Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 254 of 425
Found at i:78074116 original size:47 final size:47
Alignment explanation
Indices: 78074037--78074324 Score: 459
Period size: 47 Copynumber: 6.1 Consensus size: 47
78074027 CATACATATT
* * * *
78074037 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
78074084 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78074131 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
78074178 TCACATTGGCCATTCGACCTGATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78074225 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
78074272 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78074319 TCACAT
1 TCACAT
78074325 AAAATCCTAA
Statistics
Matches: 223, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 223 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:78074252 original size:22 final size:22
Alignment explanation
Indices: 78074224--78074295 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
78074214 GTTCACATTC
78074224 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
78074246 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
78074270 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
78074293 ATC
1 ATC
78074296 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:78078357 original size:31 final size:31
Alignment explanation
Indices: 78078319--78078397 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
78078309 CTCGACATAT
78078319 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
78078350 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
78078381 ACTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
78078398 ATTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:78078482 original size:42 final size:42
Alignment explanation
Indices: 78078421--78078512 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
78078411 TGGCCTATAG
* *
78078421 GCCCATTTCAATAATACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAATACATGAAATACCAATGAATGTATACAA
78078463 GCCCATTTCAAT-ATCACATGAAATACCAATGAATGTATACAA
1 GCCCATTTCAATAAT-ACATGAAATACCAATGAATGTATACAA
78078505 GCCCATTT
1 GCCCATTT
78078513 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 2 0.04
42 45 0.96
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAATACATGAAATACCAATGAATGTATACAA
Found at i:78078721 original size:26 final size:26
Alignment explanation
Indices: 78078657--78078831 Score: 246
Period size: 26 Copynumber: 6.8 Consensus size: 26
78078647 CCTCTTTAAT
**
78078657 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
78078682 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
78078707 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
78078733 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
78078759 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
78078785 AATTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
78078811 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
78078832 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
25 32 0.24
26 101 0.76
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:78078769 original size:52 final size:52
Alignment explanation
Indices: 78078651--78078831 Score: 314
Period size: 52 Copynumber: 3.5 Consensus size: 52
78078641 GCCTAACCTC
78078651 TTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
78078700 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
* *
78078752 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAATTGGGGCATAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
*
78078804 TTTAATAAACTAGGGCATAAGCCCTTTT
1 TTTAATAAACTGGGGCATAAGCCCTTTT
78078832 GCACTTCCTC
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
49 6 0.05
50 10 0.08
51 25 0.20
52 84 0.67
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (52 bp):
TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
Found at i:78078906 original size:20 final size:20
Alignment explanation
Indices: 78078881--78078967 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
78078871 TTATGAATTC
*
78078881 ATCATGTGCATTTCATACAT
1 ATCATGTGCATGTCATACAT
78078901 ATCATGTGCATGTCATACAT
1 ATCATGTGCATGTCATACAT
78078921 ATCATGTGCATGTCATACAT
1 ATCATGTGCATGTCATACAT
*
78078941 ATCATGTGCATATCATATCA-
1 ATCATGTGCATGTCATA-CAT
78078961 ATCATGT
1 ATCATGT
78078968 ATATCATACC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATGTCATACAT
Found at i:78078952 original size:11 final size:11
Alignment explanation
Indices: 78078881--78078956 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
78078871 TTATGAATTC
78078881 ATCATGTGCAT
1 ATCATGTGCAT
* *
78078892 TTCA--TACAT
1 ATCATGTGCAT
78078901 ATCATGTGCAT
1 ATCATGTGCAT
* *
78078912 GTCA--TACAT
1 ATCATGTGCAT
78078921 ATCATGTGCAT
1 ATCATGTGCAT
* *
78078932 GTCA--TACAT
1 ATCATGTGCAT
78078941 ATCATGTGCAT
1 ATCATGTGCAT
78078952 ATCAT
1 ATCAT
78078957 ATCAATCATG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 21 0.45
11 26 0.55
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:78078973 original size:9 final size:10
Alignment explanation
Indices: 78078898--78078974 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
78078888 GCATTTCATA
78078898 CATATCATGT
1 CATATCATGT
* *
78078908 GCATGTCAT-A
1 -CATATCATGT
78078918 CATATCATGT
1 CATATCATGT
* *
78078928 GCATGTCAT-A
1 -CATATCATGT
78078938 CATATCATGT
1 CATATCATGT
*
78078948 GCATATCATAT
1 -CATATCATGT
78078959 CA-ATCATGT
1 CATATCATGT
78078968 -ATATCAT
1 CATATCAT
78078975 ACCCCACGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 2 0.04
11 23 0.45
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (10 bp):
CATATCATGT
Found at i:78079704 original size:27 final size:27
Alignment explanation
Indices: 78079674--78079738 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78079664 GGGCATATTC
78079674 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
78079701 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
78079728 GTCTTTTTACC
1 GTCATTTTACC
78079739 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:78079822 original size:27 final size:27
Alignment explanation
Indices: 78079769--78080100 Score: 190
Period size: 27 Copynumber: 12.3 Consensus size: 27
78079759 TTTCATCCTA
* * * *
78079769 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
78079796 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
78079823 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
78079852 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
78079879 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * * *
78079906 TGAGGTTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
78079933 C-AGTGGTATTTTGGTAACTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
78079960 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
78079987 CAGGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
78080013 CTAGGGTA-TTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
78080039 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
78080066 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
78080093 CGAGGGTA
1 CAAGGGTA
78080101 AAACAGTAAT
Statistics
Matches: 241, Mismatches: 54, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
25 13 0.05
26 17 0.07
27 182 0.76
28 15 0.06
29 14 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:78080047 original size:52 final size:54
Alignment explanation
Indices: 78079855--78080086 Score: 222
Period size: 54 Copynumber: 4.3 Consensus size: 54
78079845 AGAAAGTCAA
** * *
78079855 GGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTT-TGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
* * * * *
78079908 AGGTTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAACTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
* * *
78079963 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACTA-
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
** * ** * *
78080016 GGGTA-TTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACTAG
*
78080069 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
78080087 GTAAATCGAG
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
51 1 0.01
52 36 0.25
53 10 0.07
54 97 0.66
55 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
Found at i:78080097 original size:54 final size:53
Alignment explanation
Indices: 78079771--78080100 Score: 218
Period size: 54 Copynumber: 6.1 Consensus size: 53
78079761 TCATCCTACA
* * * ** *
78079771 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAC-C
* * * * *
78079825 ATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTT-TGGTAATTTTGTAAACC
*** * * ***
78079880 AGGGGTATTTTGGTAATTTTACAAATTGAGGTTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
* * * **
78079934 AGTGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
* * * * * * * *
78079988 AGGGGTATTTTAGCAATTTTACAGA-CTAGGGTA-TTTGGTAATTTTACTGATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAACC
** * *
78080041 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAA-CC
78080095 AGGGTA
1 AGGGTA
78080101 AAACAGTAAT
Statistics
Matches: 213, Mismatches: 50, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
52 30 0.14
53 18 0.08
54 113 0.53
55 18 0.08
56 34 0.16
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACC
Found at i:78080108 original size:27 final size:27
Alignment explanation
Indices: 78080079--78080341 Score: 373
Period size: 27 Copynumber: 9.7 Consensus size: 27
78080069 GGGTATTTTA
* * *
78080079 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
78080106 GTAATTCTACAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
78080133 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
78080160 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
78080187 GTCATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
78080214 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
78080241 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
78080268 ATAATTTTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
78080295 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
78080322 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
