Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
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 121 of 438
Found at i:35517542 original size:40 final size:40
Alignment explanation
Indices: 35517392--35517543 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
35517382 GTAGTGATTC
* * * ** *
35517392 GCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
* *
35517432 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT-A
*
35517473 -CACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
* *
35517512 GCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35517544 CATTCCAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 91 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACTA
Found at i:35525464 original size:40 final size:40
Alignment explanation
Indices: 35525381--35525588 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
35525371 CGGGATTTAA
* * * * * *
35525381 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
35525421 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
35525461 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
35525501 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
35525541 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
35525581 CCGGATAT
1 CCGGATAT
35525589 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:35525501 original size:80 final size:80
Alignment explanation
Indices: 35525407--35525588 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
35525397 GCTCGATTGT
* * *** * * * **
35525407 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
35525472 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
35525487 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
35525552 TACTAGCATAATTGC
66 AACTAGCACAAATGC
35525567 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35525589 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:35532332 original size:43 final size:42
Alignment explanation
Indices: 35532261--35532385 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 42
35532251 ATCACATGTA
* * *
35532261 CCGCATCCATTATGAACTCGGACGACTCAACGAGCTCGGATG
1 CCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
*
35532303 CTCGCATCCATAATGAACTCAGACCACTCAACGAGCTTGGATG
1 C-CGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
** ** * * *
35532346 CCATATATATCATGAACTCAGACCACTCAAAGAGTTCGGA
1 CCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGA
35532386 CTTCTTAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 32 0.46
43 38 0.54
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (42 bp):
CCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
Found at i:35532374 original size:42 final size:43
Alignment explanation
Indices: 35532272--35532385 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
35532262 CGCATCCATT
* * * *
35532272 ATGAACTCGGACGACTCAACGAGCTCGGATGCTCGCATCCATA
1 ATGAACTCAGACCACTCAACGAGCTCGGATGCTCACATACATA
* * * *
35532315 ATGAACTCAGACCACTCAACGAGCTTGGATGC-CATATATATC
1 ATGAACTCAGACCACTCAACGAGCTCGGATGCTCACATACATA
* *
35532357 ATGAACTCAGACCACTCAAAGAGTTCGGA
1 ATGAACTCAGACCACTCAACGAGCTCGGA
35532386 CTTCTTAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (43 bp):
ATGAACTCAGACCACTCAACGAGCTCGGATGCTCACATACATA
Found at i:35536352 original size:28 final size:28
Alignment explanation
Indices: 35536306--35536374 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35536296 TTTAAAACCC
*
35536306 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
35536333 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
35536361 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
35536375 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:35538026 original size:20 final size:20
Alignment explanation
Indices: 35538003--35538040 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35537993 CACATCCAAA
*
35538003 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
35538023 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
35538041 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:35544362 original size:28 final size:28
Alignment explanation
Indices: 35544316--35544384 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35544306 TTTAAAACCC
*
35544316 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
35544343 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
35544371 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
35544385 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:35546036 original size:20 final size:20
Alignment explanation
Indices: 35546013--35546050 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35546003 CACATCCAAA
*
35546013 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
35546033 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
35546051 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:35549432 original size:49 final size:48
Alignment explanation
Indices: 35549287--35549546 Score: 400
Period size: 49 Copynumber: 5.4 Consensus size: 48
35549277 TACATATATG
* * * *
35549287 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
*
35549334 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
35549381 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
*
35549430 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
*
35549479 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATA
35549528 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
35549547 TAATGTAAAA
Statistics
Matches: 203, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 83 0.41
49 119 0.59
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTATA
Found at i:35549698 original size:37 final size:37
Alignment explanation
Indices: 35549648--35549769 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
35549638 GGAAAATGTT
*
35549648 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
35549685 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
35549722 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
35549759 CCGGGTAAGAC
1 CCGGGTAAGAC
35549770 TTCGTAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:35554846 original size:30 final size:29
Alignment explanation
Indices: 35554805--35554940 Score: 130
Period size: 29 Copynumber: 4.7 Consensus size: 29
35554795 TGTATAAGTG
* * * *
35554805 AGCCATTGTGGTGATCTATGTTAAAATGGA
1 AGCCTTTGTGGTAATCTCTGTTAAAA-GAA
*
35554835 AGCCTTTGTGGTAATCTCTGTTATAAGAA
1 AGCCTTTGTGGTAATCTCTGTTAAAAGAA
* * * *
35554864 AGCGC-TTGTGGTGATTTCTATTATAAGAA
1 AGC-CTTTGTGGTAATCTCTGTTAAAAGAA
* * *
35554893 AGCCTTTGTGGCAATATCTGTTAAAAGGA
1 AGCCTTTGTGGTAATCTCTGTTAAAAGAA
*
35554922 AGCCTTTGTGGCAATCTCT
1 AGCCTTTGTGGTAATCTCT
35554941 ACTGAAAGGA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
28 1 0.01
29 65 0.73
30 23 0.26
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (29 bp):
AGCCTTTGTGGTAATCTCTGTTAAAAGAA
Found at i:35554948 original size:29 final size:29
Alignment explanation
Indices: 35554892--35554963 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
35554882 TATTATAAGA
**
35554892 AAGCCTTTGTGGCAATATCTGTTAAAAGG
1 AAGCCTTTGTGGCAATATCTACTAAAAGG
* *
35554921 AAGCCTTTGTGGCAATCTCTACTGAAAGG
1 AAGCCTTTGTGGCAATATCTACTAAAAGG
*
35554950 AATGCCTCTGTGGC
1 AA-GCCTTTGTGGC
35554964 GCAATAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (29 bp):
AAGCCTTTGTGGCAATATCTACTAAAAGG
Found at i:35557169 original size:48 final size:48
Alignment explanation
Indices: 35557112--35557242 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
35557102 CTTGCACAAT
* * * *
35557112 AAGTACCTATACTATGGCCTAAAGCCAAATCAAGGTAACTTATCTTCG
1 AAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTAACTCATCTCCG
* *
35557160 GAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTGACTCATCTCCG
1 AAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTAACTCATCTCCG
*
35557208 AAATACCTATACCATGG-C-GAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTA
35557243 TGACTCGCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 16 0.22
47 1 0.01
48 57 0.77
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTAACTCATCTCCG
Found at i:35561481 original size:2 final size:2
Alignment explanation
Indices: 35561474--35561500 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35561464 CAACCTCACG
35561474 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
35561501 CATAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35562214 original size:43 final size:43
Alignment explanation
Indices: 35562166--35562375 Score: 208
Period size: 43 Copynumber: 4.9 Consensus size: 43
35562156 GACCTTTAGA
* * * *
35562166 AAATGCCACTATAGAACATGACCTTTAGCGGTACTTTTCTCAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
* *
35562209 AAATGCCGCTAAAGAACATGACCTTTAGTGGTGC-TTTCCCAT
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
* * ***
35562251 AAATGCTGCTAAAGAATATGACCTTTAGCGACAC-TTTCCCAAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCC-AC
