Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 107 of 410
Found at i:31522801 original size:39 final size:39
Alignment explanation
Indices: 31522753--31522936 Score: 246
Period size: 39 Copynumber: 4.7 Consensus size: 39
31522743 AAAGCCTTCG
* * * *
31522753 GAACTTTAAG-CCTGGATATATTTCCAGCATGTAACCTGC
1 GAACCTTAAGTCC-GGATATAATTCCAGCATATAGCCTGC
*
31522792 GAACCTTAAGTCCGGATTATAATTCCAGTATATAGCCTGC
1 GAACCTTAAGTCCGGA-TATAATTCCAGCATATAGCCTGC
* *
31522832 GGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
1 GAACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGC
31522871 -AGACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGC
1 GA-ACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGC
*
31522910 GGACCTTAAGTCCGGATTATAATTCCA
1 GAACCTTAAGTCCGGA-TATAATTCCA
31522937 AATATCATGC
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 83 0.64
40 46 0.36
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (39 bp):
GAACCTTAAGTCCGGATATAATTCCAGCATATAGCCTGC
Found at i:31522852 original size:79 final size:78
Alignment explanation
Indices: 31522758--31522936 Score: 272
Period size: 79 Copynumber: 2.3 Consensus size: 78
31522748 CTTCGGAACT
* *
31522758 TTAAG-CCTGGATATATTTCCAGCATGTAACCTGC-GAACCTTAAGTCCGGATTATAATTCCAGT
1 TTAAGTCC-GGATATATTTCCAGCATATAACCTGCAG-ACCTTAAGTCCGGA-TATAATTCCAGC
31522821 ATATAGCCTGCGGACC
63 ATATAGCCTGCGGACC
*
31522837 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCAGACCTTAAGTCCGGATATAATTCCAGCATA
1 TTAAGTCCGGATATATTTCCAGCATATAACCTGCAGACCTTAAGTCCGGATATAATTCCAGCATA
31522902 TAGCCTGCGGACC
66 TAGCCTGCGGACC
*
31522915 TTAAGTCCGGATTATAATTCCA
1 TTAAGTCCGGA-TATATTTCCA
31522937 AATATCATGC
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 38 0.41
79 52 0.56
80 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (78 bp):
TTAAGTCCGGATATATTTCCAGCATATAACCTGCAGACCTTAAGTCCGGATATAATTCCAGCATA
TAGCCTGCGGACC
Found at i:31541958 original size:30 final size:31
Alignment explanation
Indices: 31541924--31541984 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
31541914 CTTTAATATG
31541924 AACTTTAGAAAAATTACA-TTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTTGCCCCTA
* * * *
31541954 AACTTTTGCATAATTACACTTTTTTCCCCTA
1 AACTTTAGAAAAATTACACTTTTTGCCCCTA
31541985 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (31 bp):
AACTTTAGAAAAATTACACTTTTTGCCCCTA
Found at i:31555108 original size:18 final size:18
Alignment explanation
Indices: 31555085--31555169 Score: 98
Period size: 18 Copynumber: 4.7 Consensus size: 18
31555075 GAACGATTAT
*
31555085 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
31555103 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
31555121 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
* *
31555139 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAG
31555158 TTATTCAGTAAC
1 TTATTCAGTAAC
31555170 TGTCGATCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.75
19 14 0.25
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:31555372 original size:47 final size:47
Alignment explanation
Indices: 31555298--31555404 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 47
31555288 CAGTAACAGT
* * * * *
31555298 AACAGTAGCAATACGGTAAACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTACGGTAAACAAAGTACCTCATCGAAACAAATCCGA
* *
31555345 AACAGTAACAGTACGGTACACAAAGTACCTTATCGAAACAAATCCGA
1 AACAGTAACAGTACGGTAAACAAAGTACCTCATCGAAACAAATCCGA
*
31555392 AATAGTAACAGTA
1 AACAGTAACAGTA
31555405 ATGGTAACAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.18
Consensus pattern (47 bp):
AACAGTAACAGTACGGTAAACAAAGTACCTCATCGAAACAAATCCGA
Found at i:31557082 original size:16 final size:16
Alignment explanation
Indices: 31557056--31557095 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
31557046 TTTCGTTTCA
31557056 TTCTGTTTCATTTCTATT
1 TTCT-TTTCATTTCT-TT
31557074 TT-TTTTCATTTCTTT
1 TTCTTTTCATTTCTTT
31557089 TTCTTTT
1 TTCTTTT
31557096 GTTTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 14 0.67
17 1 0.05
18 2 0.10
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (16 bp):
TTCTTTTCATTTCTTT
Found at i:31557253 original size:31 final size:32
Alignment explanation
Indices: 31557197--31557259 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
31557187 CGCACTTGTC
*
31557197 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
31557229 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
31557260 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:31559670 original size:31 final size:31
Alignment explanation
Indices: 31559629--31559692 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
31559619 CCTTTTCATA
*
31559629 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
31559660 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
31559691 TT
1 TT
31559693 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:31559930 original size:24 final size:24
Alignment explanation
Indices: 31559898--31560049 Score: 236
Period size: 24 Copynumber: 6.4 Consensus size: 24
31559888 ATTGAGGCCT
*
31559898 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
31559923 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31559947 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
31559970 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31559994 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31560018 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31560041 AGCCCTTTT
1 AGCCCTTTT
31560050 TCACTTCCTC
Statistics
Matches: 118, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.36
24 71 0.60
25 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:31559988 original size:71 final size:71
Alignment explanation
Indices: 31559898--31560049 Score: 259
Period size: 71 Copynumber: 2.1 Consensus size: 71
31559888 ATTGAGGCCT
*
31559898 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTG
*
31559963 GGGCGTA
65 GGGCATA
* *
31559970 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
31560035 GGCATA
66 GGCATA
31560041 AGCCCTTTT
1 AGCCCTTTT
31560050 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (71 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGG
GGCATA
Found at i:31560049 original size:47 final size:48
Alignment explanation
Indices: 31559898--31560049 Score: 236
Period size: 47 Copynumber: 3.2 Consensus size: 48
31559888 ATTGAGGCCT
* *
31559898 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
31559947 AGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
31559994 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
31560041 AGCCCTTTT
1 AGCCCTTTT
31560050 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
47 70 0.73
48 22 0.23
49 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:31560122 original size:9 final size:9
Alignment explanation
Indices: 31560108--31560164 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
31560098 ATCTCATGTG
31560108 CATATCATA
1 CATATCATA
*
31560117 CATATCATGTG
1 CATATCA--TA
31560128 CATATCATA
1 CATATCATA
* *
31560137 CATGTCATGTG
1 CATATCA--TA
31560148 CATATCATA
1 CATATCATA
31560157 CATATCAT
1 CATATCAT
31560165 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:31560124 original size:20 final size:20
Alignment explanation
Indices: 31560096--31560166 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
31560086 GCATTTATGA
*
31560096 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
31560116 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
31560136 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
31560156 ACATATCATGT
1 ACATATCATGT
31560167 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:31560131 original size:11 final size:11
Alignment explanation
Indices: 31560101--31560155 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
31560091 TATGAACATC
31560101 TCATGTGCATA