78080342 CATTTCAGTA
Statistics
Matches: 209, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:78081847 original size:14 final size:13
Alignment explanation
Indices: 78081817--78081861 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
78081807 CATAATTCTG
78081817 TTATTGTTTTA-TT
1 TTATT-TTTTATTT
78081830 TTATGTTTTTATTT
1 TTAT-TTTTTATTT
78081844 TTATTTATTTATTT
1 TTATTT-TTTATTT
78081858 TTAT
1 TTAT
78081862 CAACTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:78091790 original size:6 final size:6
Alignment explanation
Indices: 78091779--78091811 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
78091769 AGTTTCCTTT
78091779 TTTTTA TTTTTA TTTTT- TATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTT
78091812 CACCTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:78091801 original size:12 final size:12
Alignment explanation
Indices: 78091778--78091811 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
78091768 TAGTTTCCTT
78091778 TTTTTTATTTTTA
1 TTTTTTA-TTTTA
78091791 TTTTTTATTTTA
1 TTTTTTATTTTA
78091803 -TTTTTATTT
1 TTTTTTATTT
78091812 CACCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 5 0.24
13 7 0.33
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:78091803 original size:18 final size:17
Alignment explanation
Indices: 78091776--78091811 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
78091766 GTTAGTTTCC
78091776 TTTTTTTTATTTTTATT
1 TTTTTTTTATTTTTATT
78091793 TTTTATTTTATTTTTATT
1 TTTT-TTTTATTTTTATT
78091811 T
1 T
78091812 CACCTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTATTTTTATT
Found at i:78095619 original size:103 final size:103
Alignment explanation
Indices: 78095440--78095640 Score: 366
Period size: 103 Copynumber: 2.0 Consensus size: 103
78095430 TGCCCGTGTT
*
78095440 AGCCACACGGGCTGGCCACATGCCAATACCCGAGCTCGTGTCGATTTCGAGCCCTACTTCTCTTT
1 AGCCACACGGGCTGGCCACATGCCAATACCCGAGCCCGTGTCGATTTCGAGCCCTACTTCTCTTT
78095505 TACACTGAAAAACTCAATTTTTAGGGTTTCTAAATGTA
66 TACACTGAAAAACTCAATTTTTAGGGTTTCTAAATGTA
* **
78095543 AGCCACACGGGCTGGCCACATTCCAATACGTGAGCCCGTGTCGATTTCGAGCCCTACTTCTCTTT
1 AGCCACACGGGCTGGCCACATGCCAATACCCGAGCCCGTGTCGATTTCGAGCCCTACTTCTCTTT
78095608 TACACTGAAAAACTCAATTTTTAGGGTTTCTAA
66 TACACTGAAAAACTCAATTTTTAGGGTTTCTAA
78095641 GCATTCTAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 94 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (103 bp):
AGCCACACGGGCTGGCCACATGCCAATACCCGAGCCCGTGTCGATTTCGAGCCCTACTTCTCTTT
TACACTGAAAAACTCAATTTTTAGGGTTTCTAAATGTA
Found at i:78096205 original size:28 final size:28
Alignment explanation
Indices: 78096174--78096229 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
78096164 TTTTAATTAG
*
78096174 AAAGTGATTTCAATTAATCAACCTAGAT
1 AAAGAGATTTCAATTAATCAACCTAGAT
78096202 AAAGAGATTTCAATTAATCAACCTAGAT
1 AAAGAGATTTCAATTAATCAACCTAGAT
78096230 TCAATTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (28 bp):
AAAGAGATTTCAATTAATCAACCTAGAT
Found at i:78099144 original size:19 final size:19
Alignment explanation
Indices: 78099120--78099159 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
78099110 GTTATAGATG
78099120 TATGAAATAATCACATGCC
1 TATGAAATAATCACATGCC
78099139 TATGAAATAATCACATGCC
1 TATGAAATAATCACATGCC
78099158 TA
1 TA
78099160 GTAATGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (19 bp):
TATGAAATAATCACATGCC
Found at i:78107612 original size:56 final size:57
Alignment explanation
Indices: 78107538--78107649 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 57
78107528 TGAGGTCGTG
*
78107538 TGGAAACAGGGCAAAAATTTCCCTAACACGGGCTACGATAAATTGCCACGACCATGT
1 TGGAAACAGGGCAAAAATTTCCCCAACACGGGCTACGATAAATTGCCACGACCATGT
*
78107595 TGGAAACA-GGCAAAAATTTCCCCAACACGGGCTACGATAAATTGCCACGGCCATG
1 TGGAAACAGGGCAAAAATTTCCCCAACACGGGCTACGATAAATTGCCACGACCATG
78107650 CGACATGGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 45 0.85
57 8 0.15
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (57 bp):
TGGAAACAGGGCAAAAATTTCCCCAACACGGGCTACGATAAATTGCCACGACCATGT
Found at i:78110943 original size:40 final size:40
Alignment explanation
Indices: 78110873--78111063 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
78110863 CGGATGATAA
* *
78110873 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
78110913 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
78110953 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
78110993 CGAAGGCATTTGTGCGAGCTACTATATCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
78111033 CGAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
78111064 TTAAATCCTG
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 140 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:78114505 original size:39 final size:40
Alignment explanation
Indices: 78114458--78114555 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 40
78114448 GGACTAGGAT
* *
78114458 CCGAAGGCATTCATGCGAGTTAATAAATCCGGGCT-AAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAAGC
* * * *
78114497 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAATC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAAGC
78114536 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
78114556 CGCTATAACC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.36
39 25 0.50
40 7 0.14
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAAGC
Found at i:78114553 original size:78 final size:80
Alignment explanation
Indices: 78114405--78114586 Score: 201
Period size: 78 Copynumber: 2.3 Consensus size: 80
78114395 ACGAATGATG
* * * *
78114405 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAGAATCCGAAGGCATTC
78114470 ATGCGAGTTAATAAA
66 ATGCGAGTTAATAAA
* **
78114485 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTA-AATCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAGAAT-CCGAAGGCATT
* ***
78114547 CGTGCGAGTCGCTATAA
65 CATGCGAGTTAATA-AA
**
78114564 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
78114587 TGAGCGAGTC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
77 2 0.02
78 44 0.51
79 29 0.34
80 11 0.13
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAGAATCCGAAGGCATTC
ATGCGAGTTAATAAA
Found at i:78122766 original size:29 final size:29
Alignment explanation
Indices: 78122726--78122799 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
78122716 GTTGAGAGAT
*
78122726 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
78122755 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
78122784 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78122800 CGGCTGATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:78125664 original size:40 final size:40
Alignment explanation
Indices: 78125609--78125839 Score: 317
Period size: 40 Copynumber: 5.8 Consensus size: 40
78125599 CGGATGATAA
*
78125609 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
78125649 CGAAGGTATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
78125689 CGAAGGAATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
*
78125729 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* *
78125769 CGAAGGCATTTGTACGAGCT-ACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
*
78125809 CGAAGGCATTTGAGCGAGT-AGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTGA-CTATATCCGG
78125840 TTAAATCCTG
Statistics
Matches: 178, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 174 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:78133416 original size:14 final size:12
Alignment explanation
Indices: 78133402--78133435 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78133392 TGTTACGTTA
*
78133402 TATTTGTTTTTT
1 TATTTTTTTTTT
*
78133414 TATTTTTATTTT
1 TATTTTTTTTTT
78133426 TATTTTTTTT
1 TATTTTTTTT
78133436 CTTTTATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (12 bp):
TATTTTTTTTTT
Found at i:78134058 original size:21 final size:21
Alignment explanation
Indices: 78134032--78134072 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
78134022 CACGACCGTC
78134032 TGACCTATCCACATGGCCATT
1 TGACCTATCCACATGGCCATT
*
78134053 TGACCTATTCACATGGCCAT
1 TGACCTATCCACATGGCCAT
78134073 GTAGCCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (21 bp):
TGACCTATCCACATGGCCATT
Found at i:78134080 original size:21 final size:21
Alignment explanation
Indices: 78134033--78134087 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
78134023 ACGACCGTCT
* *
78134033 GACCTATCCACATGGCCATTT
1 GACCTATTCACATGGCCATTA
78134054 GACCTATTCACATGGCCATGTA
1 GACCTATTCACATGGCCAT-TA
78134076 G-CCTATCTCACA
1 GACCTAT-TCACA
78134088 CAGGCACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (21 bp):
GACCTATTCACATGGCCATTA
Found at i:78142043 original size:40 final size:40
Alignment explanation
Indices: 78141917--78142045 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
78141907 ATGCTAGAAA
* *
78141917 TTATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* *
78141956 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78141996 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78142036 TTATATCCGG
1 TTATATCCGG
78142046 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 19 0.24
40 60 0.76
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78145181 original size:40 final size:40
Alignment explanation
Indices: 78145064--78145265 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 40
78145054 ATTAAATGAT
* ** * *
78145064 ATCCGGGCTAAGTCCCGAA--CATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * *
78145102 ATCCGGG-TTA-ACCCGAAGGCAATT-ATGCTAG-TGACTAA
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
78145140 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * **
78145180 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * *
78145220 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
78145260 ATCCGG
1 ATCCGG
78145266 TTGCATTCCG
Statistics
Matches: 138, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
36 6 0.04
37 3 0.02
38 25 0.18
39 8 0.06
40 94 0.68
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
Found at i:78145226 original size:80 final size:76
Alignment explanation
Indices: 78145063--78145265 Score: 221