*** * * * *
35562294 AAACAACTCTAAAGAACATGACCTTTAGTGGCGCTTTCCCCAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
***
35562337 AAACAACGCTAAAGAACATGACCTTTAGCGGTGCTTTTC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTC
35562376 TCAAAAACCT
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 40 0.29
43 93 0.67
44 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCCCAC
Found at i:35582836 original size:71 final size:72
Alignment explanation
Indices: 35582756--35582967 Score: 259
Period size: 71 Copynumber: 3.0 Consensus size: 72
35582746 AGAATAAATG
*
35582756 GTTCCACTTAATATCAAAACTCAATAAGTTGAACTAAATTAACCTTTTTAAAAATTCATAATTAA
1 GTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAA
35582821 ATAAAC-
66 ATAAACA
* ** ** * ** * * *
35582827 TTTTTACTTAATATCAAATTTCAAAAAATCAAACTAAATTAAGC-TTTTGAAAATGT-ATAACTA
1 GTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAAT-TCATAATTA
35582890 AATAAACA
65 AATAAACA
* **
35582898 GTTCCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACACATAATTAA
1 GTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAA
35582963 ATAAA
66 ATAAA
35582968 TGATTTTACT
Statistics
Matches: 111, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
70 22 0.20
71 69 0.62
72 20 0.18
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (72 bp):
GTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAA
ATAAACA
Found at i:35584950 original size:22 final size:22
Alignment explanation
Indices: 35584925--35584970 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
35584915 AACATATAAT
*
35584925 TAAATTAA-TCAAAATTTACAAA
1 TAAA-TAATTCAAAAATTACAAA
*
35584947 TAAATAATTCAAAAATTGCAAA
1 TAAATAATTCAAAAATTACAAA
35584969 TA
1 TA
35584971 GCAGCACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATAATTCAAAAATTACAAA
Found at i:35590041 original size:11 final size:11
Alignment explanation
Indices: 35590025--35590063 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
35590015 GAAAGAGAGG
35590025 TTGATTTTTGC
1 TTGATTTTTGC
*
35590036 TTGATTTTAGC
1 TTGATTTTTGC
*
35590047 TTGATTCTTGC
1 TTGATTTTTGC
35590058 TTGATT
1 TTGATT
35590064 GAAGCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (11 bp):
TTGATTTTTGC
Found at i:35599134 original size:28 final size:28
Alignment explanation
Indices: 35599073--35599170 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
35599063 TCACAAATTG
** * *
35599073 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
35599102 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
35599130 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
35599158 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35599171 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:35605706 original size:37 final size:38
Alignment explanation
Indices: 35605664--35605741 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
35605654 AGGGAAGGAA
*
35605664 AAATATTATAA-TTTAGGGTTGAAAAGGAATTGAAATC
1 AAATATTATAATTTTAGGGTTGAAAAGGAATTAAAATC
* *
35605701 AAATATTTTAATTTTTAGTGTTGAAAAGGAATTAAAATC
1 AAATATTATAA-TTTTAGGGTTGAAAAGGAATTAAAATC
35605740 AA
1 AA
35605742 TGTATGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 10 0.28
39 26 0.72
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (38 bp):
AAATATTATAATTTTAGGGTTGAAAAGGAATTAAAATC
Found at i:35608001 original size:30 final size:30
Alignment explanation
Indices: 35607967--35608027 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35607957 TTCTCGAGCC
35607967 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
35607997 TAGGGGCAAAATTGTAAATTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
35608027 T
1 T
35608028 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:35609554 original size:27 final size:27
Alignment explanation
Indices: 35609420--35609544 Score: 180
Period size: 27 Copynumber: 4.6 Consensus size: 27
35609410 AAAGTACTCC
*
35609420 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
35609447 C-AGTTTATAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
35609474 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
35609501 AGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
35609528 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
35609545 AAAATACCCT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:35610120 original size:28 final size:28
Alignment explanation
Indices: 35610088--35610157 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
35610078 GCGTAGATCA
35610088 CGAAATTACCCCTAGAGAGCAAAATTAC
1 CGAAATTACCCCTAGAGAGCAAAATTAC
*
35610116 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAGAGAGCAAAATTAC
*
35610144 CGATA-TACCCCTAG
1 CGAAATTACCCCTAG
35610158 GGTTTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAGAGAGCAAAATTAC
Found at i:35611865 original size:28 final size:27
Alignment explanation
Indices: 35611833--35611917 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
35611823 TAACTTCGAT
35611833 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
* *
35611860 CAACGTGTATCAG-A-T-AGT-TAGG-T-
1 C-ACGTGTGT-AGTACTAAGTGCAGGCTA
35611883 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
35611910 CTACGTGT
1 C-ACGTGT
35611918 ACCGGATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 17
0.68 0.06 0.26
Matches are distributed among these distances:
21 2 0.04
22 8 0.18
23 2 0.04
24 4 0.09
25 6 0.13
26 4 0.09
27 3 0.07
28 14 0.31
29 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (27 bp):
CACGTGTGTAGTACTAAGTGCAGGCTA
Found at i:35613916 original size:39 final size:39
Alignment explanation
Indices: 35613862--35614055 Score: 307
Period size: 39 Copynumber: 5.0 Consensus size: 39
35613852 AAGACACTGA
* *
35613862 AAATGTATCCAGGCTAAAGTCCCGCAGGCATCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
35613901 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
35613940 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
35613979 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
35614018 AAATGTATCCGGGTTAAAGTCTCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
35614056 ATAATATAAT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:35624117 original size:30 final size:31
Alignment explanation
Indices: 35624073--35624136 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
35624063 TTATTTTACG
* *
35624073 TATATACTTCCTTTTAAGTCTATTTAT-ATT
1 TATATACTTCCTTTTAAATCTATATATAATT
* *
35624103 TATATATTTTCTTTTAAATCTATATATAATT
1 TATATACTTCCTTTTAAATCTATATATAATT
35624134 TAT
1 TAT
35624137 CTTTTAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (31 bp):
TATATACTTCCTTTTAAATCTATATATAATT
Found at i:35628624 original size:83 final size:84
Alignment explanation
Indices: 35628468--35628628 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 84
35628458 TGAATGATAA
* ** * *
35628468 TGAAGATCCTCTCTACACCCCTAGTTTCACCCTGAAAAATGCTTAAACACAACCCGAGATGCACA
1 TGAAAATCCTCTCTACACCCCTAGTTTCACCCCAAAAAATGCTCAAACACAACCCGAGATCCACA
**
35628533 TGCAAAGGCCATCTGTTAC
66 CACAAAGGCCATCTGTTAC
* *
35628552 TGAAAATCCTCTCTAC-CCCCTGGTTTCACCCCAAAAAATGCTCAAACGCAACCCGAGATCCACA
1 TGAAAATCCTCTCTACACCCCTAGTTTCACCCCAAAAAATGCTCAAACACAACCCGAGATCCACA
*
35628616 CACGAAGGCCATC
66 CACAAAGGCCATC
35628629 CATTGCAATC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 52 0.78
84 15 0.22
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (84 bp):
TGAAAATCCTCTCTACACCCCTAGTTTCACCCCAAAAAATGCTCAAACACAACCCGAGATCCACA
CACAAAGGCCATCTGTTAC
Found at i:35636819 original size:93 final size:93
Alignment explanation
Indices: 35636701--35637019 Score: 332
Period size: 93 Copynumber: 3.5 Consensus size: 93
35636691 CAGACTGAAG
* * * *
35636701 ATAGCGAATCTTATTTCTCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
*
35636766 TCTCTCTGAAGTTACAGTAGAGCAGATC
66 TCTCTCTGAAGTTGCAGTAGAGCAGATC
* * * *
35636794 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG---T---T-AA-AG-TCTTA
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
* * **
35636850 TCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG
66 TCTCTCTGAAGTTGCAGTAGAGC--A--GATC
* ** *
35636882 ATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
*
35636947 TCTCTCTGAAGTTGTAGTAGAGCAGATC
66 TCTCTCTGAAGTTGCAGTAGAGCAGATC
* * * * *
35636975 ATAGCAAACCTTATCTCCTTGAAATTGTAGAGGAGCAGACTGAAG
1 ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAG
35637020 ATAGCAGATC
Statistics
Matches: 178, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
84 25 0.14
85 2 0.01
86 3 0.02
87 1 0.01
88 39 0.22
90 1 0.01
91 1 0.01
93 75 0.42
94 1 0.01
95 3 0.02
96 2 0.01
97 25 0.14
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (93 bp):
ATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATAGATCTTA
TCTCTCTGAAGTTGCAGTAGAGCAGATC
Found at i:35636860 original size:43 final size:41
Alignment explanation
Indices: 35636760--35637147 Score: 141
Period size: 45 Copynumber: 8.8 Consensus size: 41
35636750 AAATAAATAG