1 TCATGTGCATA
*
31560112 TCA--TACATA
1 TCATGTGCATA
31560121 TCATGTGCATA
1 TCATGTGCATA
* *
31560132 TCA--TACATG
1 TCATGTGCATA
31560141 TCATGTGCATA
1 TCATGTGCATA
31560152 TCAT
1 TCAT
31560156 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:31560249 original size:25 final size:25
Alignment explanation
Indices: 31560203--31560250 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31560193 ATATATAAAC
* * * *
31560203 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31560228 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31560251 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31561417 original size:27 final size:27
Alignment explanation
Indices: 31561387--31561472 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
31561377 TACCATACAG
*
31561387 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
** * * *
31561414 GGGTATTGCGGTAATTTCACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA
* * *
31561441 GGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATTGA
31561468 GGGTA
1 GGGTA
31561473 AAACAGTAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:31561480 original size:27 final size:27
Alignment explanation
Indices: 31561451--31561787 Score: 423
Period size: 27 Copynumber: 12.6 Consensus size: 27
31561441 GGGTATTTTA
* * *
31561451 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
31561478 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
31561505 GTAATTCTATGAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
31561532 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
31561559 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
31561586 ATAATTATGTAAATCG-GGGT-AAA-G
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
31561610 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
31561637 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
31561664 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
31561691 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
31561718 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
31561745 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
31561772 GTAATTATGTAAATCG
1 GTAATTCTGTAAATCG
31561788 GGAGTACTTT
Statistics
Matches: 270, Mismatches: 33, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
24 15 0.06
25 7 0.03
26 11 0.04
27 233 0.86
28 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:31570042 original size:24 final size:24
Alignment explanation
Indices: 31570012--31570278 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
31570002 GAATGTGACT
* *
31570012 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
31570036 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31570060 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31570084 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31570108 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31570132 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31570156 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31570180 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31570204 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31570228 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31570252 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31570276 ATA
1 ATA
31570279 TGGTCTTTGC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:31580222 original size:26 final size:24
Alignment explanation
Indices: 31580181--31580229 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
31580171 TGCATTATGG
31580181 AAGGAAAATAAAGAAATGAAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAAA
* *
31580207 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
31580230 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
26 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (24 bp):
AAGGAAAATAAAGAAAAAAAAAAA
Found at i:31581555 original size:30 final size:28
Alignment explanation
Indices: 31581515--31581613 Score: 101
Period size: 27 Copynumber: 3.5 Consensus size: 28
31581505 GACAAGATTG
* * *
31581515 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
31581545 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
31581573 GCACTAAGTGTGCGAG-CTAATAATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
31581600 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31581614 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 22 0.36
28 22 0.36
30 17 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:31581606 original size:27 final size:28
Alignment explanation
Indices: 31581544--31581613 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
31581534 AAAATTGTAC
* * *
31581544 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTAATAATAT
31581572 AGCACTAAGTGTGCGAG-CTAATAATAT
1 AGCACTAAGTGTGCGAGTCTAATAATAT
31581599 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31581614 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTAATAATAT
Found at i:31581625 original size:27 final size:27
Alignment explanation
Indices: 31581544--31581625 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
31581534 AAAATTGTAC
* * *
31581544 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCG-GATTCAATATAT
*
31581572 AGCACTAAGTGTGC-GA-GCTAATAATAT
1 AGCACTAAGTGTGCGGATTC-AAT-ATAT
*
31581599 AGCACTAAGTGTGCGGATTCACTATAT
1 AGCACTAAGTGTGCGGATTCAATATAT
31581626 GCTCTTGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
26 3 0.07
27 22 0.50
28 18 0.41
29 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGATTCAATATAT
Found at i:31589534 original size:30 final size:28
Alignment explanation
Indices: 31589494--31589594 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
31589484 GACAAGATTG
* * *
31589494 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
31589524 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * * *
31589552 GCACTAAGTGTGCGAGCTGAATATAAATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
31589581 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31589595 GATTCTCTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 25 0.41
29 19 0.31
30 17 0.28
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:31589558 original size:28 final size:29
Alignment explanation
Indices: 31589523--31589594 Score: 103
Period size: 28 Copynumber: 2.5 Consensus size: 29
31589513 AAAATTGTAC
* *
31589523 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATAAAT
31589551 AGCACTAAGTGTGCGAGCTGAATATAAAT
1 AGCACTAAGTGTGCGAGCTGAATATAAAT
31589580 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31589595 GATTCTCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATAAAT
Found at i:31590409 original size:18 final size:16
Alignment explanation
Indices: 31590386--31590420 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
31590376 AAATCACTAA
31590386 AAATAGTAGAATAGAATT
1 AAATAGT-GAATA-AATT
31590404 AAATAGTGAATAAATT
1 AAATAGTGAATAAATT
31590420 A
1 A
31590421 TGAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AAATAGTGAATAAATT
Found at i:31593218 original size:50 final size:50
Alignment explanation
Indices: 31593139--31593284 Score: 283
Period size: 50 Copynumber: 2.9 Consensus size: 50
31593129 CATAGATTGC
*
31593139 TCTCGTATATATATTTCACATTGACCATTCGGCTTTACCACATATACATA
1 TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATA
31593189 TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATA
1 TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATA
31593239 TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATA
1 TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATA
31593285 TGCATGTTCA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 95 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (50 bp):
TCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATA
Found at i:31593333 original size:47 final size:47