Period size: 80 Copynumber: 2.6 Consensus size: 76
78145053 AATTAAATGA
* ** * *
78145063 TATCCGGGCTAAGTCCCGAA--CATTTATGCTAGTAGTTAAATCCGGGTTAACCCGAAGGCAATT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGTAAACCCGAAGGCAATT
*
78145126 ATGCTAGTGAC
66 ATGCAAGTGAC
*
78145137 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGG-TAA-ACCCGAAGGC
* * *
78145202 ATTTGTGCAAGTCGTTC
62 AATTATGCAAGT-G-AC
* * *
78145219 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
78145266 TTGCATTCCG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
74 1 0.01
76 18 0.17
78 22 0.20
79 2 0.02
80 62 0.57
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (76 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGTAAACCCGAAGGCAATT
ATGCAAGTGAC
Found at i:78148350 original size:40 final size:40
Alignment explanation
Indices: 78148284--78148433 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
78148274 AAATTGAATG
* * *
78148284 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78148323 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
78148363 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
78148403 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
78148434 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.22
40 72 0.78
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78156471 original size:40 final size:40
Alignment explanation
Indices: 78156344--78156473 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
78156334 ATGCTGGAAA
* *
78156344 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
78156384 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78156424 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78156464 TTATATCCGG
1 TTATATCCGG
78156474 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78157865 original size:35 final size:35
Alignment explanation
Indices: 78157814--78157883 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
78157804 CCTCGTGTCC
*
78157814 GACACCGGCGATGGTCTCGGGTTCGGGGTGTTACA
1 GACACCGGCGACGGTCTCGGGTTCGGGGTGTTACA
78157849 GACACCGGCGACGGTCTCGGGTTCGGGGTGTTACA
1 GACACCGGCGACGGTCTCGGGTTCGGGGTGTTACA
78157884 CTAGACGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.14, C:0.24, G:0.40, T:0.21
Consensus pattern (35 bp):
GACACCGGCGACGGTCTCGGGTTCGGGGTGTTACA
Found at i:78165445 original size:40 final size:39
Alignment explanation
Indices: 78165292--78165462 Score: 195
Period size: 39 Copynumber: 4.4 Consensus size: 39
78165282 CAATCACCAA
* *
78165292 CACAAAGCCTACGGAT-CTTAAGTCCGGATACAATTCCAG
1 CACAAAGCCTGCGG-TCCTTAAGTCCGGATATAATTCCAG
* *
78165331 CACGAAA-CCTGCGGACCTTAAGTCTGGATATAATTCCAG
1 CAC-AAAGCCTGCGGTCCTTAAGTCCGGATATAATTCCAG
* *
78165370 CA-AGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAG
1 CACA-AAGCCTGCGGTCCTTAAGTCCGGATATAATTCCAG
* *
78165409 CACAAAGCCTGCAGGTCTTTAAGCCCGGATATAATTCCAG
1 CACAAAGCCTGC-GGTCCTTAAGTCCGGATATAATTCCAG
* *
78165449 CATATAGCCTGCGG
1 CACAAAGCCTGCGG
78165463 GTCTTTAAAC
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 2 0.02
39 74 0.65
40 37 0.32
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (39 bp):
CACAAAGCCTGCGGTCCTTAAGTCCGGATATAATTCCAG
Found at i:78165466 original size:40 final size:38
Alignment explanation
Indices: 78165295--78165481 Score: 162
Period size: 39 Copynumber: 4.8 Consensus size: 38
78165285 TCACCAACAC
* * *
78165295 AAAGCCTACGGATC-TTAAGTCCGGATACAATTCCAGCA
1 AAAGCCTGCGG-TCTTTAAGCCCGGATATAATTCCAGCA
* * * *
78165333 CGAAA-CCTGCGGACCTTAAGTCTGGATATAATTCCAGCA
1 --AAAGCCTGCGGTCTTTAAGCCCGGATATAATTCCAGCA
* * * *
78165372 AGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
1 A-AAGCCTGCGGTCTTTAAGCCCGGATATAATTCCAGCA
78165411 CAAAGCCTGCAGGTCTTTAAGCCCGGATATAATTCCAGCA
1 -AAAGCCTGC-GGTCTTTAAGCCCGGATATAATTCCAGCA
* * *
78165451 TATAGCCTGCGGGTCTTTAAACCCAGATATA
1 -AAAGCCTGC-GGTCTTTAAGCCCGGATATA
78165482 CATCAAAGAT
Statistics
Matches: 127, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 68 0.54
40 55 0.43
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
AAAGCCTGCGGTCTTTAAGCCCGGATATAATTCCAGCA
Found at i:78171748 original size:40 final size:40
Alignment explanation
Indices: 78171682--78171849 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
78171672 CCTTTGGGAT
* **
78171682 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
* ** * *
78171721 TTAACCCGGATTTAGGAACTTGTACAATTGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
78171761 TTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCAC-AATTGCCTTCGGGTC
* * * * *
78171801 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAACCCGGATATAA-CAACTCGCACAATTGCCTTCGGGTC
*
78171841 TTAGCCCGG
1 TTAACCCGG
78171850 GTACCATTCA
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.06
40 100 0.92
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
Found at i:78171833 original size:80 final size:80
Alignment explanation
Indices: 78171672--78171849 Score: 189
Period size: 80 Copynumber: 2.2 Consensus size: 80
78171662 GAGTCACGTA
* * * * *
78171672 CCTTTGGGATTTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* * *
78171736 GAACTTGTACAATTG
66 GAACTAGCACAAATG
* ** *
78171751 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
** *
78171815 ATCACTAGCATAAATG
65 AGAACTAGCACAAATG
*
78171831 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
78171850 GTACCATTCA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 11 0.14
80 67 0.84
81 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
GAACTAGCACAAATG
Found at i:78180322 original size:14 final size:14
Alignment explanation
Indices: 78180286--78180330 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
78180276 AAAAAAGATG
78180286 ATAAT-TATTAATAT
1 ATAATATATTAAT-T
*
78180300 ATAATTATATTCATT
1 ATAA-TATATTAATT
78180315 ATAATATATTAATT
1 ATAATATATTAATT
78180329 AT
1 AT
78180331 TATTAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.56
15 6 0.22
16 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATATTAATT
Found at i:78196467 original size:40 final size:40
Alignment explanation
Indices: 78196383--78196604 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
78196373 AACCCAAGTA
* * * *
78196383 CCTTCGGGATTTAG-CCGGATCTAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
* *
78196422 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* * *
78196462 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
78196502 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
78196542 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
78196582 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
78196605 CATTCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 151 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:78204536 original size:40 final size:40
Alignment explanation
Indices: 78204462--78204683 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
78204452 AACCCAAGTA
* * *
78204462 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
78204501 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
78204541 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
78204581 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* * *
78204621 CCTTCGGGACATAGCCCGAATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
78204661 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
78204684 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:78211199 original size:39 final size:39
Alignment explanation
Indices: 78211125--78211348 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 39
78211115 GCTACTCGTT
*
78211125 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
78211165 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
78211204 CAAATGCCTTGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
78211243 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
78211283 CAAATGCCTTTGGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
78211324 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
78211349 CATCATTCGA
Statistics
Matches: 167, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 73 0.44
40 83 0.50
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78211276 original size:79 final size:78
Alignment explanation
Indices: 78211125--78211348 Score: 299
Period size: 79 Copynumber: 2.8 Consensus size: 78
78211115 GCTACTCGTT
* * *
78211125 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGG
1 CAAATGCCTT-GGGACTTAGCCCGGATT-TAGTAACTCACACAAATGCCTTCGGACTTAGCCCGG
78211189 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
78211204 CAAATGCCTTGGGACTTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGA-CTTAGCCCGGA
78211269 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
* * * *
78211283 CAAATGCCTTTGGATCTTAGTCCGGATTTAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAATGCCTTC-GGACTTAGCCCG
78211347 GA
63 GA
78211349 CATCATTCGA
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 37 0.29
79 48 0.37
80 35 0.27
81 9 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:78216212 original size:35 final size:35
Alignment explanation
Indices: 78216151--78216220 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
78216141 ACCCTCGAAA
* * *
78216151 GACACGGGCGTGTGAGCTGCCCTTGTGGCAAGGCT
1 GACACGGGCATGTGAGCTACCATTGTGGCAAGGCT
*
78216186 GACATGGGCATGTGAGCTACCATTGTGGCAAGGCT
1 GACACGGGCATGTGAGCTACCATTGTGGCAAGGCT
78216221 TAGGCCGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (35 bp):
GACACGGGCATGTGAGCTACCATTGTGGCAAGGCT
Found at i:78219349 original size:14 final size:13
Alignment explanation
Indices: 78219327--78219363 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
78219317 GTCTTAAAAT
78219327 AAAATAAAAGTAA
1 AAAATAAAAGTAA
78219340 AAACATAAAA-TAA
1 AAA-ATAAAAGTAA
78219353 AAAATAAAAGT
1 AAAATAAAAGT
78219364 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAATAAAAGTAA
Found at i:78222711 original size:16 final size:17
Alignment explanation
Indices: 78222690--78222722 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78222680 CACATTGAAG
78222690 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
78222706 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