* *
35636760 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * * *
35636801 ACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGA-AGTTAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCA-GATCATAG-CAA
* ** *
35636843 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTAGAGC--A--GATCATAGCAA
* * * * * **
35636889 GTCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATAAATA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T----C-AT--A-GCA-A
* *
35636940 GATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAA
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * * * * *
35636982 ACCTTATCTCCTTGAAATTGTAG-AGGAGCAGACTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGA-T---CATAGCAA
* * * *
35637027 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATCGTAGCCACCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAG-CA--A
* * * * * *
35637071 TTCTTATCTCTCTAAAGTTGCAATAGAGCAGGATAAAAATACACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCA-GAT---CATA-GCAA
* * *
35637117 ACCTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAG
35637148 GTTGAAGTTA
Statistics
Matches: 255, Mismatches: 60, Indels: 60
0.68 0.16 0.16
Matches are distributed among these distances:
40 1 0.00
41 60 0.24
42 10 0.04
43 28 0.11
44 26 0.10
45 61 0.24
46 30 0.12
47 5 0.02
48 4 0.02
49 1 0.00
51 2 0.01
52 27 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
Found at i:35636896 original size:181 final size:182
Alignment explanation
Indices: 35636622--35637058 Score: 671
Period size: 181 Copynumber: 2.4 Consensus size: 182
35636612 ATAGAGAATA
* ** *
35636622 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGAAGTCTTATCTCCCTGAAGTTGCAGT
* * * *
35636687 GAAACAGACTGAAGATAGCGAATCTTATTTCTCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
66 GGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
35636752 ATAAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAAACC
131 ATAAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAAACC
* *
35636804 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGAAGTCTTATCTCCCTGAAGTTGCAGT
*
35636868 GGAGCAAACTGAAGATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
66 GGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
**
35636933 ATAAATAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAAACC
131 ATAAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAAACC
* * * * * *
35636985 TTATCTCCTTGAAATTGTAG-AGGAGCAGACTGAAGATAGCAGATCTTATCTCCTTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTA-GAGCAGATTGAAGATAGAAG-TCTTATCTCCCTGAAGTTGCA
35637049 GTGGAGCAAA
64 GTGGAGCAAA
35637059 TCGTAGCCAC
Statistics
Matches: 233, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
180 1 0.00
181 166 0.71
182 36 0.15
183 30 0.13
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (182 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAA
ATAAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCAAACC
Found at i:35637870 original size:13 final size:13
Alignment explanation
Indices: 35637852--35637877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35637842 GAAAAACTTG
35637852 TATTTTTTTCTTT
1 TATTTTTTTCTTT
35637865 TATTTTTTTCTTT
1 TATTTTTTTCTTT
35637878 CGGCTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTTCTTT
Found at i:35639019 original size:30 final size:28
Alignment explanation
Indices: 35638967--35639027 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
35638957 GATTGCGTAT
35638967 TATTTTATGTATATACTTCTTTTAAATC
1 TATTTTATGTATATACTTCTTTTAAATC
* *
35638995 TATTTATATTTATATATTTTCTTTTAAATC
1 TATTT-TATGTATATA-CTTCTTTTAAATC
35639025 TAT
1 TAT
35639028 ATGTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.17
29 9 0.31
30 15 0.52
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTTTATGTATATACTTCTTTTAAATC
Found at i:35650078 original size:39 final size:39
Alignment explanation
Indices: 35650024--35650299 Score: 408
Period size: 39 Copynumber: 7.1 Consensus size: 39
35650014 AATTTTATTA
*
35650024 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * *
35650063 CCAGCACAAAGCCTGCAGGTCTTTAGTCTGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * * *
35650102 CCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
35650141 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
35650180 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * *
35650219 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * * *
35650258 TCAACATAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
35650297 CCA
1 CCA
35650300 TACACATTTC
Statistics
Matches: 211, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:35650230 original size:117 final size:117
Alignment explanation
Indices: 35650019--35650299 Score: 472
Period size: 117 Copynumber: 2.4 Consensus size: 117
35650009 CCCGAAATTT
*
35650019 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCAGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCAGGTC
* *
35650084 TTTAGTCTGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
*
35650136 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCAGGTC
*
35650201 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
* * * * *
35650253 TATTTTCAACATAAAGCCTGCGGGTCTTTAGCCCGGATATATTTCCA
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
35650300 TACACATTTC
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 154 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCAGGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
Found at i:35670348 original size:20 final size:20
Alignment explanation
Indices: 35670311--35670348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35670301 AGCCCAGCAT
35670311 AGTATCAACAACAGAAATAC
1 AGTATCAACAACAGAAATAC
*
35670331 AGTATTCAATAACA-AAAT
1 AGTA-TCAACAACAGAAAT
35670349 CCTACCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.55, C:0.16, G:0.08, T:0.21
Consensus pattern (20 bp):
AGTATCAACAACAGAAATAC
Found at i:35675850 original size:93 final size:93
Alignment explanation
Indices: 35675738--35675906 Score: 311
Period size: 93 Copynumber: 1.8 Consensus size: 93
35675728 CGCCCATAAG
* *
35675738 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
35675803 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35675831 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
35675896 ACGAGTTCGGA
66 ACGAGTTCGGA
35675907 CGCTCAACCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35675925 original size:46 final size:46
Alignment explanation
Indices: 35675731--35675911 Score: 251
Period size: 46 Copynumber: 3.9 Consensus size: 46
35675721 TGTAACCCGC
* * *
35675731 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35675777 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
35675827 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35675870 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
35675912 AACCATCCTA
Statistics
Matches: 119, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 74 0.62
47 33 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35677468 original size:20 final size:20
Alignment explanation
Indices: 35677440--35677509 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
35677430 TACAATTTGG
*
35677440 TATCAATACCATTTAAAAAA
1 TATCGATACCATTTAAAAAA
*
35677460 TATCGATA-CTTTTATAAAAA
1 TATCGATACCATTTA-AAAAA
*
35677480 TATTGATACTCA--TAACAAAA
1 TATCGATAC-CATTTAA-AAAA
*
35677500 TATTGATACC
1 TATCGATACC
35677510 TCTGGGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 7 0.17
20 34 0.81
22 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.34
Consensus pattern (20 bp):
TATCGATACCATTTAAAAAA
Found at i:35679801 original size:40 final size:39
Alignment explanation
Indices: 35679756--35679885 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
35679746 CGGAACATAA
35679756 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
35679796 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * *
35679836 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
35679876 CCGGATATAA
1 CCGGATATAA
35679886 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35679900 original size:40 final size:40
Alignment explanation
Indices: 35679772--35679922 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
35679762 ATAACCATGT
* * *
35679772 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
** * *
35679812 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35679852 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35679892 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35679923 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:35679906 original size:80 final size:79
Alignment explanation
Indices: 35679772--35679922 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
35679762 ATAACCATGT
*
35679772 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
35679837 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * * * *
35679852 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
35679915 CCGGATAT
64 CCGGATAT
35679923 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:35683229 original size:40 final size:38
Alignment explanation
Indices: 35683140--35683262 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 38
35683130 CGGAATTTAA
**
35683140 CCGGATATAGCTACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTC-GGACATAGC
* * *
35683180 CCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGA-CATAGC
* *
35683220 CCGGATATAGTCACTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTC-GGACATAGC
35683259 CCGG
1 CCGG
35683263 TCATCATTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
39 19 0.27
40 52 0.73
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGACATAGC
Found at i:35683257 original size:39 final size:39
Alignment explanation
Indices: 35683159--35683262 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 39
35683149 GCTACTCGTT
* * *
35683159 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTAGCA
* *
35683199 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAACTAGCA
35683239 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
35683263 TCATCATTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 18 0.32
40 38 0.68
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:35689361 original size:25 final size:23
Alignment explanation
Indices: 35689333--35689397 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
35689323 AATAAAAAAT
*
35689333 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
35689358 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
35689379 -TTAAAACA-AGAAACAAATA
1 TTTAAAACATAAAAACAAATA
35689398 AAAAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:35689394 original size:19 final size:20
Alignment explanation
Indices: 35689359--35689397 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
35689349 TCAAATACAT
35689359 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
35689379 TTAAAACA-AGAAACAAATA
1 TTAAAACATAAAAACAAATA
35689398 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:35695195 original size:5 final size:5
Alignment explanation
Indices: 35695185--35695225 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
35695175 TAAAGTATTA
* *
35695185 AAAAT AAAAT AAAAT CAAAT AAAAT CAAAT AAAAT CAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
35695226 CAATCCAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:35695204 original size:10 final size:10
Alignment explanation
Indices: 35695185--35695223 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
35695175 TAAAGTATTA
*
35695185 AAAATAAAAT
1 AAAATCAAAT
35695195 AAAATCAAAT
1 AAAATCAAAT
35695205 AAAATCAAAT
1 AAAATCAAAT
35695215 AAAATCAAA
1 AAAATCAAA
35695224 ATCAATCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATCAAAT
Found at i:35695820 original size:20 final size:21
Alignment explanation
Indices: 35695775--35695822 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
35695765 TTTGAAACAA
*
35695775 CTTTAAAATCAAGTTAAAATG
1 CTTTTAAATCAAGTTAAAATG
*
35695796 ATTTTAAAT-AAGTTAAAA-G
1 CTTTTAAATCAAGTTAAAATG
35695815 TCTTTTAA
1 -CTTTTAA
35695823 CAAATCTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
CTTTTAAATCAAGTTAAAATG
Found at i:35697108 original size:24 final size:23
Alignment explanation
Indices: 35697065--35697121 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
35697055 TAACAAAGAA
35697065 TTAAATTAAAAATTTTATTTAAG
1 TTAAATTAAAAATTTTATTTAAG
*
35697088 TTAAATCTATAAAA-TTTATTTAAT
1 TTAAAT-TA-AAAATTTTATTTAAG
35697112 TTAAATTAAA
1 TTAAATTAAA
35697122 TAGGAAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.26
24 17 0.55
25 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAATTAAAAATTTTATTTAAG
Found at i:35697915 original size:11 final size:12
Alignment explanation
Indices: 35697897--35697922 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35697887 ATTAAAGATA
35697897 AATAAAAAATCC
1 AATAAAAAATCC
35697909 AATAAAAAATCC
1 AATAAAAAATCC
35697921 AA
1 AA
35697923 CTTCCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAAATCC
Found at i:35698191 original size:122 final size:122
Alignment explanation
Indices: 35697965--35698192 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 122
35697955 AAAATAAATT
* * **
35697965 TTAATATTACCAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTTGTTA
1 TTAATATTACAAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTCGACA
*
35698030 TCATCTTCCATATTGGATCTTCTTCTTCAATCTATATCATCATCTAAAATCTATATA
66 TCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTAAAATCTATATA
* * * * *
35698087 TTAATATTACAAGTATATTT-AAATTCTCTATTTTGATCTTTTGCTTTAACCCATCATTCTCGAC
1 TTAATATTACAAGTATATTTAAAATT-TCTATCTTCATCTTCTACTTCAACCCATCATTCTCGAC
* *
35698151 ATCATCTTTCATCTT-GATCTTCTTCTACAATCTATCATCATC
65 ATCATCTTCCATATTGGATCTTCTTCTACAATCTAT-ATCATC
35698193 TAGATCTACT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 24 0.26
122 68 0.74
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (122 bp):
TTAATATTACAAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTCGACA
TCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTAAAATCTATATA
Found at i:35704695 original size:20 final size:20
Alignment explanation
Indices: 35704658--35704695 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35704648 TGTGGATTCC
**
35704658 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
35704678 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
35704696 TCCGCGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:35715096 original size:43 final size:43
Alignment explanation
Indices: 35715048--35715145 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
35715038 AAAGCTCGTA
* ** *
35715048 CAATGCCAACGTCCCAGACGTGGTCTAACATGTAATCAAATAT
1 CAATGCCAACGTCCCAAACAAGGTCTAACATGAAATCAAATAT
* *
35715091 CAATGCC-ACTGTCCCAAACAAGGTCTTACATGAAATCAAGTAT
1 CAATGCCAAC-GTCCCAAACAAGGTCTAACATGAAATCAAATAT
*
35715134 -GATGCCAACGTC
1 CAATGCCAACGTC
35715146 TTAGACGTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 10 0.22
43 36 0.78
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAAACAAGGTCTAACATGAAATCAAATAT
Found at i:35720090 original size:37 final size:37
Alignment explanation
Indices: 35720040--35720122 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
35720030 CAGAGACAGA
35720040 ATCTTTTATATTCAGAAATTTAATACAATACAAACAT
1 ATCTTTTATATTCAGAAATTTAATACAATACAAACAT
35720077 ATCTTTTATATTCAGAAATTTAATACAATACAAACAT
1 ATCTTTTATATTCAGAAATTTAATACAATACAAACAT
*
35720114 A-CTTGTATA
1 ATCTTTTATA
35720123 GGTTATACAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 7 0.16
37 38 0.84
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.39
Consensus pattern (37 bp):
ATCTTTTATATTCAGAAATTTAATACAATACAAACAT
Found at i:35728872 original size:43 final size:42
Alignment explanation
Indices: 35728806--35728902 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
35728796 AGCTCGTACA
**
35728806 ATGCCAATGTCCCAGACGTGGTCTAACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTAACATAAAATCAAATA-CG
* * *
35728849 ATGCCACTGTCCCAGACAG-GGTCTTACATAAAATCAAGTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTAACATAAAATCAAATACG
*
35728891 ATGCCAACGTCC
1 ATGCCAATGTCC
35728903 TAGATGTAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 12 0.26
43 33 0.72
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTAACATAAAATCAAATACG
Found at i:35728915 original size:42 final size:42
Alignment explanation
Indices: 35728869--35728967 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 42
35728859 CCCAGACAGG
* * *
35728869 GTCTTACATAAAATC-AAGTACGATGCCAACGTCCTAGATGTA
1 GTCTTACACAAAATCAAAGT-CGATGCCAACATCCCAGATGTA
* *
35728911 GTCTTACACGCAAATCATAAGTCGATGCCAACATCCCAGATGTG
1 GTCTTACAC-AAAATCA-AAGTCGATGCCAACATCCCAGATGTA
35728955 GTCTTACACAAAA
1 GTCTTACACAAAA
35728968 ACACATATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 8 0.17
43 8 0.17
44 28 0.58
45 4 0.08
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
GTCTTACACAAAATCAAAGTCGATGCCAACATCCCAGATGTA
Found at i:35744702 original size:17 final size:17
Alignment explanation
Indices: 35744680--35744714 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35744670 TACTCATGAA
35744680 ATAAATTATTGAAACAT
1 ATAAATTATTGAAACAT
35744697 ATAAATTATTGAAACAT
1 ATAAATTATTGAAACAT
35744714 A
1 A
35744715 CTTGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATTATTGAAACAT
Found at i:35747718 original size:13 final size:13
Alignment explanation
Indices: 35747700--35747727 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35747690 ACAAAATAAG
35747700 AACCTTCATCACT
1 AACCTTCATCACT
35747713 AACCTTCATCACT
1 AACCTTCATCACT
35747726 AA
1 AA
35747728 TAATAGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (13 bp):
AACCTTCATCACT
Found at i:35758270 original size:67 final size:64
Alignment explanation