Alignment explanation
Indices: 31593254--31593494 Score: 392
Period size: 47 Copynumber: 5.1 Consensus size: 47
31593244 TATATATATT
* * * *
31593254 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
31593301 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31593348 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
31593395 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31593442 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31593489 TCACAT
1 TCACAT
31593495 AAAATCCTAA
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 178 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:31593384 original size:94 final size:94
Alignment explanation
Indices: 31593254--31593494 Score: 437
Period size: 94 Copynumber: 2.6 Consensus size: 94
31593244 TATATATATT
* * * *
31593254 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
31593319 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
31593348 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
31593413 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATGCATGCTCACATTCA
*
31593442 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACAT
31593495 AAAATCCTAA
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 142 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCA
Found at i:31599697 original size:43 final size:42
Alignment explanation
Indices: 31599640--31599748 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
31599630 AATGACAACA
*
31599640 TCCCAAAC-GTGGTCTTACATGTAATCAAATATCA-ATGCCACTG
1 TCCCAAACAG-GGTCTTACATGTAATCAAATA--AGATGCCAATG
* *
31599683 TCCCAGACAGGGTCTTACATGAAATCAAATAAGATGCCAATG
1 TCCCAAACAGGGTCTTACATGTAATCAAATAAGATGCCAATG
* *
31599725 TCCCAAACATGGTCTTACACGTAA
1 TCCCAAACAGGGTCTTACATGTAA
31599749 ATCATAAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.49
43 27 0.47
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TCCCAAACAGGGTCTTACATGTAATCAAATAAGATGCCAATG
Found at i:31599751 original size:43 final size:43
Alignment explanation
Indices: 31599640--31599752 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
31599630 AATGACAACA
* *
31599640 TCCCAAACGTGGTCTTACATGT-AATCAAATATCAATGCCACTG
1 TCCCAAACATGGTCTTACATGTAAATCAAATA-CAATGCCAATG
* *
31599683 TCCCAGACAGGGTCTTACATG-AAATCAAATA-AGATGCCAATG
1 TCCCAAACATGGTCTTACATGTAAATCAAATACA-ATGCCAATG
*
31599725 TCCCAAACATGGTCTTACACGTAAATCA
1 TCCCAAACATGGTCTTACATGTAAATCA
31599753 TAAGTTGATG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.55
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACATGTAAATCAAATACAATGCCAATG
Found at i:31605471 original size:11 final size:11
Alignment explanation
Indices: 31605455--31605480 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31605445 CGAACCCCAC
31605455 ATCACAATAAT
1 ATCACAATAAT
31605466 ATCACAATAAT
1 ATCACAATAAT
31605477 ATCA
1 ATCA
31605481 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:31605983 original size:27 final size:27
Alignment explanation
Indices: 31605936--31606012 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
31605926 GGGCAAAACA
* *
31605936 GTCATTTTATC-CTAGAGGGGTATGTTG
1 GTCATTTTA-CACTACAAGGGTATGTTG
*
31605963 GTCATTTTACACTACAAGGGTATTTTG
1 GTCATTTTACACTACAAGGGTATGTTG
* *
31605990 GTAATTTTACACCACAAGGGTAT
1 GTCATTTTACACTACAAGGGTAT
31606013 TTCGATAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTTG
Found at i:31606013 original size:27 final size:27
Alignment explanation
Indices: 31605953--31606027 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
31605943 TATCCTAGAG
* * *
31605953 GGGTATGTTGGTCATTTTACACTACAA
1 GGGTATTTTGGTAATTTTACACCACAA
31605980 GGGTATTTTGGTAATTTTACACCACAA
1 GGGTATTTTGGTAATTTTACACCACAA
* *
31606007 GGGTATTTCGATAATTTTACA
1 GGGTATTTTGGTAATTTTACA
31606028 AATCGGGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACACCACAA
Found at i:31606042 original size:27 final size:27
Alignment explanation
Indices: 31605979--31606345 Score: 285
Period size: 27 Copynumber: 13.7 Consensus size: 27
31605969 TTACACTACA
* * * *
31605979 AGGGTATTTTGGTAATTTTACACCA-CA
1 AGGGTATTTCGATAATTTTACA-AATCG
31606006 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
31606033 -GGTGTGTTTCGATAATTTTACAAATCG
1 AGG-GTATTTCGATAATTTTACAAATCG
* *
31606060 AGGGTACTTTAG-TAACTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
31606087 AGGGTATTTC-AGTAATTTTAAAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
31606114 AGGGTATTT-TAGTAATTTTACAAATAG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
31606141 -GGGTATATCGATAATTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
31606167 AGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
31606194 AGGGTATTTC-AGTAATTTTACAAA-CTG
1 AGGGTATTTCGA-TAATTTTACAAATC-G
* * * * *
31606221 GGGGTATTTTGGTAATTTTACGAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
31606248 AGGGTATTTC-AGTAA-TTT-CATAATTG
1 AGGGTATTTCGA-TAATTTTACA-AATCG
* *
31606274 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* ** *
31606301 -GGAGAATTTCGGCAATTTTACAAATTG
1 AGG-GTATTTCGATAATTTTACAAATCG
*
31606328 ATGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
31606346 CTCTTTATTT
Statistics
Matches: 280, Mismatches: 38, Indels: 44
0.77 0.10 0.12
Matches are distributed among these distances:
25 1 0.00
26 51 0.18
27 219 0.78
28 9 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:31606182 original size:80 final size:80
Alignment explanation
Indices: 31605980--31606345 Score: 366
Period size: 80 Copynumber: 4.5 Consensus size: 80
31605970 TACACTACAA
* * * * *
31605980 GGGTATTTTGGTAATTTTACACCA-CAAGGGTATTTC-GATAATTTTACAAATCG-GGTGTGTTT
1 GGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCAG-TAATTTTAAAAATCGAGG-GTATTT
*
31606042 C-GATAATTTTACAAATCG
63 CAG-TAATTTTACAAATAG
* * * *
31606060 AGGGTACTTT-AGTAACTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATCAAGGGTATTTT
1 -GGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATCGAGGGTATTTC
31606124 AGTAATTTTACAAATAG
64 AGTAATTTTACAAATAG
* * * * *
31606141 GGGTATATCGATAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATCGAGGGTATTTCAG
*
31606206 TAATTTTACAAACTGG
66 TAATTTTACAAA-TAG
* * * * * * *
31606222 GGGTATTTTGGTAATTTTACGAATTGAGGGTATTTCAGTAA-TTTCATAATTGAGGGTATTTCGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATCGAGGGTATTTCAG
*
31606286 TAATTTTACAAATTG
66 TAATTTTACAAATAG
* * * *
31606301 GGAGAATTTCGGCAATTTTACAAATTGATGGTATTTCAGTAATTT
1 GG-GTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
31606346 CTCTTTATTT
Statistics
Matches: 239, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
79 6 0.03
80 130 0.54
81 96 0.40
82 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAAATCGAGGGTATTTCAG
TAATTTTACAAATAG
Found at i:31606192 original size:107 final size:106
Alignment explanation
Indices: 31605979--31606298 Score: 367
Period size: 107 Copynumber: 3.0 Consensus size: 106
31605969 TTACACTACA
** ** * * *
31605979 AGGGTATTTTGGTAATTTTACACCACAAGGGTA-TTTCGATAATTTTACAAATCGGGTGTGTTTC
1 AGGGTATTTCAGTAATTTTA-AAAACAAGGGTATTTTAG-TAATTTTACAAATAGGG-GTATTTC
* * *
31606043 GATAATTTTACAAATCGAGGGTACTTTAGTAACTTTACAAATCG
63 GATAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAATCG
*
31606087 AGGGTATTTCAGTAATTTTAAAAATCAAGGGTATTTTAGTAATTTTACAAATAGGGGTATATCGA
1 AGGGTATTTCAGTAATTTTAAAAA-CAAGGGTATTTTAGTAATTTTACAAATAGGGGTATTTCGA
31606152 TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAATCG
65 TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAATCG
* ** * * *
31606194 AGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACGAATTGAGGGTATTTC-
1 AGGGTATTTCAGTAATTTTAAAAAC-AAGGGTATTTTAGTAATTTTACAAATAG-GGGTATTTCG
* * **
31606258 AGTAATTTCAT-AATTGAGGGTATTTCGGTAATTTTACAAAT
64 A-TAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAAT
31606299 TGGGAGAATT
Statistics