78222723 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:78224199 original size:8 final size:8
Alignment explanation
Indices: 78224171--78224209 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
78224161 ACAAAATGTT
*
78224171 GGCTTTCC
1 GGCTTTTC
*
78224179 GGCATTTC
1 GGCTTTTC
*
78224187 AGCTTTTC
1 GGCTTTTC
78224195 GGCTTTTC
1 GGCTTTTC
78224203 GGCTTTT
1 GGCTTTT
78224210 GCCGATCTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.26, G:0.23, T:0.46
Consensus pattern (8 bp):
GGCTTTTC
Found at i:78236742 original size:26 final size:26
Alignment explanation
Indices: 78236709--78236816 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
78236699 TGATACAAAT
78236709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
78236735 TGAAAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78236761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78236787 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78236813 TGAT
1 TGAT
78236817 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78240128 original size:48 final size:48
Alignment explanation
Indices: 78240057--78240482 Score: 715
Period size: 48 Copynumber: 9.0 Consensus size: 48
78240047 CAAGATAAAT
* * *
78240057 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240105 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240153 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240201 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240247 --A-G-ATA--TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240289 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
78240337 ATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
78240385 ATATGTATATGTGGTAAGGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
78240433 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
78240481 AT
1 AT
78240483 GTGTGTATAT
Statistics
Matches: 358, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
40 34 0.09
42 4 0.01
43 1 0.00
44 2 0.01
45 1 0.00
46 4 0.01
48 312 0.87
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:78240377 original size:184 final size:189
Alignment explanation
Indices: 78240067--78240482 Score: 707
Period size: 184 Copynumber: 2.2 Consensus size: 189
78240057 ATATATATGT
*
78240067 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
* *
78240132 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
66 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGTA
* *
78240197 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAT-G-A-G-ATA
131 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAGAATGTATA
78240252 -TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
78240316 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGTA
66 CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGTA
*
78240381 TGAGATATGTATATGTGGTAAGGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
131 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT-AGA-ATGTATA
*
78240442 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 -GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
78240483 GTGTGTATAT
Statistics
Matches: 216, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
184 172 0.80
186 1 0.00
188 1 0.00
189 1 0.00
190 3 0.01
192 38 0.18
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (189 bp):
GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
CTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATCGCTAATGTGAAATATGTA
TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAGAATGTATA
Found at i:78240472 original size:232 final size:232
Alignment explanation
Indices: 78240057--78240482 Score: 771
Period size: 232 Copynumber: 1.8 Consensus size: 232
78240047 CAAGATAAAT
*
78240057 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
78240122 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
66 AGCCGAATCGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
78240187 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATA
131 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATA
78240252 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
196 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
78240289 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
78240354 AGCCGAATCGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAGGCCGAATGGCTAATGT
66 AGCCGAATCGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
78240419 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
131 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
78240483 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 185 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (232 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATCGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATA
TGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:78240669 original size:37 final size:37
Alignment explanation
Indices: 78240612--78240762 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
78240602 ACATGAAACT
*
78240612 TGGAAATATAT-TCCGAGTAAGACCCGATGACTACGTG
1 TGGAAAT-TATGTCCGGGTAAGACCCGATGACTACGTG
78240649 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
*
78240686 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
* * *
78240723 TGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
78240760 TGG
1 TGG
78240763 GGACTATTCG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 3 0.03
37 106 0.97
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:78243090 original size:18 final size:18
Alignment explanation
Indices: 78243064--78243106 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
78243054 CTTTGAATGG
*
78243064 GTTTTCCTTACACACTGA
1 GTTTCCCTTACACACTGA
78243082 GTTTCCCTTACACACTGA
1 GTTTCCCTTACACACTGA
78243100 GTTTCCC
1 GTTTCCC
78243107 CAAACTCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.37
Consensus pattern (18 bp):
GTTTCCCTTACACACTGA
Found at i:78248511 original size:20 final size:20
Alignment explanation
Indices: 78248486--78248524 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78248476 TGTATCCATA
* *
78248486 AAATTTTAGAATTTTTCATC
1 AAATTTTACAACTTTTCATC
78248506 AAATTTTACAACTTTTCAT
1 AAATTTTACAACTTTTCAT
78248525 TTTAGTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTTTACAACTTTTCATC
Found at i:78257182 original size:20 final size:22
Alignment explanation
Indices: 78257157--78257196 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
78257147 CTATATTGTA
78257157 AAGTTGTTTT-TT-TTTTAAAG
1 AAGTTGTTTTATTGTTTTAAAG
78257177 AAGTTGTTTTATTGTTTTAA
1 AAGTTGTTTTATTGTTTTAA
78257197 CTAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (22 bp):
AAGTTGTTTTATTGTTTTAAAG
Found at i:78258895 original size:40 final size:40
Alignment explanation
Indices: 78258850--78258973 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
78258840 CGGAATACAA
78258850 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
78258890 CCGGATAGAACGACTCGCACGAATGCCTTC-GG-----GC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
78258924 CCGGATATAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
78258964 CCGGATATAA
1 CCGGATATAA
78258974 TTTCCAGCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
33 2 0.03
34 25 0.37
35 2 0.03
39 3 0.04
40 36 0.53
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:78272925 original size:29 final size:30
Alignment explanation
Indices: 78272829--78272931 Score: 154
Period size: 30 Copynumber: 3.5 Consensus size: 30
78272819 GACAAGATTG
* * * * *
78272829 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
78272859 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
78272889 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
78272918 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78272932 GATTCACTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 20 0.29
30 48 0.71
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:78280862 original size:25 final size:24
Alignment explanation
Indices: 78280821--78280883 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
78280811 GATTATGTAG
78280821 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
78280846 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
78280871 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
78280884 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:78282083 original size:29 final size:29
Alignment explanation
Indices: 78282050--78282114 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
78282040 GTGACGAGAT
*
78282050 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
78282079 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
78282108 CGGCACT
1 TGGCACT
78282115 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:78284316 original size:31 final size:31
Alignment explanation
Indices: 78284260--78284376 Score: 121
Period size: 31 Copynumber: 3.8 Consensus size: 31
78284250 ATAGTGATAC
* *
78284260 ATAAAATAT-TTTAAAT-TTTTAAATATAATA
1 ATAAATTATATTTAAATAATTT-AATATAATA
*
78284290 ATAAATTATATTTAAATAATTTAATATAATG
1 ATAAATTATATTTAAATAATTTAATATAATA
* * *
78284321 ATCAATTCTATTTAAATAATCTAATATAATA
1 ATAAATTATATTTAAATAATTTAATATAATA
* * *
78284352 ATACATAAAATTTAAATTAATTTAA
1 ATAAATTATATTTAAA-TAATTTAA
78284377 GTTTTATATA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
30 8 0.11
31 53 0.75
32 10 0.14
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAAATTATATTTAAATAATTTAATATAATA
Found at i:78302914 original size:111 final size:111
Alignment explanation
Indices: 78302738--78302940 Score: 316
Period size: 111 Copynumber: 1.8 Consensus size: 111
78302728 AATGACAAAT
* *
78302738 ATAAATAATTAAATTAGGGGTGCTTCTATGAACACAATAAACATTTATCATTTTTTACGCTGTAA
1 ATAAATAATTAAATTAAGGGTGCTTCTATCAACACAATAAACATTTATCATTTTTTACGCTGTAA
*
78302803 TTAACTTAATTAGGTCAGAAAATTTTAACTACACCAAACGACGAAC
66 TTAACTTAATTAGGTCAAAAAATTTTAACTACACCAAACGACGAAC
* * ** * *
78302849 ATAAATAATTAAGTTAAGGGTGTTTCTATCAGTACAATAAACATTTGTCATTTTTTAGGCTGTAA
1 ATAAATAATTAAATTAAGGGTGCTTCTATCAACACAATAAACATTTATCATTTTTTACGCTGTAA
*
78302914 TTAACTTAATTAGGTTAAAAAATTTTA
66 TTAACTTAATTAGGTCAAAAAATTTTA