Indices: 35758134--35758313 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 64
35758124 AGTTCGGCTT
* * * * * * *
35758134 TCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCT
1 TCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCATAGCT
35758196 C
64 C
* * *
35758197 TCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCATAGC
1 TCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCATAGC
35758262 TC
63 TC
* *
35758264 TCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 TCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
35758314 CATAATGTCT
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 14 0.14
64 29 0.30
66 23 0.24
67 30 0.31
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.29
Consensus pattern (64 bp):
TCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCATAGCTC
Found at i:35772315 original size:39 final size:40
Alignment explanation
Indices: 35772215--35772397 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 40
35772205 TCGAATGATG
* * * *
35772215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTAATAAA
* * *
35772255 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTAATAAA
* *
35772295 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAA
* * * * * *
35772334 CCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATA-AA
* **
35772375 -CCGAGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35772398 TGAGCCAGTC
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
39 33 0.29
40 72 0.63
41 9 0.08
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAA
Found at i:35776852 original size:27 final size:27
Alignment explanation
Indices: 35776817--35776952 Score: 123
Period size: 27 Copynumber: 5.0 Consensus size: 27
35776807 TATTGAAATG
35776817 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
* * *
35776844 CCCTAGTTTATAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
** * * *
35776871 CATTGGTTTGTGAAATTACCGAAATA-
1 CCCTAGTTTGTAAAATTACCAAAATAC
* *
35776897 CCCTCAATTAGTAAAATTACCAAAATAC
1 CCCT-AGTTTGTAAAATTACCAAAATAC
* **
35776925 CCCTAATTTACAAAATTA-CAGAAATAC
1 CCCTAGTTTGTAAAATTACCA-AAATAC
35776952 C
1 C
35776953 TTTGACTTCT
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 4 0.05
27 79 0.91
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:35777004 original size:27 final size:27
Alignment explanation
Indices: 35776931--35777016 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
35776921 ATACCCCTAA
* * *
35776931 TTTACAAAATTACAGAAATACCTTTGACT
1 TTTACAAAATTATAGAAATACCATTG--G
35776960 TCTTA-AAAATTATAGAAATACCATTGG
1 T-TTACAAAATTATAGAAATACCATTGG
* *
35776987 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCATTGG
35777014 TTT
1 TTT
35777017 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.06
27 24 0.48
29 20 0.40
30 3 0.06
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:35777100 original size:27 final size:27
Alignment explanation
Indices: 35777070--35777130 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
35777060 ATCCCTAATA
35777070 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
35777097 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
35777124 GGTAAAA
1 GGTAAAA
35777131 TGATAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:35777999 original size:25 final size:25
Alignment explanation
Indices: 35777944--35778013 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
35777934 AGGAAGTGCT
* *
35777944 AAAAGGGCTCTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACAG
35777969 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
* * *
35777995 -GAAGGGGTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
35778014 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:35778220 original size:42 final size:42
Alignment explanation
Indices: 35778161--35778251 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
35778151 TAGTCTCCCC
* * *
35778161 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGATTGCATACATCCAGTGACATTACATGTGATATTG
35778203 AAATGGGATTGCATACATCCAGTGACATTACATGTGATATTG
1 AAATGGGATTGCATACATCCAGTGACATTACATGTGATATTG
35778245 AAATGGG
1 AAATGGG
35778252 CCTAAGAGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (42 bp):
AAATGGGATTGCATACATCCAGTGACATTACATGTGATATTG
Found at i:35780604 original size:27 final size:27
Alignment explanation
Indices: 35780570--35780733 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
35780560 TATTGAAATG
*
35780570 CCCTAGTTTGTAATATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
35780597 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
35780624 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
** * * *
35780651 CATTGGTTTGTGAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
* *
35780678 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
**
35780705 CCCT-GATTTACAAAATTA-CAGAAATAC
1 CCCTAG-TTTGTAAAATTACCA-AAATAC
35780732 CC
1 CC
35780734 TTGACTTTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.02
27 118 0.98
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:35780669 original size:81 final size:81
Alignment explanation
Indices: 35780575--35780732 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
35780565 AAATGCCCTA
* **
35780575 GTTTGTAATATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAA
1 GTTTGTAATATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAA
*
35780639 TTACCGAAATACCATTG
65 TTACAGAAATACCATTG
* *
35780656 GTTTGTGAA-ATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAA
1 GTTTGT-AATATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAA
35780720 TTACAGAAATACC
65 TTACAGAAATACC
35780733 CTTGACTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 66 0.96
82 3 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
GTTTGTAATATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAAT
TACAGAAATACCATTG
Found at i:35780785 original size:28 final size:28
Alignment explanation
Indices: 35780711--35780797 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
35780701 ATACCCCTGA
* *
35780711 TTTACAAAATTACAGAAATACCCTTGACTT
1 TTTACAAAATTATAGAAATACCCTTG--GT
* *
35780741 TTTA-AAAAATATAGAAATACCATTGGT
1 TTTACAAAATTATAGAAATACCCTTGGT
*
35780768 TTTACAAAATTATTGAAATACCCTTGGT
1 TTTACAAAATTATAGAAATACCCTTGGT
35780796 TT
1 TT
35780798 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
27 5 0.10
28 22 0.45
29 18 0.37
30 4 0.08
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (28 bp):
TTTACAAAATTATAGAAATACCCTTGGT
Found at i:35781764 original size:25 final size:25
Alignment explanation
Indices: 35781731--35781787 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
35781721 AAAGGCTCTG
35781731 CCCAGTTTACC-GAAAAGGGCTTTGC
1 CCCAGTTTACCAG-AAAGGGCTTTGC
*
35781756 CCCAGTTTATCAGAAAGGGCTTTGC
1 CCCAGTTTACCAGAAAGGGCTTTGC
35781781 CCCAGTT
1 CCCAGTT
35781788 ATTAAAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (25 bp):
CCCAGTTTACCAGAAAGGGCTTTGC
Found at i:35781800 original size:24 final size:23
Alignment explanation
Indices: 35781743--35781814 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
35781733 CAGTTTACCG
35781743 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
35781767 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
35781791 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
35781815 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:35781990 original size:42 final size:42
Alignment explanation
Indices: 35781931--35782022 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
35781921 TAGTCTCCCC
*
35781931 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35781973 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
35782015 AAATGGGC
1 AAATGGGC
35782023 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:35782081 original size:31 final size:31
Alignment explanation
Indices: 35782046--35782160 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
35782036 CGTTTACAGT
35782046 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35782077 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35782108 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35782139 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35782161 TCAAGACTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
30 5 0.06
31 78 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35784440 original size:27 final size:27
Alignment explanation
Indices: 35784405--35784568 Score: 204
Period size: 27 Copynumber: 6.1 Consensus size: 27
35784395 TATTGAAATG
35784405 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
35784432 CCCTAGTTTGTAAAATTACCTAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
35784459 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
** * * *
35784486 CATTGGTTTGTGAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
* *
35784513 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
* **
35784540 CCCTAATTTACAAAATTA-CAGAAATAC