Matches: 185, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
106 1 0.01
107 122 0.66
108 58 0.31
109 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (106 bp):
AGGGTATTTCAGTAATTTTAAAAACAAGGGTATTTTAGTAATTTTACAAATAGGGGTATTTCGAT
AATTTTATAAATCGAGGGTATTTTAGTAATTTTACAAATCG
Found at i:31606343 original size:134 final size:134
Alignment explanation
Indices: 31605977--31606345 Score: 399
Period size: 134 Copynumber: 2.7 Consensus size: 134
31605967 TTTTACACTA
** * * *
31605977 CAAGGGTATTTTGGTAATTTTACACCACA-AGGGTATTTCGATAATTTTACAAATCGGGTGTGTT
1 CAAGGGTATTTCAGTAATTTTACA-AATAGAGGGTATTTCGATAATTTTACAAATCGGG-GTATT
* *
31606041 TCGATAATTTTACAAATCGAGGGTACTTT-AGTAACTTTACAAATCGAGGGTATTTCAGTAATTT
64 TCGGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
31606105 TAAAAAT
128 TAAAAAT
* * *
31606112 CAAGGGTATTTTAGTAATTTTACAAATAG-GGGTATATCGATAATTTTATAAATCGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATCG-GGGTATTT
** * **
31606176 TAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA-CTGGGGGTATTTTGGTAATTTT
65 CGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCAGTAATTTT
**
31606240 ACGAAT
129 AAAAAT
** * * * *
31606246 TGAGGGTATTTCAGTAA-TTT-CATAATTGAGGGTATTTCGGTAATTTTACAAATTGGGAGAATT
1 CAAGGGTATTTCAGTAATTTTACA-AATAGAGGGTATTTCGATAATTTTACAAATCGGG-GTATT
* * *
31606309 TCGGCAATTTTACAAATTGATGGTATTTCAGTAATTT
64 TCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
31606346 CTCTTTATTT
Statistics
Matches: 198, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
132 2 0.01
133 13 0.07
134 158 0.80
135 25 0.13
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (134 bp):
CAAGGGTATTTCAGTAATTTTACAAATAGAGGGTATTTCGATAATTTTACAAATCGGGGTATTTC
GGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAA
AAAT
Found at i:31616240 original size:40 final size:39
Alignment explanation
Indices: 31616176--31616363 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
31616166 GCTACTCATT
* * * ** *
31616176 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
31616216 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
31616256 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
31616295 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
31616334 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
31616364 CTCGAACATT
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:31616291 original size:39 final size:39
Alignment explanation
Indices: 31616212--31616364 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
31616202 TATGGTAACC
* *
31616212 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
31616252 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
31616291 CGCACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
31616330 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
31616365 TCGAACATTT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31616342 original size:78 final size:79
Alignment explanation
Indices: 31616181--31616363 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
31616171 TCATTCAAAC
* * **
31616181 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
31616246 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
31616261 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
* *
31616325 CAATTTGCACAATT
66 CAACTCGCACAATT
31616339 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
31616364 CTCGAACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 33 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:31619000 original size:28 final size:28
Alignment explanation
Indices: 31618965--31619056 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
31618955 TGGCTGTTTT
* * *
31618965 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
31618993 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
31619021 AGGCTCAATCACATTCATATGGCCCATT
1 AGGCCCAATCACATTCATATGGCCCATC
31619049 AGGCCCAA
1 AGGCCCAA
31619057 CAACTTCCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:31621712 original size:48 final size:48
Alignment explanation
Indices: 31621450--31621681 Score: 145
Period size: 48 Copynumber: 4.9 Consensus size: 48
31621440 CAAGGTAAGG
* * * * *
31621450 TGCCAATGCCATATCCCAGATATGGTCTTACATTGGACCACATAACGA
1 TGCCAAAGCCATATCCAAGACATGGTCTTACATGGGATCACATAACGA
** * * *
31621498 CCCCAATGCCATGTCCTAGACATGGTCTTACATGGGAT--CA-AAC-A
1 TGCCAAAGCCATATCCAAGACATGGTCTTACATGGGATCACATAACGA
** * * * * * * *
31621542 T-ATATAAGCCAATAGCCCAG-CTATGGTCTTACACGATG-TCTCATTATGA
1 TGCCA-AAGCC-ATATCCAAGAC-ATGGTCTTACATG-GGATCACATAACGA
* * *** *
31621591 TGCCAATGCCATGTCGTGGACATTGTCTTACATGGGATCACATAACGA
1 TGCCAAAGCCATATCCAAGACATGGTCTTACATGGGATCACATAACGA
*
31621639 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGGGATCACAT
1 TGCCAAAGCCATATCCAAGACATGGTCTTACATGGGATCACAT
31621682 TTCACTGCTG
Statistics
Matches: 136, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
43 1 0.01
44 6 0.04
45 22 0.16
46 3 0.02
47 3 0.02
48 93 0.68
49 7 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCAAAGCCATATCCAAGACATGGTCTTACATGGGATCACATAACGA
Found at i:31634790 original size:42 final size:42
Alignment explanation
Indices: 31634669--31634790 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
31634659 TATTATACCA
* ** * *
31634669 ATGCCATATCCCAAATATGGTCTTACATGGGATATCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
31634711 ATGCCAACAGCCCAGATATGGTCTTACA-CAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAA-TCTCATATCG
* *
31634754 ATGCCATATCCGAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
31634791 AATAACCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:31637957 original size:40 final size:40
Alignment explanation
Indices: 31637830--31637959 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 40
31637820 ATGCTGGAAA
* *
31637830 TTATATCCGGGTTAAGACCCGAAGGCAAT-TGTGC-TAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATCCGTGCAT-GTGG
* * **
31637870 CTACATCCGGGCTAAGACCCGAAGGCA-CTCGTGCGA-GTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATC-CGTGC-ATGTGG
*
31637910 TTCTATCCGGGCTAAGACCCGAAGGCATCCGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATCCGTGCATGTGG
31637950 TTATATCCGG
1 TTATATCCGG
31637960 TTGTATTCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 69 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATCCGTGCATGTGG
Found at i:31648088 original size:27 final size:27
Alignment explanation
Indices: 31648058--31648149 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
31648048 ATTACCAAAG
* * *
31648058 TACCCTCAATTTATAGAATCACTATTT
1 TACCCTCGATTTACAAAATCACTATTT
* * *
31648085 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATCACTATTT
* *
31648112 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATCACT-ATTT
31648139 TACCCTCGATT
1 TACCCTCGATT
31648150 GTGAACTTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATCACTATTT
Found at i:31648192 original size:27 final size:27
Alignment explanation
Indices: 31648162--31648222 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
31648152 GAACTTACTG
31648162 AAATACCCCTA-TAGGGTAGAATTACCA
1 AAATACCCCTAGT-GGGTAGAATTACCA
* **
31648189 AAATAACCCTAGTTTGTAGAATTACCA
1 AAATACCCCTAGTGGGTAGAATTACCA
31648216 AAATACC
1 AAATACC
31648223 ACTGGTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (27 bp):
AAATACCCCTAGTGGGTAGAATTACCA
Found at i:31648230 original size:27 final size:26
Alignment explanation
Indices: 31648177--31648276 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
31648167 CCCCTATAGG
*
31648177 GTAGAATTACCAAAATAACCCTAGTTT
1 GTAGAATTACCAAAAT-ACCCTGGTTT
31648204 GTAGAATTACCAAAATACCACTGGTTT
1 GTAGAATTACCAAAATACC-CTGGTTT
* *
31648231 GT-GAAATTACCGAAATACCCTGAATTT
1 GTAG-AATTACCAAAATACCCTG-GTTT
*
31648258 GTAAAATTACCAAAATACC
1 GTAGAATTACCAAAATACC
31648277 ACTGACTTAC
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
26 7 0.11