78302941 GCTATAAATA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 82 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (111 bp):
ATAAATAATTAAATTAAGGGTGCTTCTATCAACACAATAAACATTTATCATTTTTTACGCTGTAA
TTAACTTAATTAGGTCAAAAAATTTTAACTACACCAAACGACGAAC
Found at i:78310183 original size:61 final size:61
Alignment explanation
Indices: 78310066--78310190 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 61
78310056 AGAGAAATTG
* * *
78310066 ACACGGCCTGGACTTCCTTAAACGGGTAGACCACACGCTCGTGTAGTTTTAGCAGACTCTA
1 ACACGGCCTAGACTTCCTTAAACGGGTAGACCACACGCTCGTGTAGTTTTAACAGACCCTA
*
78310127 ACACGGCCTAGACTTCCTTACACGGGTAGACCACACGC-C-TGT-GTCTATTCAACAGACCCTA
1 ACACGGCCTAGACTTCCTTAAACGGGTAGACCACACGCTCGTGTAGT-T-TT-AACAGACCCTA
78310188 ACA
1 ACA
78310191 TGGTTTGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
58 2 0.04
59 4 0.07
60 3 0.05
61 48 0.84
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.22
Consensus pattern (61 bp):
ACACGGCCTAGACTTCCTTAAACGGGTAGACCACACGCTCGTGTAGTTTTAACAGACCCTA
Found at i:78311767 original size:15 final size:14
Alignment explanation
Indices: 78311749--78311851 Score: 72
Period size: 14 Copynumber: 7.2 Consensus size: 14
78311739 CTATTTAAAA
78311749 GTTTAGGGTTTATGG
1 GTTTAGGG-TTATGG
78311764 GTTTAGGGATTAT--
1 GTTTAGGG-TTATGG
*
78311777 GTTTATGGCTTAT-G
1 GTTTA-GGGTTATGG
*
78311791 GTTTAAGGGTT-GGG
1 GTTT-AGGGTTATGG
*
78311805 GTTTAAAGGTTATGG
1 GTTT-AGGGTTATGG
*
78311820 G-TTAGTGGTTAGGG
1 GTTTAG-GGTTATGG
78311834 GTTTATGGGTTATGG
1 GTTTA-GGGTTATGG
78311849 GTT
1 GTT
78311852 AATGGTTTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.14
14 31 0.44
15 29 0.41
16 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTATGG
Found at i:78311839 original size:22 final size:21
Alignment explanation
Indices: 78311814--78311881 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
78311804 GGTTTAAAGG
78311814 TTATGGGTTAGTGGTTAGGGGT
1 TTATGGGTTA-TGGTTAGGGGT
**
78311836 TTATGGGTTATGGGTTAATGGT
1 TTATGGGTTAT-GGTTAGGGGT
*
78311858 TTA-GGGTTTAATGCTTAGGGGT
1 TTATGGG-TT-ATGGTTAGGGGT
78311880 TT
1 TT
78311882 TTATTTTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.11
22 32 0.84
23 2 0.05
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.44
Consensus pattern (21 bp):
TTATGGGTTATGGTTAGGGGT
Found at i:78311856 original size:15 final size:15
Alignment explanation
Indices: 78311812--78311870 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
78311802 GGGGTTTAAA
*
78311812 GGTTATGGGTTAGT-
1 GGTTATGGGTTAATG
* *
78311826 GGTTAGGGGTTTATG
1 GGTTATGGGTTAATG
78311841 GGTTATGGGTTAATG
1 GGTTATGGGTTAATG
*
78311856 GTTTA-GGGTTTAATG
1 GGTTATGGG-TTAATG
78311871 CTTAGGGGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 14 0.38
15 23 0.62
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.42
Consensus pattern (15 bp):
GGTTATGGGTTAATG
Found at i:78311879 original size:29 final size:29
Alignment explanation
Indices: 78311777--78311880 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
78311767 TAGGGATTAT
* *
78311777 GTTT-ATGGCTTATGGTTTAAGGGTT-GGG
1 GTTTAATGG-TTATGGGTTAATGGTTAGGG
* *
78311805 GTTTAAAGGTTATGGGTTAGTGGTTAGGG
1 GTTTAATGGTTATGGGTTAATGGTTAGGG
78311834 GTTT-ATGGGTTATGGGTTAATGGTTTA-GG
1 GTTTAAT-GGTTATGGGTTAATGG-TTAGGG
* *
78311863 GTTTAATGCTTAGGGGTT
1 GTTTAATGGTTATGGGTT
78311881 TTTATTTTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
28 18 0.29
29 40 0.63
30 5 0.08
ACGTcount: A:0.17, C:0.02, G:0.38, T:0.42
Consensus pattern (29 bp):
GTTTAATGGTTATGGGTTAATGGTTAGGG
Found at i:78312085 original size:28 final size:29
Alignment explanation
Indices: 78312039--78312108 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
78312029 AATTCATACA
* *
78312039 TTTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
78312067 TTTTGTGGTTTATGG-TTAGGGGATATAG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
78312095 TTTAG-GGTTTAAGG
1 TTTTGTGGTTTAAGG
78312109 GATATAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.22
28 23 0.64
29 5 0.14
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (29 bp):
TTTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:78312137 original size:27 final size:23
Alignment explanation
Indices: 78312083--78312146 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 23
78312073 GGTTTATGGT
78312083 TAGGGGATATAGTTTAGGGTTTA
1 TAGGGGATATAGTTTAGGGTTTA
78312106 -A-GGGATATAGTTTAGGGTACTTTA
1 TAGGGGATATAGTTTAGGG---TTTA
78312130 GTAGGGGATATAGTTTA
1 -TAGGGGATATAGTTTA
78312147 ATGGTTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 16 0.46
22 1 0.03
24 4 0.11
26 1 0.03
27 13 0.37
ACGTcount: A:0.28, C:0.02, G:0.33, T:0.38
Consensus pattern (23 bp):
TAGGGGATATAGTTTAGGGTTTA
Found at i:78312138 original size:202 final size:202
Alignment explanation
Indices: 78311892--78312386 Score: 841
Period size: 202 Copynumber: 2.4 Consensus size: 202
78311882 TTATTTTGTG
* * *
78311892 GTTTAAGGTTTAGGGGATACAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
1 GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
*
78311957 TTAGAGTATTGATTAATTATTGTTATTATTTTGTGGTTTAAGGATCAAGAGATATAGTTTAGGGT
66 TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAAGAGATATAGTTTAGGGT
78312022 TATGATTAATTCATACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
131 TATGATTAATTCATACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
78312087 GGATATA
196 GGATATA
78312094 GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
1 GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
* * *
78312159 TTAGAGCATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTTGGGT
66 TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAAGAGATATAGTTTAGGGT
*
78312224 TATGATTAATTCATATATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
131 TATGATTAATTCATACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
78312289 GGATATA
196 GGATATA
* * *
78312296 GTTTAGGGTTTAAGGGATATACTTTAGGGT--TTAAGGTTATAGGGATATAGTTTAATGGTTTAA
1 GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTA-G-TA-GGGGATATAGTTTAATGGTTTAA
*
78312359 GGTTTAGAGTTTTGATTAATTAGTGTTA
63 GGTTTAGAGTATTGATTAATTAGTGTTA
78312387 ATAATATTAA
Statistics
Matches: 277, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
200 3 0.01
201 1 0.00
202 225 0.81
203 48 0.17
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (202 bp):
GTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
TTAGAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAAGAGATATAGTTTAGGGT
TATGATTAATTCATACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
GGATATA
Found at i:78312214 original size:100 final size:100
Alignment explanation
Indices: 78311882--78312223 Score: 293
Period size: 100 Copynumber: 3.4 Consensus size: 100
78311872 TTAGGGGTTT
* * * *
78311882 TTATTTTGTGGTTTAAGGTTTAGGGGATACAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
1 TTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
* *
78311947 GGTTTAAGGTTTAGAGTATTGATTAATTATTGTTA
66 GGTTTAAGGTTTAGAGCATTGATTAATTAGTGTTA
* * * **** * **
78311982 TTATTTTGTGGTTTAAGGATCAAGAGATATAGTTTAGGGT--TATGATTAATTCATACA-TTTTG
1 TTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTAGGGTACT-TTAGTAGGGGATATAGTTTAA
* ** ** * *
78312044 TGG-TTAAGGCTTAG-GGGTT-ATTGTTTTGTGGT-
65 TGGTTTAAGGTTTAGAGCATTGATTAATTAGTGTTA
* * * * *
78312076 TTATGGTTAGGGGATATAGTTTAGGGTTTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATAT
1 TTAT--TT------TGTGGTTTAAGGATCAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATAT
78312141 AGTTTAATGGTTTAAGGTTTAGAGCATTGATTAATTAGTGTTA
58 AGTTTAATGGTTTAAGGTTTAGAGCATTGATTAATTAGTGTTA
*
78312184 TTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTTGGGT
1 TTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTAGGGT
78312224 TATGATTAAT
Statistics
Matches: 176, Mismatches: 50, Indels: 32
0.68 0.19 0.12
Matches are distributed among these distances:
94 4 0.02
95 8 0.05
96 5 0.03
97 10 0.06
98 7 0.04
99 8 0.05
100 63 0.36
102 28 0.16
103 8 0.05
104 7 0.04
105 10 0.06
106 5 0.03
107 9 0.05
108 4 0.02
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (100 bp):
TTATTTTGTGGTTTAAGGATCAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
GGTTTAAGGTTTAGAGCATTGATTAATTAGTGTTA
Found at i:78312287 original size:28 final size:29
Alignment explanation
Indices: 78312236--78312310 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
78312226 TGATTAATTC
78312236 ATATA-TTTTGTGG-TTAAGGCTTAGGGG
1 ATATAGTTTTGTGGTTTAAGGCTTAGGGG
* * *
78312263 TTATTGTTTTGTGGTTTATGG-TTAGGGG
1 ATATAGTTTTGTGGTTTAAGGCTTAGGGG
*
78312291 ATATAGTTTAG-GGTTTAAGG
1 ATATAGTTTTGTGGTTTAAGG
78312311 GATATACTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 11 0.28
28 23 0.59
29 5 0.13
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.45
Consensus pattern (29 bp):
ATATAGTTTTGTGGTTTAAGGCTTAGGGG
Found at i:78312305 original size:20 final size:20
Alignment explanation
Indices: 78312276--78312331 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
78312266 TTGTTTTGTG
* *
78312276 GTTTATGGTTAGGGGATATA
1 GTTTAGGGTTAAGGGATATA
78312296 GTTTAGGGTTTAAGGGATATA
1 GTTTAGGG-TTAAGGGATATA
*
78312317 CTTTAGGGTTTAAGG
1 GTTTAGGG-TTAAGG
78312332 TTATAGGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.39
Consensus pattern (20 bp):
GTTTAGGGTTAAGGGATATA
Found at i:78312314 original size:21 final size:21
Alignment explanation
Indices: 78312288--78312331 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
78312278 TTATGGTTAG
*
78312288 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGTTTAA
78312309 GGGATATACTTTAGGGTTTAA
1 GGGATATACTTTAGGGTTTAA
78312330 GG
1 GG
78312332 TTATAGGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.34, T:0.36
Consensus pattern (21 bp):
GGGATATACTTTAGGGTTTAA
Found at i:78312333 original size:28 final size:30
Alignment explanation
Indices: 78312296--78312364 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
78312286 AGGGGATATA
*
78312296 GTTTAGGGTTTA-AGGGATATACTTT-AGG
1 GTTTAAGGTTTATAGGGATATACTTTAAGG
* *
78312324 GTTTAAGG-TTATAGGGATATAGTTTAATG
1 GTTTAAGGTTTATAGGGATATACTTTAAGG
78312353 GTTTAAGGTTTA
1 GTTTAAGGTTTA