1 CCCTAGTTTGTAAAATTACCA-AAATAC
35784567 CC
1 CC
35784569 TTGACTTTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 2 0.02
27 120 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:35784504 original size:81 final size:81
Alignment explanation
Indices: 35784410--35784567 Score: 235
Period size: 81 Copynumber: 2.0 Consensus size: 81
35784400 AAATGCCCTA
* * * **
35784410 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCTAAATACCCCTAGTTTGTAAAAT
1 GTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
*
35784475 TACCGAAATACCATTG
66 TACAGAAATACCATTG
* * *
35784491 GTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
1 GTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
35784556 TACAGAAATACC
66 TACAGAAATACC
35784568 CTTGACTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
GTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
TACAGAAATACCATTG
Found at i:35784606 original size:56 final size:55
Alignment explanation
Indices: 35784411--35784627 Score: 174
Period size: 54 Copynumber: 4.0 Consensus size: 55
35784401 AATGCCCTAG
** * ** ** * *
35784411 TTTGTAAAATTACCA-AAATACCCCTAGTTTGTAAAATTACCTAAATACCCCT-AG
1 TTTGTAAAATTA-CAGAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAA
* *** *
35784465 TTTGTAAAATTACCGAAATACCATTGGTTTGTGAAATTACCGAAATACCCTT-AA
1 TTTGTAAAATTACAGAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAA
** ** *
35784519 TTTGTAAAATTACCA-AAATACCCCTAATTTACAAAATTACAGAAATACCCTTGAC
1 TTTGTAAAATTA-CAGAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAA
* *
35784574 TTTTTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTA-AAATACCCTTG
1 TTTGT-AAAATTACAGAAATACCATTGGTTTACAAAATTAC-AGAAATACCCTTG
35784628 GTTTGTAGAT
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 85 0.64
55 7 0.05
56 39 0.29
57 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (55 bp):
TTTGTAAAATTACAGAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGAA
Found at i:35784620 original size:27 final size:26
Alignment explanation
Indices: 35784576--35784631 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
35784566 CCCTTGACTT
35784576 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
35784602 TTTACAAAATTACTA-AAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
35784629 TTT
1 TTT
35784632 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.78
28 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:35785597 original size:25 final size:24
Alignment explanation
Indices: 35785559--35785623 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
35785549 AGGAAGTGCT
* *
35785559 AAAAAGGCTCTGCCCCAATTTACC
1 AAAAGGGCTTTGCCCCAATTTACC
* *
35785583 GAAAAGGGCTTTGCCCCATTTTATC
1 -AAAAGGGCTTTGCCCCAATTTACC
35785608 AGAAAGGGCTTTGCCC
1 A-AAAGGGCTTTGCCC
35785624 TAGTTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAATTTACC
Found at i:35785641 original size:24 final size:23
Alignment explanation
Indices: 35785584--35785655 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 23
35785574 CAATTTACCG
* *
35785584 AAAAGGGCTTTGCCCCATTTTATC
1 AAAAGGGCTTTGCCCTA-GTTATC
*
35785608 AGAAAGGGCTTTGCCCTAGTTATT
1 A-AAAGGGCTTTGCCCTAGTTATC
**
35785632 AAAAGAGGCTAGGCCTCTAGTTAT
1 AAAAG-GGCTTTGCC-CTAGTTAT
35785656 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 23 0.57
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCTAGTTATC
Found at i:35785830 original size:39 final size:41
Alignment explanation
Indices: 35785776--35785864 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 41
35785766 TAGTCTCCCC
* *
35785776 AAATGGGATTGCATACATTCATTGACATT-A-GTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAATGTGATATTG
35785815 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTA-ATGTGATATTG
35785857 AAATGGGC
1 AAATGGGC
35785865 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 27 0.60
41 1 0.02
42 17 0.38
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (41 bp):
AAATGGGCTTGCATACATCCATTGACATTAATGTGATATTG
Found at i:35785923 original size:31 final size:31
Alignment explanation
Indices: 35785888--35786002 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
35785878 CGTTTACAGT
35785888 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
35785919 AAAGGCTTCGACCCAGTGATAGGATTAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35785950 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35785981 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35786003 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35795483 original size:20 final size:20
Alignment explanation
Indices: 35795458--35795498 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35795448 ATTGAAGACC
35795458 AAGTCAACCCAAATTCGGCT
1 AAGTCAACCCAAATTCGGCT
35795478 AAGTCAACCCAAATTCGGCT
1 AAGTCAACCCAAATTCGGCT
35795498 A
1 A
35795499 CACATGGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (20 bp):
AAGTCAACCCAAATTCGGCT
Found at i:35810794 original size:42 final size:42
Alignment explanation
Indices: 35810615--35810809 Score: 158
Period size: 42 Copynumber: 4.5 Consensus size: 42
35810605 ATTTAGGCTG
* * *
35810615 ATGAGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGAGATTTCGTGTAAGACCATATTTGGGATATGGCATC-G-AT
* * **
35810659 CGAT-ATGTATTATCATGTAAGACCCTATTTGGGATATGGCATTAAT
1 --ATGA-G-ATT-TCGTGTAAGACCATATTTGGGATATGGCATCGAT
** * *
35810705 ATGAGATTTCGTGTAAGACCACGTTTGGGACATGGCATCGAA
1 ATGAGATTTCGTGTAAGACCATATTTGGGATATGGCATCGAT
* **
35810747 ATGAGATTTTGTGTAAGACCATATCAGGGATATGGCATCGAT
1 ATGAGATTTCGTGTAAGACCATATTTGGGATATGGCATCGAT
* ** *
35810789 GTGAGATCCCATGTAAGACCA
1 ATGAGATTTCGTGTAAGACCA
35810810 CGTCTAGGAC
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
42 77 0.65
43 3 0.03
44 3 0.03
45 2 0.02
46 5 0.04
47 2 0.02
48 26 0.22
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
ATGAGATTTCGTGTAAGACCATATTTGGGATATGGCATCGAT
Found at i:35820395 original size:40 final size:38
Alignment explanation
Indices: 35820296--35820437 Score: 137
Period size: 40 Copynumber: 3.6 Consensus size: 38
35820286 ATTGAATGAT
* * *
35820296 ATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT-TAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCT---AGTCTAC
*
35820335 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--CTAC
* *
35820375 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-TAC
35820414 TATCCGGGCTAAGACCCGAAGGCA
1 -ATCCGGGCTAAGACCCGAAGGCA
35820438 TTTGAGCACA
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 16 0.18
40 69 0.78
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCTAC
Found at i:35820458 original size:40 final size:40
Alignment explanation
Indices: 35820335--35820460 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
35820325 TGGAAATTAC
* * * * *
35820335 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* ** *
35820375 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
* *
35820415 ATCCGGGCTAAGACCCGAAGGCATTTGAGC-ACATGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTTAT
35820455 ATCCGG
1 ATCCGG
35820461 TTATATTCCG
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTTAT
Found at i:35826317 original size:40 final size:40
Alignment explanation
Indices: 35826267--35826441 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
35826257 GATTGTCTTT
* * * * * * *
35826267 GGGACATAGCCCGGTTATAGTGATTCGCACAATTGCTTTC
1 GGGACTTAGCCCGGTTTTAGTAACTAGCACAAATGCCTTC
* *
35826307 GGGAATTAGCCCGGATTTAGTAACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGTTTTAGTAACTAGCACAAATGCCTTC
* * * *
35826347 GGGACTTAACCCAGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGTTTTAGTAACTAGCACAAATGCCTTC
* * *
35826387 GGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGCCTTC
1 GGGACTTAGCCCGGTTTTAGTAAC-TAGCACAAATGCCTTC
35826428 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
35826442 ATACCATTCG
Statistics
Matches: 113, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
40 86 0.76
41 27 0.24
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
GGGACTTAGCCCGGTTTTAGTAACTAGCACAAATGCCTTC
Found at i:35829557 original size:28 final size:28
Alignment explanation
Indices: 35829520--35829610 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
35829510 TACATACATG
* *
35829520 CATATAGCCCACTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
35829548 CATATGGCCCATTAGGCCCAAATCAT-GTT
1 CATATGGCCCATTAGGCCC-AATC-TCATT
* * *
35829577 CGTATGGCCCATTAGGCCTAAATCACATT
1 CATATGGCCCATTAGGCC-CAATCTCATT
35829606 CATAT
1 CATAT
35829611 ACATGCTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
28 17 0.33
29 33 0.65
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCTCATT
Found at i:35842883 original size:27 final size:28
Alignment explanation
Indices: 35842776--35842892 Score: 109
Period size: 27 Copynumber: 4.3 Consensus size: 28
35842766 AGACCCTAGT
* *
35842776 TTGTAAAATTATCGAAATACCCCT-AAT
1 TTGTAAAATTATCGAAATACCCCTGTAG
* *