27 57 0.89
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (26 bp):
GTAGAATTACCAAAATACCCTGGTTT
Found at i:31648290 original size:27 final size:26
Alignment explanation
Indices: 31648181--31648311 Score: 111
Period size: 27 Copynumber: 4.8 Consensus size: 26
31648171 TATAGGGTAG
* *
31648181 AATTACCAAAATAACCCT-AGTTTGTAG
1 AATTACCAAAAT-ACCCTGA-CTTGTAA
** *
31648208 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGACTTGTAA
* *
31648235 AATTACCGAAATACCCTGAATTTGTAA
1 AATTACCAAAATACCCTG-ACTTGTAA
**
31648262 AATTACCAAAATACCACTGACTTACAA
1 AATTACCAAAATACC-CTGACTTGTAA
*
31648289 AATTACAAAAATACCCTTGACTT
1 AATTACCAAAATACCC-TGACTT
31648312 TCTAAAAATT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.08
27 78 0.89
28 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCTGACTTGTAA
Found at i:31648292 original size:54 final size:54
Alignment explanation
Indices: 31648181--31648361 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
31648171 TATAGGGTAG
* * ***
31648181 AATTACCAAAATAACCCT-AGTTTGTAGAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAAT-ACCCTGAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* **
31648235 AATTACCGAAATACCCTGAATTTGTAAAATTACCAAAATACCACTGACTTACAA
1 AATTACCAAAATACCCTGAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * *
31648289 AATTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCAAAATACCC-TGAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
* *
31648345 AATTACTAAATTACCCT
1 AATTACCAAAATACCCT
31648362 TGGTTTGTAG
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.05
54 54 0.51
55 9 0.09
56 37 0.35
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTGAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:31648359 original size:27 final size:27
Alignment explanation
Indices: 31648316--31648367 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
31648306 TGACTTTCTA
31648316 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
31648343 AAAATTACTA-AATTACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
31648368 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:31648451 original size:27 final size:27
Alignment explanation
Indices: 31648408--31648481 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
31648398 AAATGACTAA
*
31648408 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
31648435 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
31648462 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
31648482 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:31648485 original size:27 final size:27
Alignment explanation
Indices: 31648421--31648485 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31648411 ACCCCTAATA
*
31648421 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
31648448 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
31648475 GGTAAAATGAC
1 GGTAAAATGAC
31648486 GAATATGGCC
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:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:31650443 original size:46 final size:46
Alignment explanation
Indices: 31650279--31650452 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
31650269 GGTTGAGCAT
*
31650279 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
31650324 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
31650369 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
31650417 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31650453 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
44 2 0.02
45 28 0.26
46 45 0.42
47 28 0.26
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:31652141 original size:25 final size:25
Alignment explanation
Indices: 31652076--31652145 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
31652066 AGGAAGTGCT
* * *
31652076 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
31652101 AAAAGGGCCTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
31652126 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31652146 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:31652416 original size:31 final size:31
Alignment explanation
Indices: 31652365--31652447 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
31652355 CTCTTACAGT
* *
31652365 AAAGGCTTC-AGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGGCTAGTGATATGATTTATGA
31652395 AAAGGCTTCGGGCTAGTGATATGATTTATGA
1 AAAGGCTTCGGGCTAGTGATATGATTTATGA
* *
31652426 AAAGCCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGGCTAGTGATATG
31652448 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGGCTAGTGATATGATTTATGA
Found at i:31654828 original size:27 final size:27
Alignment explanation
Indices: 31654798--31654889 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
31654788 ATTTCCAAAG
*
31654798 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
31654825 TACCATTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
31654852 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
31654879 TACCCTCGATT
1 TACCCTCGATT
31654890 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:31654950 original size:26 final size:27
Alignment explanation
Indices: 31654921--31655019 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
31654911 TATAAGGTAG
31654921 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
31654947 AATTACCAAAATACCACTGGTTTGCAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
31654974 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
31655001 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
31655020 ATTTACAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 10 0.16
27 47 0.77
28 4 0.07
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:31655005 original size:54 final size:54
Alignment explanation
Indices: 31654921--31655100 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
31654911 TATAAGGTAG
* *
31654921 AATTACC-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGCAA
1 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* **
31654974 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * * * * *
31655028 AATTTCAGAAATACCTTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACC-CTCAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
*
31655084 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
31655101 TGGTTTGTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
53 7 0.07
54 52 0.50
55 9 0.09
56 35 0.34
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:31655029 original size:27 final size:27
Alignment explanation
Indices: 31654921--31655031 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
31654911 TATAAGGTAG
* *
31654921 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGCAA
* **
31654947 AATTACCAAAATACCACTGGTTTGCAA
1 AATTACCAAAATACCCCTAATTTGCAA
* *
31654974 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGCAA
*
31655001 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGCAA
31655028 AATT
1 AATT
31655032 TCAGAAATAC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 10 0.14
27 57 0.80
28 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGCAA
Found at i:31655094 original size:27 final size:27
Alignment explanation
Indices: 31655021--31655106 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
31655011 ATACCCCTAA
* *
31655021 TTTACAAAATT-TCAGAAATACCTTTGAC
1 TTTACAAAATTAT-AGAAATACCATTG-G
31655049 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
31655077 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
31655104 TTT
1 TTT
31655107 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 19 0.38
30 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:31656046 original size:25 final size:25
Alignment explanation
Indices: 31656008--31656077 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
31655998 AGGAAGTGCT
* *
31656008 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
31656033 AAAAGGGCTTTGCCTCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
31656058 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31656078 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:31656102 original size:50 final size:50
Alignment explanation
Indices: 31656008--31656102 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
31655998 AGGAAGTGCT
**
31656008 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCTCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCTCAGTTTATCA
* **
31656058 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCCT-CAGTT
31656103 ATATGATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 11 0.29
50 22 0.58
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCTCAGTTTATCA
Found at i:31656341 original size:31 final size:30
Alignment explanation
Indices: 31656294--31656376 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
31656284 CTCTTACAGT
31656294 AAAGGCTTTGGCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCAGTGATATGATTTATGA
31656324 AAAGGCTTTGGGCCAGTGATATGATTTATGA
1 AAAGGCTTT-GGCCAGTGATATGATTTATGA
*
31656355 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTTGGCC-AGTGATATG
31656377 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (30 bp):
AAAGGCTTTGGCCAGTGATATGATTTATGA
Found at i:31657828 original size:43 final size:41
Alignment explanation
Indices: 31657781--31657860 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 41
31657771 TTACATGGGA
* *
31657781 TCTCATATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAG
1 TCTCATATCGATGCC-ATAGCCCA-ATATGGTCTGACACAAAG
*
31657824 TCTCATATCGATGCCATATCCCAATATGGTCTGACAC
1 TCTCATATCGATGCCATAGCCCAATATGGTCTGACAC
31657861 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 12 0.35
42 7 0.21
43 15 0.44
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (41 bp):
TCTCATATCGATGCCATAGCCCAATATGGTCTGACACAAAG
Found at i:31658317 original size:38 final size:38
Alignment explanation
Indices: 31658266--31658342 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
31658256 AATCTATTTA
31658266 ATTTCACCAAGACCTAAGCCTAGTCAAACCCTATACAT
1 ATTTCACCAAGACCTAAGCCTAGTCAAACCCTATACAT
31658304 ATTTCACCAAGACCTAAGCCTAGTCAAACCCTATACAT
1 ATTTCACCAAGACCTAAGCCTAGTCAAACCCTATACAT
31658342 A
1 A
31658343 CTCATATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (38 bp):
ATTTCACCAAGACCTAAGCCTAGTCAAACCCTATACAT
Found at i:31659856 original size:28 final size:27
Alignment explanation
Indices: 31659793--31659862 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
31659783 ATAGTGAGTC
31659793 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
31659820 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31659848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31659863 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31665195 original size:28 final size:29
Alignment explanation
Indices: 31665163--31665222 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
31665153 AGTCTCACCG
* *
31665163 CAAAGGCAACCTTTGA-TAGAGATTTCCA
1 CAAAGGCAACCTTTGAGCAGAGATTGCCA
**
31665191 CAAAGGCTTCCTTTGAGCAGAGATTGCCA
1 CAAAGGCAACCTTTGAGCAGAGATTGCCA
31665220 CAA
1 CAA
31665223 GGGCTTCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (29 bp):
CAAAGGCAACCTTTGAGCAGAGATTGCCA
Found at i:31665222 original size:29 final size:28
Alignment explanation
Indices: 31665163--31665233 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
31665153 AGTCTCACCG
** * *
31665163 CAAAGGCAACCTTTGATAGAGATTTCCA
1 CAAAGGCTTCCTTTGACAGAGATTGCCA
31665191 CAAAGGCTTCCTTTGAGCAGAGATTGCCA
1 CAAAGGCTTCCTTTGA-CAGAGATTGCCA
*
31665220 CAAGGGCTTCCTTT
1 CAAAGGCTTCCTTT
31665234 TAATAAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
CAAAGGCTTCCTTTGACAGAGATTGCCA
Found at i:31665243 original size:29 final size:29
Alignment explanation
Indices: 31665178--31665277 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
31665168 GCAACCTTTG
** *
31665178 ATAGAGATTTCCACAAAGGCTTCCTTTGA
1 ATAGAGATAGCCACAAAGGCTTCCTTTTA
** * *
31665207 GCAGAGATTGCCACAAGGGCTTCCTTTTA
1 ATAGAGATAGCCACAAAGGCTTCCTTTTA
* * *
31665236 ATAAAGATAGCCATAAAGGCGTCCTTTTA
1 ATAGAGATAGCCACAAAGGCTTCCTTTTA
31665265 ATAGAGATAGCCA
1 ATAGAGATAGCCA
31665278 AGAAGATGTC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (29 bp):
ATAGAGATAGCCACAAAGGCTTCCTTTTA
Found at i:31665288 original size:29 final size:29
Alignment explanation
Indices: 31665228--31665293 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
31665218 CACAAGGGCT
*
31665228 TCCTTTTAATAAAGATAGCCATAAAGGCG
1 TCCTTTTAATAAAGATAGCCATAAAGACG
* *
31665257 TCCTTTTAATAGAGATAGCCA-AGAAGATG
1 TCCTTTTAATAAAGATAGCCATA-AAGACG
31665286 TCCTTTTA
1 TCCTTTTA
31665294 TGGAAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TCCTTTTAATAAAGATAGCCATAAAGACG
Found at i:31672566 original size:29 final size:29
Alignment explanation
Indices: 31672485--31672589 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
31672475 TTCACATACC
* * * *
31672485 TGTATCTGGCCCATTAAGCTC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
31672513 T-TCATATGGCCCCTTTAGGCCCAAATCACC
1 TGT-ATATGG-CCCATTAGGCCCAAATCACA
*
31672543 TGTATATGGTCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
31672572 TTTATATGGCCCGTTAGG
1 TGTATATGGCCCATTAGG
31672590 TCCAGTCACA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 41 0.67
30 12 0.20
31 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:31672862 original size:8 final size:8
Alignment explanation
Indices: 31672816--31672860 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
31672806 CGTAGCCAAA
*
31672816 CTTTTTGG
1 CTTTTCGG
31672824 CTTTTCGG
1 CTTTTCGG
31672832 CTTTTCGG
1 CTTTTCGG
*
31672840 CATTTCGG
1 CTTTTCGG
31672848 CATTTT-GG
1 C-TTTTCGG
31672856 CTTTT
1 CTTTT
31672861 TGCCGATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 4 0.12
8 26 0.79
9 3 0.09
ACGTcount: A:0.04, C:0.20, G:0.22, T:0.53
Consensus pattern (8 bp):
CTTTTCGG
Found at i:31676300 original size:22 final size:22
Alignment explanation
Indices: 31676275--31676339 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
31676265 TCACACAACT
*
31676275 TGACATATTTTCTCTTACAAGC
1 TGACATATTTTCTCATACAAGC
*
31676297 TGACATATTTTCTCATAGAAGC
1 TGACATATTTTCTCATACAAGC
* * *
31676319 TGATATATTTCCTCACACAAG
1 TGACATATTTTCTCATACAAG
31676340 TTGATATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (22 bp):
TGACATATTTTCTCATACAAGC
Found at i:31676346 original size:22 final size:22
Alignment explanation
Indices: 31676264--31676339 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
31676254 ATCAGGGTTG
31676264 CTCACACAA-CTTGACATATTTT
1 CTCACACAAGC-TGACATATTTT
**
31676286 CTCTTACAAGCTGACATATTTT
1 CTCACACAAGCTGACATATTTT
* * * *
31676308 CTCATAGAAGCTGATATATTTC
1 CTCACACAAGCTGACATATTTT
31676330 CTCACACAAG
1 CTCACACAAG
31676340 TTGATATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
22 44 0.98
23 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (22 bp):
CTCACACAAGCTGACATATTTT
Found at i:31681150 original size:27 final size:28
Alignment explanation
Indices: 31681120--31681189 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
31681110 ATAATAAGTC
*
31681120 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
31681147 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
31681175 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31681190 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31689082 original size:27 final size:28
Alignment explanation
Indices: 31689052--31689121 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
31689042 ATAATAAGTC
*
31689052 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
31689079 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