78312365 GAGTTTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 10 0.29
30 3 0.09
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.42
Consensus pattern (30 bp):
GTTTAAGGTTTATAGGGATATACTTTAAGG
Found at i:78312395 original size:19 final size:19
Alignment explanation
Indices: 78312373--78312428 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
78312363 TAGAGTTTTG
78312373 ATTAATTAGTGTTAATAAT
1 ATTAATTAGTGTTAATAAT
* *
78312392 ATTAA-AAGT-TT--T--G
1 ATTAATTAGTGTTAATAAT
78312405 ATTAATTAGTGTTAATAAT
1 ATTAATTAGTGTTAATAAT
78312424 ATTAA
1 ATTAA
78312429 GTATTTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 3 0.11
17 3 0.11
18 3 0.11
19 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
ATTAATTAGTGTTAATAAT
Found at i:78312402 original size:32 final size:33
Alignment explanation
Indices: 78312366--78312444 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 33
78312356 TAAGGTTTAG
78312366 AGTTTTGATTAATTAGTGTTAATAATATTAA-A
1 AGTTTTGATTAATTAGTGTTAATAATATTAAGA
*
78312398 AGTTTTGATTAATTAGTGTTAATAATATTAAGT
1 AGTTTTGATTAATTAGTGTTAATAATATTAAGA
78312431 A-TTTTGATTAATTA
1 AGTTTTGATTAATTA
78312445 ATAATATTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 44 0.98
33 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (33 bp):
AGTTTTGATTAATTAGTGTTAATAATATTAAGA
Found at i:78315597 original size:14 final size:13
Alignment explanation
Indices: 78315574--78315603 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
78315564 ATTACTATAA
78315574 TAATTATATGAAG
1 TAATTATATGAAG
78315587 TAATATATATGAAG
1 TAAT-TATATGAAG
78315601 TAA
1 TAA
78315604 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:78316646 original size:2 final size:2
Alignment explanation
Indices: 78316639--78316666 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
78316629 GTTGACATTG
78316639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78316667 CATTCGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78317190 original size:29 final size:29
Alignment explanation
Indices: 78317157--78317248 Score: 175
Period size: 29 Copynumber: 3.2 Consensus size: 29
78317147 GTGACGAGAT
78317157 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
78317186 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
78317215 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
78317244 CGGCA
1 TGGCA
78317249 TGGGTGTGCG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:78325021 original size:29 final size:29
Alignment explanation
Indices: 78324988--78325052 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
78324978 GTGACGAGAT
78324988 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
78325017 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
78325046 CGGCACT
1 TGGCACT
78325053 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:78333178 original size:33 final size:33
Alignment explanation
Indices: 78333130--78333209 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 33
78333120 AGAATTAATA
* *
78333130 TTTTTGGTTGTATTTTTTATGCTAAATTTGTTG
1 TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
* *
78333163 TTTTTGGCTGCA--TTTTATACTATATTTGTTG
1 TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
* *
78333194 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
78333210 AATGCAGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.68
33 12 0.32
ACGTcount: A:0.15, C:0.05, G:0.19, T:0.61
Consensus pattern (33 bp):
TTTTTGGTTGCATTTTTTATACTAAATTTGTTG
Found at i:78333311 original size:43 final size:43
Alignment explanation
Indices: 78333264--78333492 Score: 271
Period size: 43 Copynumber: 5.3 Consensus size: 43
78333254 TCTGTCAAAA
* * *
78333264 TTAGCGGTGTTTTCCAAAAAAACGCCGCTAAAAGCCATGACTT
1 TTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
* * *
78333307 TTAGCGGTGCTTTCCCCAACAAACGCCGCTAAAAGACATGACTT
1 TTAGCGGCG-TTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
* *
78333351 TTAGCGGCGCTTTCCCAACAAACGCTGCTAAAAGCCATGACTT
1 TTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
* * * * *
78333394 TTAGCGGCGCTTTCCCAACAAATGCCGCTAAAAGTCGTGGCTT
1 TTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
* ** *
78333437 TTAGCAGCGATTTT-TTAACAAACGCCGCTAAAAGCCACGACTT
1 TTAGCGGCG-TTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
*
78333480 TTAGCGGCATTTT
1 TTAGCGGCGTTTT
78333493 TTTTACATAA
Statistics
Matches: 159, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.03
43 114 0.72
44 41 0.26
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTTCCCAACAAACGCCGCTAAAAGCCATGACTT
Found at i:78340477 original size:18 final size:19
Alignment explanation
Indices: 78340454--78340489 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78340444 AACTTGGCAC
*
78340454 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
78340472 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
78340490 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:78340819 original size:30 final size:30
Alignment explanation
Indices: 78340785--78340845 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78340775 TCCTTAACTC
78340785 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78340815 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78340845 A
1 A
78340846 GGGTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78354127 original size:48 final size:46
Alignment explanation
Indices: 78354073--78354196 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 46
78354063 AGAGTTGTCT
*
78354073 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CAGAAATGAGAGCC
* * * *
78354121 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAAATGAGAGCC
**
78354169 AAAGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
78354197 GATCTCAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 5 0.08
47 13 0.20
48 27 0.41
49 13 0.20
50 8 0.12
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACAGAAATGAGAGCC
Found at i:78354223 original size:47 final size:46
Alignment explanation
Indices: 78354073--78354287 Score: 142
Period size: 47 Copynumber: 4.6 Consensus size: 46
78354063 AGAGTTGTCT
*
78354073 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-A-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G-ACGCA-ACAGA-GATAGCC
*
78354121 AGTGTAAGACCATGTCTAGGACATGGCATCG--GC-ACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACGCAACAGAGAT-A--GCC
** *
78354169 AAAGTAAGACATGTCTGGGACATGCATCGATCTCAACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CGCAACAGAGATAGCC
* * * * * * *
78354216 AGTGTAAGACGTGTCAGGGATACGCATCG--GCTA-AGAG-TTGTTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACGCAACAGAGATAG--CC
*
78354260 AGTGTAAGACATGTCTAGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
78354288 AACACGCATA
Statistics
Matches: 133, Mismatches: 21, Indels: 30
0.72 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.03
44 27 0.20
45 3 0.02
46 10 0.08
47 39 0.29
48 19 0.14
49 16 0.12
50 13 0.10
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACGCAACAGAGATAGCC
Found at i:78356184 original size:7 final size:7
Alignment explanation
Indices: 78356143--78356185 Score: 56
Period size: 6 Copynumber: 6.4 Consensus size: 7
78356133 TTTTGATTAT
78356143 TTTAGGG
1 TTTAGGG
78356150 -TTAGGG
1 TTTAGGG
78356156 -TTAGGG
1 TTTAGGG
78356162 -TTAGGG
1 TTTAGGG
78356168 TTTAGTGG
1 TTTAG-GG
78356176 TTTAGGG
1 TTTAGGG
78356183 TTT
1 TTT
78356186 TTAAGGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.53
7 9 0.26
8 7 0.21
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:78359849 original size:46 final size:45
Alignment explanation
Indices: 78359791--78359918 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 45
78359781 ATTGAGATGA
* *
78359791 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGAC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
* *
78359835 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
* *
78359881 GTGTCAGTGTAAGACCATGTATGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
78359919 ACAGATATGC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
44 13 0.18
45 15 0.21
46 43 0.61
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
Found at i:78359915 original size:92 final size:93
Alignment explanation
Indices: 78359750--78359918 Score: 222
Period size: 92 Copynumber: 1.8 Consensus size: 93
78359740 TGTGTGAGCT
* * *
78359750 GTGTAAACCATGTCTGGGATATGGCATCAGCATTGAGATGAGTGCTAGTGTAAGACATGTCTAGG
1 GTGTAAACCATGTCTGGGACATGGCATCAGCATCGAGATGAGTGCTAGTGTAAGACATGTATAGG
78359815 ACATGCATCGGCCTCGAGACGTAAGCCA
66 ACATGCATCGGCCTCGAGACGTAAGCCA
*
78359843 GTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TACGAGATGTGT-C-AGTGTAAGACCATGTAT
1 GTGTAA-ACCATGTCTGGGACATGGCATCAGCAT-CGAGATGAGTGCTAGTGTAAGA-CATGTAT
*
78359903 GGGACATGGCATCGGC
63 AGGACAT-GCATCGGC
78359919 ACAGATATGC
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
90 9 0.13
91 14 0.21
92 24 0.36
93 19 0.28
94 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
GTGTAAACCATGTCTGGGACATGGCATCAGCATCGAGATGAGTGCTAGTGTAAGACATGTATAGG
ACATGCATCGGCCTCGAGACGTAAGCCA
Found at i:78361982 original size:33 final size:33
Alignment explanation
Indices: 78361945--78362011 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
78361935 GAAAATGAGA
78361945 ATGTTGTACTTGAAAAATGTAGGTGAACATGAC
1 ATGTTGTACTTGAAAAATGTAGGTGAACATGAC
78361978 ATGTTGTACTTGAAAAATGTAGGTGAACATGAC
1 ATGTTGTACTTGAAAAATGTAGGTGAACATGAC
78362011 A
1 A
78362012 AGTGTATTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (33 bp):
ATGTTGTACTTGAAAAATGTAGGTGAACATGAC
Found at i:78363234 original size:49 final size:49
Alignment explanation
Indices: 78363174--78363462 Score: 515
Period size: 49 Copynumber: 5.9 Consensus size: 49
78363164 GTATGAGATA
*
78363174 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78363223 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
78363272 TATATATGTGATAAGGCCTAATGACCGATGTGACGAAAGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78363321 TATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78363370 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