35842803 TTGTAAAATTATTGAAACACCCCTG--G
1 TTGTAAAATTATCGAAATACCCCTGTAG
* * * *
35842829 TTTGTAAAATTACCTAATTACCCTTGTAG
1 -TTGTAAAATTATCGAAATACCCCTGTAG
35842858 TT-TAAAATTATCGAAATACCCCTGTAG
1 TTGTAAAATTATCGAAATACCCCTGTAG
*
35842885 -GGTAAAAT
1 TTGTAAAAT
35842893 GACTGTTTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
27 68 0.96
28 2 0.03
29 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (28 bp):
TTGTAAAATTATCGAAATACCCCTGTAG
Found at i:35851094 original size:49 final size:49
Alignment explanation
Indices: 35850920--35851113 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 49
35850910 TCTATTGTGA
* * *
35850920 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * ** ** *
35850971 GATCACGTGTGTAGTACTAAGTGCGGGCTACTACATGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* *
35851021 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
35851070 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
35851114 TAGCTTCGGC
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 40 0.34
50 41 0.35
51 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:35852919 original size:2 final size:2
Alignment explanation
Indices: 35852912--35852942 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35852902 GAGACTAGTC
35852912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35852943 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35856838 original size:18 final size:17
Alignment explanation
Indices: 35856801--35856915 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 17
35856791 CTACATGTAT
35856801 TAGTTATGTAAGTTGTTATG
1 TAGTTATGTAA---GTTATG
*
35856821 TACGTTATGTGAGTTATG
1 TA-GTTATGTAAGTTATG
*
35856839 TAAATTATGTAAGTTATG
1 T-AGTTATGTAAGTTATG
35856857 TGAGTTATGTAAGTTGTTATG
1 T-AGTTATGTAA---GTTATG
* *
35856878 TAAATTATGTAAGTTATA
1 T-AGTTATGTAAGTTATG
35856896 TGAGTTATGTAAGTTATG
1 T-AGTTATGTAAGTTATG
35856914 TA
1 TA
35856916 ATTTATTTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
17 1 0.01
18 51 0.65
19 1 0.01
20 2 0.03
21 24 0.30
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (17 bp):
TAGTTATGTAAGTTATG
Found at i:35856871 original size:57 final size:57
Alignment explanation
Indices: 35856802--35856914 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
35856792 TACATGTATT
** * *
35856802 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* *
35856859 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGT
35856915 AATTTATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:35856916 original size:9 final size:9
Alignment explanation
Indices: 35856815--35856927 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
35856805 TATGTAAGTT
*
35856815 GTTATGTAC
1 GTTATGTAA
*
35856824 GTTATGTGA
1 GTTATGTAA
35856833 GTTATGTAA
1 GTTATGTAA
*
35856842 ATTATGTAA
1 GTTATGTAA
*
35856851 GTTATGTGA
1 GTTATGTAA
35856860 GTTATGTAA
1 GTTATGTAA
35856869 GTTGTTATGTAA
1 ---GTTATGTAA
*
35856881 ATTATGTAA
1 GTTATGTAA
* *
35856890 GTTATATGA
1 GTTATGTAA
35856899 GTTATGTAA
1 GTTATGTAA
35856908 GTTATGTAA
1 GTTATGTAA
* *
35856917 TTTATTTAA
1 GTTATGTAA
35856926 GT
1 GT
35856928 AATGATCAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 76 0.89
12 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:35856927 original size:57 final size:57
Alignment explanation
Indices: 35856802--35856927 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 57
35856792 TACATGTATT
** * * *
35856802 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTA
* *
35856859 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTA
* *
35856916 ATTTATTTAAGT
1 AGTTATGTAAGT
35856928 AATGATCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTA
Found at i:35857768 original size:23 final size:23
Alignment explanation
Indices: 35857742--35857791 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
35857732 GTTCAAGTTT
35857742 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
*
35857765 ATTTAAAGGGTTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
35857788 ATTT
1 ATTT
35857792 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:35861213 original size:13 final size:14
Alignment explanation
Indices: 35861195--35861227 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
35861185 AATTTTAGGG
35861195 TTAGGGGGAAA-TT
1 TTAGGGGGAAAGTT
35861208 TTA-GGGGAAAGTT
1 TTAGGGGGAAAGTT
35861221 TTAGGGG
1 TTAGGGG
35861228 AAAAACACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 8 0.44
14 3 0.17
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (14 bp):
TTAGGGGGAAAGTT
Found at i:35861216 original size:12 final size:13
Alignment explanation
Indices: 35861199--35861230 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
35861189 TTAGGGTTAG
35861199 GGGGAAA-TTTTA
1 GGGGAAAGTTTTA
35861211 GGGGAAAGTTTTA
1 GGGGAAAGTTTTA
35861224 GGGGAAA
1 GGGGAAA
35861231 AACACTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.25
Consensus pattern (13 bp):
GGGGAAAGTTTTA
Found at i:35861733 original size:18 final size:18
Alignment explanation
Indices: 35861699--35861733 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35861689 TTGATTTATT
*
35861699 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
35861717 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
35861734 CAATCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:35861875 original size:26 final size:26
Alignment explanation
Indices: 35861837--35861910 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
35861827 TATTATTTAA
**
35861837 AAAATTAGATAAAATTTGAAATATTG
1 AAAATTATTTAAAATTTGAAATATTG
*
35861863 AAAATTATTTAAAATTTGAAATCTTG
1 AAAATTATTTAAAATTTGAAATATTG
*
35861889 AAATTTATTCT-AAATTTGAAAT
1 AAAATTATT-TAAAATTTGAAAT
35861911 CTTTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAATTATTTAAAATTTGAAATATTG
Found at i:35861911 original size:26 final size:26
Alignment explanation
Indices: 35861846--35861920 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
35861836 AAAAATTAGA
* *
35861846 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAATTTATT
35861872 TAAAATTTGAAATCTTGAAATTTATT
1 TAAAATTTGAAATCTTGAAATTTATT
*
35861898 CT-AAATTTGAAATCTTTAAATTT
1 -TAAAATTTGAAATCTTGAAATTT
35861921 TTAAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 44 0.98
27 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAATTTATT
Found at i:35862188 original size:15 final size:14
Alignment explanation
Indices: 35862150--35862254 Score: 68
Period size: 14 Copynumber: 7.3 Consensus size: 14
35862140 CCATACCATT
*
35862150 TAAACCCCAAACCA
1 TAAACCCTAAACCA
*
35862164 TAAATACCTAAACCA
1 TAAA-CCCTAAACCA
*
35862179 TGAAACCCTAATCCA
1 T-AAACCCTAAACCA
* *
35862194 CTAACCCCTAAACCT
1 -TAAACCCTAAACCA
* * *
35862209 TAAACCCCAACCCT
1 TAAACCCTAAACCA
*
35862223 TAAACCATAAACCA
1 TAAACCCTAAACCA
* *
35862237 -AAATCTCTAAACCT
1 TAAA-CCCTAAACCA
35862251 TAAA
1 TAAA
35862255 ATATTAACTC
Statistics
Matches: 69, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
13 3 0.04
14 32 0.46
15 30 0.43
16 4 0.06
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:35862221 original size:21 final size:21
Alignment explanation
Indices: 35862196--35862254 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
35862186 CTAATCCACT
**
35862196 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCTTAAACCAA
* *
35862217 AACCCTTAAACCATAAACCAA
1 AACCCCTAAACCTTAAACCAA
* *
35862238 AATCTCTAAACCTTAAA
1 AACCCCTAAACCTTAAA
35862255 ATATTAACTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCCTAAACCTTAAACCAA
Found at i:35862225 original size:14 final size:15
Alignment explanation
Indices: 35862149--35862254 Score: 53
Period size: 15 Copynumber: 7.3 Consensus size: 15
35862139 CCCATACCAT
35862149 TTAAACCCC-AAACC
1 TTAAACCCCTAAACC
* **
35862163 ATAAATACCTAAACC
1 TTAAACCCCTAAACC
* *
35862178 ATGAAA-CCCTAATCC
1 -TTAAACCCCTAAACC
*
35862193 ACT-AACCCCTAAACC
1 -TTAAACCCCTAAACC
*
35862208 TTAAACCCC-AACCC
1 TTAAACCCCTAAACC
*
35862222 TTAAA-CCATAAACC
1 TTAAACCCCTAAACC
* * *
35862236 -AAAATCTCTAAACC
1 TTAAACCCCTAAACC
35862250 TTAAA
1 TTAAA
35862255 ATATTAACTC
Statistics
Matches: 67, Mismatches: 18, Indels: 13
0.68 0.18 0.13
Matches are distributed among these distances:
13 5 0.07
14 29 0.43
15 30 0.45
16 3 0.04
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.19
Consensus pattern (15 bp):
TTAAACCCCTAAACC
Found at i:35862808 original size:28 final size:29
Alignment explanation
Indices: 35862768--35862822 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
35862758 AATAAATTGT
*
35862768 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
35862797 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
35862823 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:35863040 original size:39 final size:40
Alignment explanation
Indices: 35862958--35863041 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
35862948 CGGCGTTTTT
*
