Alignment explanation
Indices: 42174534--42174606 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
42174524 AATTTCTGAA
42174534 TTTTAAAGAAATTTTATT
1 TTTTAAA-AAATTTTATT
*
42174552 TTTTAAAAAATTATAATCT
1 TTTTAAAAAATT-TTAT-T
*
42174571 TGTT--AAAA-TTTATT
1 TTTTAAAAAATTTTATT
* *
42174585 TTTT-AAAAATTATAAT
1 TTTTAAAAAATTTTATT
42174601 TTTTAA
1 TTTTAA
42174607 TTTTTTTAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 4 0.09
15 7 0.16
16 9 0.20
17 10 0.23
18 10 0.23
19 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTAAAAAATTTTATT
Found at i:42175532 original size:12 final size:12
Alignment explanation
Indices: 42175515--42175550 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
42175505 AAATAATAAA
*
42175515 AAGTTTAAGTTT
1 AAGTTTAAATTT
42175527 AAGTTTAAATTT
1 AAGTTTAAATTT
*
42175539 AAATTTAAATTT
1 AAGTTTAAATTT
42175551 TATTTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
AAGTTTAAATTT
Found at i:42180064 original size:16 final size:17
Alignment explanation
Indices: 42180038--42180078 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
42180028 GCAGTTTAAA
*
42180038 TATATTCTAAAT-TTTAT
1 TATATTTTAAATATTT-T
42180055 T-TATTTTAAATATTTT
1 TATATTTTAAATATTTT
42180071 TATATTTT
1 TATATTTT
42180079 TTCTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATTTTAAATATTTT
Found at i:42180141 original size:45 final size:45
Alignment explanation
Indices: 42180091--42180179 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
42180081 CTATATTATT
42180091 AAATATATTATATGTTATTATTATATCATTTTAATATGAAATATG
1 AAATATATTATATGTTATTATTATATCATTTTAATATGAAATATG
42180136 AAATATATTATATGTTATTATTATATCATTTTAATATGAAATAT
1 AAATATATTATATGTTATTATTATATCATTTTAATATGAAATAT
42180180 ATTAATACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (45 bp):
AAATATATTATATGTTATTATTATATCATTTTAATATGAAATATG
Done.