78363419 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
78363463 TATATGTGTG
Statistics
Matches: 230, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 230 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:78363603 original size:37 final size:37
Alignment explanation
Indices: 78363549--78363676 Score: 238
Period size: 37 Copynumber: 3.4 Consensus size: 37
78363539 AACTTGGAAA
*
78363549 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
78363587 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
78363624 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
78363661 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
78363677 TTCGTAATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
37 85 0.96
38 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:78366098 original size:40 final size:40
Alignment explanation
Indices: 78366039--78366180 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
78366029 AAATTGAATG
* * *
78366039 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
78366079 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
78366119 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
78366159 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
78366181 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:78366181 original size:40 final size:39
Alignment explanation
Indices: 78366078--78366206 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
78366068 TGCTGGAAAT
* * *
78366078 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
78366118 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
78366158 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
78366198 TATATCCGG
1 TATATCCGG
78366207 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:78368786 original size:40 final size:40
Alignment explanation
Indices: 78368731--78369002 Score: 472
Period size: 40 Copynumber: 6.8 Consensus size: 40
78368721 GAGAATTGAG
*
78368731 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
78368771 AGTGACGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
78368811 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
78368851 AGTGACGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
78368891 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
78368931 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
78368971 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
78369003 ATCATGCTGG
Statistics
Matches: 220, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:78372666 original size:49 final size:49
Alignment explanation
Indices: 78372606--78372950 Score: 555
Period size: 49 Copynumber: 6.9 Consensus size: 49
78372596 GTATGAGATA
*
78372606 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78372655 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78372704 TATATATGTGATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTG
1 ----TA--T-ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
78372760 TATATATGTGATAAGGCCTAATGGCCGATGTGACGAAAGTTAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
78372809 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
78372858 TATTTATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
78372907 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
78372951 TATATGTGTG
Statistics
Matches: 278, Mismatches: 11, Indels: 14
0.92 0.04 0.05
Matches are distributed among these distances:
49 226 0.81
50 1 0.00
52 2 0.01
53 2 0.01
55 1 0.00
56 46 0.17
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:78372771 original size:27 final size:27
Alignment explanation
Indices: 78372682--78372771 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
78372672 CTAATGGCCA
78372682 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
**
78372709 ATGTGAT--ATGTGATAAG-GCCTA-AT
1 ATGTGATGAATGTGA-AAGTGTGTATAT
78372733 GGCCAATGTGATGAATGTGAAAGTGTGTATAT
1 -----ATGTGATGAATGTGAAAGTGTGTATAT
78372765 ATGTGAT
1 ATGTGAT
78372772 AAGGCCTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 9 0.18
26 3 0.06
27 14 0.29
29 7 0.14
30 3 0.06
31 9 0.18
32 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:78376935 original size:28 final size:28
Alignment explanation
Indices: 78376895--78376965 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
78376885 TATAGTAAGT
* *
78376895 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCTCACTTAGTGCTAT-ACAATCAAAC
*
78376923 TCGCTCACTTAGTGCTATACAATTAAAC
1 TCGCTCACTTAGTGCTATACAATCAAAC
78376951 TCGCAT-ACTTAGTGC
1 TCGC-TCACTTAGTGC
78376966 CGAAAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (28 bp):
TCGCTCACTTAGTGCTATACAATCAAAC
Found at i:78381328 original size:46 final size:46
Alignment explanation
Indices: 78381277--78381536 Score: 203
Period size: 46 Copynumber: 5.6 Consensus size: 46
78381267 ATACGAACTT
*
78381277 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTC
* * * * *
78381323 ATTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAGCTC
* ** * *
78381370 GTTGACTTGAGTCTAAGTTCACTTATGGATGCGAACGTCCAAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTC
* * * * *
78381416 GTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCTGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCGAGCTC
* *
78381463 GTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTC
*
78381509 GTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GTTGAGTTGAGTCCGAGTTCACTTATGG
78381537 GTAGGTTACA
Statistics
Matches: 165, Mismatches: 31, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
42 6 0.04
43 8 0.05
45 6 0.04
46 76 0.46
47 49 0.30
48 6 0.04
50 8 0.05
51 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTC
Found at i:78381382 original size:47 final size:47
Alignment explanation
Indices: 78381314--78381476 Score: 147
Period size: 47 Copynumber: 3.5 Consensus size: 47
78381304 GATGCGAACG
*
78381314 TCCGAACTCATTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
* * * * * *
78381361 TCCGAGCTCGTTGACTTGAGTCTAAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCA
* **
78381407 TCCAAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
* *
78381454 TCTGAGCTCGTTGAGTTGAGTCC
1 TCCGAACTCGTTGAGTTGAGTCC
78381477 GAATTCACTT
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 25 0.28
47 44 0.49
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCA
Found at i:78381423 original size:93 final size:93
Alignment explanation
Indices: 78381277--78381529 Score: 400
Period size: 93 Copynumber: 2.7 Consensus size: 93
78381267 ATACGAACTT
* * *
78381277 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTTGAGTCCAAGTT
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTT
78381342 CGTGAGATGTAACTAGGCATCCGAGCTC
66 CGTGAGATGTAACTAGGCATCCGAGCTC
* * * *
78381370 GTTGACTTGAGTCTAAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGTTGAGTCTGAGTT
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTT
*
78381435 CGTGAGATGTAACTAGGCATCTGAGCTC
66 CGTGAGATGTAACTAGGCATCCGAGCTC
* *
78381463 GTTGAGTTGAGTCCGAA-TTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGT
1 GTTGAGTTGAGTCC-AAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGT
78381527 TCG
65 TCG
78381530 CTTATGGGTA
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
93 143 0.99
94 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTT
CGTGAGATGTAACTAGGCATCCGAGCTC
Found at i:78388948 original size:27 final size:28
Alignment explanation
Indices: 78388918--78389017 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
78388908 TTTAGTTTAC
78388918 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
78388945 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
78388972 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
78388999 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
78389018 CCGATTTACA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.11
27 54 0.86
28 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:78389017 original size:54 final size:54
Alignment explanation
Indices: 78388918--78389024 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
78388908 TTTAGTTTAC
* * *
78388918 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
78388972 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
78389025 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:78389032 original size:27 final size:27
Alignment explanation
Indices: 78389002--78389062 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
78388992 CGACTTGTAA
78389002 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
78389029 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
78389056 AATTACC
1 AATTACC
78389063 GTTTTACCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:78389063 original size:27 final size:27
Alignment explanation
Indices: 78389013--78389223 Score: 278
Period size: 27 Copynumber: 7.8 Consensus size: 27
78389003 ATTACCAAAG
*
78389013 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
78389040 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
78389067 TACCCCCAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
78389094 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
78389121 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
78389148 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
78389175 TACCTTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
78389202 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
78389224 TAAAATACCC
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:78389232 original size:27 final size:27
Alignment explanation
Indices: 78389094--78389425 Score: 107
Period size: 27 Copynumber: 12.2 Consensus size: 27
78389084 ATTATCGTTT
* * ****
78389094 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* *****
78389121 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
78389148 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ****
78389175 TACCTTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
78389202 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
78389229 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
78389256 TA-ACTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