31689107 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31689122 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31694637 original size:18 final size:21
Alignment explanation
Indices: 31694575--31694628 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
31694565 TTCCTTTTAT
* * * *
31694575 CAACAACTTCTTATTCTTCAG
1 CAACAACTTCCTCTTCTGCAA
31694596 CAACAACTTCCTCTTCTGCAA
1 CAACAACTTCCTCTTCTGCAA
31694617 CAACAACTTCCT
1 CAACAACTTCCT
31694629 TCTCAACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.35, G:0.04, T:0.31
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTGCAA
Found at i:31704229 original size:40 final size:40
Alignment explanation
Indices: 31704185--31704309 Score: 175
Period size: 40 Copynumber: 3.1 Consensus size: 40
31704175 TGATACTTGA
31704185 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
31704225 GGAAT-TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGTT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
*
31704265 GGAATGTTATCCGGACTTAAA-ATCCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGA-CCCGCAGGCTTCGTGCT
31704305 GGAAT
1 GGAAT
31704310 TATATCGGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
39 3 0.04
40 70 0.93
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:31704336 original size:39 final size:39
Alignment explanation
Indices: 31704185--31704336 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 39
31704175 TGATACTTGA
31704185 GGAATGTTATCCGGGCTTAAAGA-CCCGCAGGCTTCGTGCT
1 GGAAT-TTATCCGGGCTTAAA-ATCCCGCAGGCTTCGTGCT
* *
31704225 GGAATTGTATCCGGGCTTAAAGA-CCCGCAGGCTAT-ATGTT
1 GGAATT-TATCCGGGCTTAAA-ATCCCGCAGGCT-TCGTGCT
*
31704265 GGAATGTTATCCGGACTTAAAATCCCGCAGGCTTCGTGCT
1 GGAAT-TTATCCGGGCTTAAAATCCCGCAGGCTTCGTGCT
* * *
31704305 GGAATTATAT-CGGGTTTAAATTCCCGTAGGCT
1 GGAATT-TATCCGGGCTTAAAATCCCGCAGGCT
31704337 GGTGCTAGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
39 22 0.23
40 73 0.75
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (39 bp):
GGAATTTATCCGGGCTTAAAATCCCGCAGGCTTCGTGCT
Found at i:31711934 original size:40 final size:40
Alignment explanation
Indices: 31711897--31712051 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
31711887 TGAGGAATGT
31711897 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * *
31711937 TATCCGGGCTTAAAGACTCGCAGGCTAT-ATGTTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
31711976 TTATCCGGGCTTAAA-ATCCCGCAGGCTTCGTGCTGGAATTG
1 -TATCCGGGCTTAAAGA-CCCGCAGGCTTCGTGCTGGAATTG
* *
31712017 TATCCGGGCTTAAAGACCCGCAGGCTACGAGCTGG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGG
31712052 TATTATACCG
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
39 4 0.04
40 93 0.92
41 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:31712023 original size:80 final size:80
Alignment explanation
Indices: 31711890--31712043 Score: 283
Period size: 80 Copynumber: 1.9 Consensus size: 80
31711880 TGATACTTGA
*
31711890 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC
31711955 CGCAGGCTATATGTT
66 CGCAGGCTATATGTT
31711970 GGAATGTTATCCGGGCTTAAA-ATCCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
1 GGAATGTTATCCGGGCTTAAAGA-CCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
31712034 CCGCAGGCTA
65 CCGCAGGCTA
31712044 CGAGCTGGTA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
79 1 0.01
80 71 0.99
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC
CGCAGGCTATATGTT
Found at i:31735100 original size:31 final size:32
Alignment explanation
Indices: 31735043--31735104 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
31735033 ACGAAGTCAC
* *
31735043 CAGATATAGATATTGTGGCTACGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
31735075 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
31735105 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:31744815 original size:22 final size:22
Alignment explanation
Indices: 31744790--31744853 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
31744780 ACACACAAAC
31744790 TTCTCATGCATGGGTCAAAAAA
1 TTCTCATGCATGGGTCAAAAAA
*
31744812 TTCTCATGCATGGGTCAAAAAC
1 TTCTCATGCATGGGTCAAAAAA
*
31744834 TTCTCATGCATGCGTCAAAA
1 TTCTCATGCATGGGTCAAAA
31744854 TTCCAACATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (22 bp):
TTCTCATGCATGGGTCAAAAAA
Found at i:31748437 original size:40 final size:40
Alignment explanation
Indices: 31748378--31748545 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
31748368 CATTTGAATG
* * *
31748378 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
31748418 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
31748458 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
31748498 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
31748538 ATATCCGG
1 ATATCCGG
31748546 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 99 0.93
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:31764327 original size:2 final size:2
Alignment explanation
Indices: 31764322--31764349 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31764312 TATATATATA
31764322 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31764350 AAATTAGTGT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:31768175 original size:31 final size:31
Alignment explanation
Indices: 31768132--31768217 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
31768122 TCAATCTCAG
31768132 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
31768162 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
31768193 CATATCACTGGGCCAAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
31768218 TGTAACAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:31768560 original size:16 final size:15
Alignment explanation
Indices: 31768536--31768565 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31768526 ACATCATGTG
31768536 CATATCATATCAAAC
1 CATATCATATCAAAC
31768551 CATATACATATCAAA
1 CATAT-CATATCAAA
31768566 ATCTCATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
CATATCATATCAAAC
Found at i:31774914 original size:29 final size:29
Alignment explanation
Indices: 31774875--31774953 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31774865 CTTAATAATC
*
31774875 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31774905 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31774934 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31774954 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31778979 original size:31 final size:31
Alignment explanation
Indices: 31778935--31779020 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
31778925 TCAATCTCAA
*
31778935 CATAT-ACTAGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
31778965 CATATCACTGGGCCGAAGCCTTTCCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
31778996 CATATCACAGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
31779021 TCAACCCACC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:31779178 original size:25 final size:26
Alignment explanation
Indices: 31779150--31779203 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
31779140 GCTTGGCCTC
31779150 TTTTAAT-AACTGGGGCAAAAGCCCT
1 TTTTAATAAACTGGGGCAAAAGCCCT
*
31779175 TTTTGATAAACTGGGGCAAAAGCCCT
1 TTTTAATAAACTGGGGCAAAAGCCCT
31779201 TTT
1 TTT
31779204 GCACTTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (26 bp):
TTTTAATAAACTGGGGCAAAAGCCCT
Found at i:31782463 original size:16 final size:16
Alignment explanation
Indices: 31782428--31782473 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
31782418 CACTGGGAAC
* *
31782428 TATGTGATTATGAGTT
1 TATGTGATTATGTGTA
*
31782444 TATGAGATTATGTGTA
1 TATGTGATTATGTGTA
*
31782460 TATGTGACTATGTG
1 TATGTGATTATGTG
31782474 AATCTGGGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (16 bp):
TATGTGATTATGTGTA
Found at i:31784982 original size:49 final size:49
Alignment explanation
Indices: 31784904--31785124 Score: 246
Period size: 49 Copynumber: 4.4 Consensus size: 49