35862958 CTAATGCTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
1 CTAATACTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
* * *
35862998 CTAATACTCAACCTTTAGTGGTGTTT-TT-TGAAAACGCCG
1 CTAATACTCAACCTATAGCGGCGTTTGTTAT-AAAACGCCG
35863037 CTAAT
1 CTAAT
35863042 GAAACTAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 1 0.03
39 16 0.41
40 22 0.56
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (40 bp):
CTAATACTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
Found at i:35873447 original size:30 final size:29
Alignment explanation
Indices: 35873404--35873467 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
35873394 CAAGTAACCG
35873404 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
35873433 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
35873463 AAGCT
1 AAGCT
35873468 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:35886709 original size:40 final size:40
Alignment explanation
Indices: 35886635--35886816 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
35886625 AACCCAAGTA
* *
35886635 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
35886674 CCTTCGGGTCTTAGCCTGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
35886714 CCTTCGGGACTTAGCCCTGATGTAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35886754 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
35886794 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35886817 CATCCGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:35897631 original size:28 final size:28
Alignment explanation
Indices: 35897598--35897670 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
35897588 ATTGCATGAC
35897598 TATGAAAGTGATTGGGCCTGACAGGCCA
1 TATGAAAGTGATTGGGCCTGACAGGCCA
* * ** *
35897626 TATGAAACTGATAGGGCCTGATGGGTCA
1 TATGAAAGTGATTGGGCCTGACAGGCCA
* *
35897654 TATGCATGTGATTGGGC
1 TATGAAAGTGATTGGGC
35897671 TCGATGGGCC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGACAGGCCA
Found at i:35897676 original size:28 final size:28
Alignment explanation
Indices: 35897645--35897698 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
35897635 GATAGGGCCT
* *
35897645 GATGGGTCATATGCATGTGATTGGGCTC
1 GATGGGCCATATGCATGAGATTGGGCTC
*
35897673 GATGGGCCATATGGATGAGATTGGGC
1 GATGGGCCATATGCATGAGATTGGGC
35897699 CTAAAATGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.13, G:0.39, T:0.28
Consensus pattern (28 bp):
GATGGGCCATATGCATGAGATTGGGCTC
Found at i:35899830 original size:40 final size:40
Alignment explanation
Indices: 35899749--35899966 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
35899739 AAACCAAGTA
** *
35899749 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
35899788 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35899828 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35899868 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35899908 CCCTCGGGACTTAGCCCGGATATCGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35899948 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35899967 TTATCAATCC
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35902413 original size:30 final size:29
Alignment explanation
Indices: 35902358--35902509 Score: 146
Period size: 30 Copynumber: 5.5 Consensus size: 29
35902348 ATAGTGAATC
35902358 CGCACACTTAGTGC-TATATATTTTCAGCT
1 CGCACACTTAGTGCTTATA-ATTTTCAGCT
35902387 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCT-TATAATTTTCAGCT
35902417 CGCACACTTAGTGC---T-A--TTCAGCT
1 CGCACACTTAGTGCTTATAATTTTCAGCT
*
35902440 CGCACACTTAGTGC-TATAA---TCAAACT
1 CGCACACTTAGTGCTTATAATTTTC-AGCT
* * * *
35902466 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCT-TATAATTTTCAGCT
35902496 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35902510 CAATCTTGTC
Statistics
Matches: 108, Mismatches: 4, Indels: 21
0.81 0.03 0.16
Matches are distributed among these distances:
23 21 0.19
25 4 0.04
26 19 0.18
28 4 0.04
29 14 0.13
30 41 0.38
31 5 0.05
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATAATTTTCAGCT
Found at i:35902440 original size:23 final size:23
Alignment explanation
Indices: 35902410--35902480 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 23
35902400 CTATATAATT
35902410 TTCAGCTCGCACACTTAGTGCTA
1 TTCAGCTCGCACACTTAGTGCTA
35902433 TTCAGCTCGCACACTTAGTGCTA
1 TTCAGCTCGCACACTTAGTGCTA
*
35902456 TAATCAAACTCGCACACTTAGTGCT
1 T--TC-AGCTCGCACACTTAGTGCT
35902481 GTACAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 24 0.55
25 2 0.05
26 18 0.41
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (23 bp):
TTCAGCTCGCACACTTAGTGCTA
Found at i:35902500 original size:79 final size:80
Alignment explanation
Indices: 35902358--35902509 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 80
35902348 ATAGTGAATC
* * * * *
35902358 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACA
1 CGCACACTTAGTGCTATATA--TTCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
35902423 CTTAGTGCTATTCAGCT
64 CTTAGTGCTATTCAGCT
*
35902440 CGCACACTTAGTGCTATA-A-TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACAC
1 CGCACACTTAGTGCTATATATTC-AACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
35902503 TTAGTGC
65 TTAGTGC
35902510 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 42 0.67
81 1 0.02
82 18 0.29
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (80 bp):
CGCACACTTAGTGCTATATATTCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACACT
TAGTGCTATTCAGCT
Found at i:35910374 original size:30 final size:30
Alignment explanation
Indices: 35910319--35910479 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
35910309 ATAGTGAATC
35910319 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
35910348 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
35910378 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
35910408 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
35910436 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
35910466 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35910480 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 19 0.16
30 78 0.64
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:35910470 original size:58 final size:57
Alignment explanation
Indices: 35910319--35910479 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
35910309 ATAGTGAATC
* *
35910319 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
35910378 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * *
35910436 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGC
35910480 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 18 0.19
60 31 0.33
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:35928735 original size:24 final size:24
Alignment explanation
Indices: 35928703--35928765 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
35928693 AATCTCAAAT
35928703 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
35928727 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
35928751 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
35928766 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:35941630 original size:28 final size:28
Alignment explanation
Indices: 35941590--35941659 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
35941580 ATAGTAAGTC
*
35941590 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
35941618 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
35941646 TGCACACTTAGTGC
1 CGCACACTTAGTGC
35941660 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:35942223 original size:2 final size:2
Alignment explanation
Indices: 35942216--35942253 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
35942206 GGCATACATT
35942216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35942254 GCCAATGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35942664 original size:25 final size:21
Alignment explanation
Indices: 35942612--35942653 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35942602 AAGACATTGG
35942612 CTACTAACTAGATTTTCACAA
1 CTACTAACTAGATTTTCACAA
35942633 CTACTAACTAGATTTTCACAA
1 CTACTAACTAGATTTTCACAA
35942654 GAATTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (21 bp):
CTACTAACTAGATTTTCACAA
Found at i:35944650 original size:47 final size:43
Alignment explanation
Indices: 35944542--35944668 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 43
35944532 TCACTTGTGT
* *
35944542 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCA-T--CGACATTATAA
*
35944588 GAGCTAGTGTAAGACATATCTGGGACATGGCATCGACATTAATAA
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACATT-ATAA
35944633 GAGTTCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GAG--CTAGTGTAAGACATGTCTGGGACATGCATCG
35944669 GCCTCGAGAC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
44 6 0.08
45 6 0.08
46 34 0.47
47 27 0.37
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (43 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTATAA
Done.