78389283 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
78389310 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
78389337 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
78389364 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
78389393 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
78389420 TACCCT
1 TACCCT
78389426 TGGTTTGTAG
Statistics
Matches: 248, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.02
27 216 0.87
28 9 0.04
29 19 0.08
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:78389249 original size:54 final size:54
Alignment explanation
Indices: 78389000--78389358 Score: 180
Period size: 54 Copynumber: 6.6 Consensus size: 54
78388990 TTCGACTTGT
* * ** * *
78389000 AAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* ***** *** * * *
78389054 ATAATTACCGTTTTACCCCCAATTTACATAATTATCGTTTTACCCTCGACTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* **** * * *
78389108 AGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* *** * * *
78389162 AGAATTACTATTTTACCTTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* ** **** * * **
78389216 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-ACTCTAGTTTGT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGA-TTTAC
* * *** *** * **
78389270 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* * *
78389324 AAAATTACCAAAATACCCCTGATTTACAAAGTTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTAC
78389359 AGAAATACCC
Statistics
Matches: 251, Mismatches: 52, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
53 4 0.02
54 243 0.97
55 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.35
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:78389428 original size:27 final size:27
Alignment explanation
Indices: 78389202--78389431 Score: 140
Period size: 27 Copynumber: 8.4 Consensus size: 27
78389192 ATTACTGTTT
* * **
78389202 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
** *
78389229 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* * ** *
78389256 TA-ACTCTAGTTTGTAAAATTACCAAAA
1 TACCCT-TGGTTTACAAAATTACCGAAA
***
78389283 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
*** ** *
78389310 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* * * *
78389337 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* **
78389364 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCGAAA
* *
78389393 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
78389420 TACCCTTGGTTT
1 TACCCTTGGTTT
78389432 GTAGATTTAC
Statistics
Matches: 164, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 135 0.82
28 8 0.05
29 19 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCGAAA
Found at i:78389515 original size:27 final size:27
Alignment explanation
Indices: 78389485--78389576 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
78389475 ACCCCTATTA
*
78389485 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
78389512 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
78389539 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
78389566 GGTAAAATGAC
1 GGTAAAATGAC
78389577 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:78390450 original size:25 final size:26
Alignment explanation
Indices: 78390379--78390450 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
78390369 GAGGAAGTGC
*
78390379 AAAAGGGCTTACGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
78390405 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
78390431 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
78390451 ATTAAAGAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:78390654 original size:42 final size:42
Alignment explanation
Indices: 78390595--78390686 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
78390585 TAGTCTCCCC
* ** * *
78390595 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
78390637 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
78390679 AAATGGGC
1 AAATGGGC
78390687 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:78390745 original size:31 final size:31
Alignment explanation
Indices: 78390710--78390788 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
78390700 CGTTTACAGT
78390710 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
78390741 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
78390772 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
78390789 AATCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:78396983 original size:40 final size:40
Alignment explanation
Indices: 78396909--78397066 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
78396899 TCGAATGATG
* * *
78396909 TCCGGGCTAAG-TCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
78396949 TCCAGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
78396989 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
78397029 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
78397067 TAACCGGGCT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 96 0.91
41 9 0.08
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78397074 original size:40 final size:40
Alignment explanation
Indices: 78396909--78397094 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
78396899 TCGAATGATG
* * *
78396909 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
78396949 TCC-AGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
78396989 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
78397029 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
78397070 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
78397095 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.02
40 116 0.90
41 11 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78397108 original size:40 final size:40
Alignment explanation
Indices: 78397002--78397113 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
78396992 GGACTAAGAT
** *
78397002 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
78397042 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
78397082 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
78397114 TTAAACTCCG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 59 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:78400123 original size:2 final size:2
Alignment explanation
Indices: 78400110--78400147 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
78400100 TCGTTATGTA
*
78400110 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78400148 GCATAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78406049 original size:43 final size:42
Alignment explanation
Indices: 78405993--78406483 Score: 337
Period size: 43 Copynumber: 11.4 Consensus size: 42
78405983 ATTATACTGA
* * * * *
78405993 CACACACAATGCATCATCTAATATATCGAAGTATCTATATGGG
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTATAT-GG
78406036 CACATACAGTGCATCATC-AGATAAACCGAAGTATCTATATTGG
1 CACATACAGTGCATCATCGA-ATAAACCGAAGTATCTATA-TGG
* * * * * **
78406079 CACATATAGTGCATTATCGAATATACTGAAGTAACTATCCGGG
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTAT-ATGG
* * * *
78406122 CACACACAGTGCATAATCGGATAAATC-ATAGTATCTATACTGG
1 CACATACAGTGCATCATCGAATAAACCGA-AGTATCTATA-TGG
* * * * * * *
78406165 CACATATAGTTCATCAACGGATAAACCAAAGTATCTTTATTGC
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTATA-TGG
* * *
78406208 CACATACAGTGCATCATC-AGATATACTGAAGTATCTATACTGA
1 CACATACAGTGCATCATCGA-ATAAACCGAAGTATCTATA-TGG
* * *
78406251 CACACACAGTGCATAATC-AGATAAACCAAAGTATCTATATTGG
1 CACATACAGTGCATCATCGA-ATAAACCGAAGTATCTATA-TGG
* * * *
78406294 CACATGCAGTGCATCATCGGATATACCGAAGTAACTATACTGG
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTATA-TGG
* * * * * *
78406337 CACATACAATGTATCATCGGATAAATC-AATTTTTTTCTAT-TGG
1 CACATACAGTGCATCATCGAATAAACCGAA---GTATCTATATGG
* * * * * * *
78406380 CACATATATTGCATCATCGGATATATCGAAGTAACTATACTAG
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTATA-TGG
* * * *
78406423 CACACACATTGCATCATCGAATAAACCAAAGTATCTACACTGG
1 CACATACAGTGCATCATCGAATAAACCGAAGTATCTATA-TGG
78406466 CACATACAGTGCATCATC
1 CACATACAGTGCATCATC
78406484 TGATATACTG
Statistics
Matches: 351, Mismatches: 82, Indels: 30
0.76 0.18 0.06
Matches are distributed among these distances:
41 5 0.01
42 4 0.01
43 332 0.95
44 5 0.01
45 5 0.01
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (42 bp):
CACATACAGTGCATCATCGAATAAACCGAAGTATCTATATGG
Found at i:78406092 original size:86 final size:86
Alignment explanation
Indices: 78405985--78406496 Score: 479
Period size: 86 Copynumber: 6.0 Consensus size: 86
78405975 TCGATGTAAT
* * * * * * * *
78405985 TATACTGACACACACAATGCATCATCTAATATATCGAAGTATCTATATGGGCACATACAGTGCAT
1 TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
* *
78406050 CATCAGATAAACCGAAGTATC
66 CATCGGATATACCGAAGTATC
* * * * ** * *** *
78406071 TATATTGGCACATATAGTGCATTATCGAATATACTGAAGTAACTATCCGGGCACACACAGTGCAT
1 TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
* * *
78406136 AATCGGATAAATC-ATAGTATC
66 CATCGGATATACCGA-AGTATC
* * * * * *
78406157 TATACTGGCACATATAGTTCATCAACGGATAAACCAAAGTATCTTTATTGCCACATACAGTGCAT
1 TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
* *
78406222 CATCAGATATACTGAAGTATC
66 CATCGGATATACCGAAGTATC
* * * *
78406243 TATACTGACACACACAGTGCATAATC-AGATAAACCAAAGTATCTATATTGGCACATGCAGTGCA
1 TATACTGGCACATACAGTGCATCATCGA-ATAAACCAAAGTATCTATATTGGCACATACAGTGCA
*
78406307 TCATCGGATATACCGAAGTAAC
65 TCATCGGATATACCGAAGTATC
* * * * ** * * * * *
78406329 TATACTGGCACATACAATGTATCATCGGATAAATCAATTTTTTTCTATTGGCACATATATTGCAT
1 TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
* *
78406394 CATCGGATATATCGAAGTAAC
66 CATCGGATATACCGAAGTATC
* * * * *
78406415 TATACTAGCACACACATTGCATCATCGAATAAACCAAAGTATCTACACTGGCACATACAGTGCAT
1 TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
* *
78406480 CATCTGATATACTGAAG
66 CATCGGATATACCGAAG
78406497 CCTAATCGAA
Statistics
Matches: 339, Mismatches: 83, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
85 1 0.00
86 337 0.99
87 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (86 bp):
TATACTGGCACATACAGTGCATCATCGAATAAACCAAAGTATCTATATTGGCACATACAGTGCAT
CATCGGATATACCGAAGTATC
Done.