31784894 GTCACGTGTC
* *
31784904 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGAG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGAG
* * * * *
31784953 TAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTTGATCACGTGAA
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA--TTGGTCACATGAG
* * * ** *
31785004 TAGTACTAAGTGTAGTCTACTACGTGTATCAGATGGTTAGGTCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGAG
* *
31785054 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGAG
* *
31785103 TAGTACTAAATTCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
31785125 TGCATACCAG
Statistics
Matches: 141, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
49 63 0.45
50 43 0.30
51 35 0.25
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGAG
Found at i:31792346 original size:92 final size:90
Alignment explanation
Indices: 31792184--31792396 Score: 220
Period size: 92 Copynumber: 2.3 Consensus size: 90
31792174 ATTTGTGCGC
* * ** *
31792184 CAGTGTAAGACATTTTTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAACCATGTCTAG
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAACCATATCTAG
31792249 GACATGGCAT-GGC-ATTGAGACGAGAG
66 GACAT-GCATCGGCTA-TGAGACGAG-G
* *
31792275 CTAGTGTAATACATGTCTGGGACATGCATCGGCCTCAAGATGTA-AGCTAGTGTAAGA-CATATC
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATG-AGAGCTAGTGTAA-ACCATATC
* * *
31792338 T-GGAACATGCATCGGCTATGAGATGTGT
63 TAGG-ACATGCATCGGCTATGAGACGAGG
31792366 CAGTGTAAGACCATGTCTGGGACATGTCATC
1 CAGTGTAAGA-CATGTCTGGGACATG-CATC
31792397 AGCACATATA
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
90 8 0.08
91 23 0.22
92 69 0.67
93 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (90 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAACCATATCTAG
GACATGCATCGGCTATGAGACGAGG
Found at i:31792424 original size:48 final size:47
Alignment explanation
Indices: 31792323--31792494 Score: 199
Period size: 48 Copynumber: 3.7 Consensus size: 47
31792313 GATGTAAGCT
* * * *
31792323 AGTGTAAGA-CATATCTGGAACAT-GCATC-G-GCTATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTAT-AGAGGTGTC
* *
31792367 AGTGTAAGACCATGTCTGGGACATGTCATCAGCACATATAGAGGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-TATAGAGGTGTC
* *
31792415 AGTGTAAGACCATGTCTGGGACACGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-TATAGAGGTGTC
* *
31792463 ACTGTAAGACCATGTTTGGGACATGGCATCAG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG
31792495 TACGGATATG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
44 9 0.08
45 12 0.11
46 4 0.04
47 1 0.01
48 79 0.73
49 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACTATAGAGGTGTC
Found at i:31792473 original size:96 final size:92
Alignment explanation
Indices: 31792322--31792494 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 92
31792312 AGATGTAAGC
* * *
31792322 TAGTGTAAGACATATCTGGAACATGCATCGGCTATGAGATGTGTCAGTGTAAGACCATGTCTGGG
1 TAGTGTAAGACATATCTGGAACAGGCATCGGCTATGAGAGGTGTCACTGTAAGACCATGTCTGGG
*
31792387 ACATGTCATCAGCACATATAGAGGTGT
66 ACATGGCATCAGCACATATAGAGGTGT
* *
31792414 TAGTGTAAGACCATGTCTGGGACACGGCATCGGCACGTAT-AGAGGTGTCACTGTAAGACCATGT
1 TAGTGTAAGA-CATATCTGGAACA-GGCATCGG--C-TATGAGAGGTGTCACTGTAAGACCATGT
*
31792478 TTGGGACATGGCATCAG
61 CTGGGACATGGCATCAG
31792495 TACGGATATG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 10 0.14
93 11 0.16
94 7 0.10
96 38 0.55
97 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (92 bp):
TAGTGTAAGACATATCTGGAACAGGCATCGGCTATGAGAGGTGTCACTGTAAGACCATGTCTGGG
ACATGGCATCAGCACATATAGAGGTGT
Found at i:31792527 original size:50 final size:48
Alignment explanation
Indices: 31792185--31792642 Score: 196
Period size: 46 Copynumber: 9.7 Consensus size: 48
31792175 TTTGTGCGCC
* * * *
31792185 AGTGTAAGA-CATTTTTGGGACAT-GCATCGGCCAC-ATTATGAGAG-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGA-TATGAGAGTGT
* * * * * *
31792231 AGTGTAA-ACCATGTCTAGGACATGGCAT-GGCATTGAGACGAGAG-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA-CGATATGAGAGTGT
* * * * * *
31792277 AGTGTAATA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTA-AG-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGATATG-AGAGTGT
* * *
31792323 AGTGTAAGA-CATATCTGGAACAT-GCATC-G---GCTATGAGATGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGAGA-GTGT
*
31792366 CAGTGTAAGACCATGTCTGGGACATGTCATCAGCAC-ATAT-AGAGGTGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGAGA-GTG-T
* *
31792415 AGTGTAAGACCATGTCTGGGACACGGCATCGGCACG-TAT-AGAGGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGAGA-GTGT
* * * * *
31792462 CACTGTAAGACCATGTTTGGGACATGGCATCAGTACGGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GATATGAGAGTG-T
* * ** * *
31792513 AGTGTAAGACCATGTTTGGGATATGGTGTCAGC-CTTGATTTTGATAGT-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC--GA-TATGAGAGTGT
* * * **
31792562 AGTGTAAAACCATGTCTGGGACATGACATC-G-ACTTGAT-GGATGAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC--GATATGA-GAGTGT
* *
31792609 ACTGTAAGACCATGTCTAGGACATGGCATCAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA
31792643 TTATACCCTA
Statistics
Matches: 324, Mismatches: 56, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.00
41 4 0.01
42 1 0.00
43 1 0.00
44 9 0.03
45 20 0.06
46 89 0.27
47 39 0.12
48 85 0.26
49 32 0.10
50 35 0.11
51 8 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGAGAGTGT
Found at i:31792545 original size:146 final size:146
Alignment explanation
Indices: 31792367--31792640 Score: 322
Period size: 146 Copynumber: 1.9 Consensus size: 146
31792357 GAGATGTGTC
* *
31792367 AGTGTAAGACCATGTCTGGGACATGTCATCAGCACAT-ATAGAGGT-GTTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGTCATCAGC-CATGATAGAGATAGTTAGTGTAAAACCATGT
* * * * *
31792430 CTGGGACACGGCATCGGCACGT-ATAGAGGTGTCACTGTAAGACCATGTTTGGGACATGGCATCA
65 CTGGGACACGACATC-G-ACGTGATAGAGGAGCCACTGTAAGACCATGTCTAGGACATGGCATCA
31792494 GTACGGATATGTGAGAGCT
128 GTACGGATATGTGAGAGCT
* * * * ***
31792513 AGTGTAAGACCATGTTTGGGATATGGT-GTCAGCCTTGATTTTGATAGTTAGTGTAAAACCATGT
1 AGTGTAAGACCATGTCTGGGACAT-GTCATCAGCCATGATAGAGATAGTTAGTGTAAAACCATGT
* * * *
31792577 CTGGGACATGACATCGACTTGATGGATGAGCCACTGTAAGACCATGTCTAGGACATGGCATCAG
65 CTGGGACACGACATCGACGTGATAGAGGAGCCACTGTAAGACCATGTCTAGGACATGGCATCAG
31792641 CATTATACCC
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
145 5 0.05
146 69 0.65
147 32 0.30
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (146 bp):
AGTGTAAGACCATGTCTGGGACATGTCATCAGCCATGATAGAGATAGTTAGTGTAAAACCATGTC
TGGGACACGACATCGACGTGATAGAGGAGCCACTGTAAGACCATGTCTAGGACATGGCATCAGTA
CGGATATGTGAGAGCT
Found at i:31795996 original size:21 final size:20
Alignment explanation
Indices: 31795967--31796012 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
31795957 CAAAATACAA
31795967 TCAACCTAA-CATGAATTAAAT
1 TCAACCTAAGC-TG-ATTAAAT
*
31795988 TCAAGCTAAGCTGATTAAAT
1 TCAACCTAAGCTGATTAAAT
31796008 T-AACC
1 TCAACC
31796013 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 10 0.45
22 1 0.05
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (20 bp):
TCAACCTAAGCTGATTAAAT
Found at i:31796875 original size:21 final size:23
Alignment explanation
Indices: 31796840--31796887 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
31796830 GAAAATAACC
*
31796840 AAAATTACTCAAAATTA-ATTAT
1 AAAATAACTCAAAATTATATTAT
*
31796862 AAAATAACT-AAAATTATTTTAT
1 AAAATAACTCAAAATTATATTAT
31796884 AAAA
1 AAAA
31796888 GTTAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAACTCAAAATTATATTAT
Found at i:31804775 original size:43 final size:43
Alignment explanation
Indices: 31804709--31804800 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
31804699 AAATCGTACA
* * * *
31804709 ATGCCAATGTCCTAGAGATGGTCTTACAT-GCAACCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTAC-TCGCAAACACATATCG
* *
31804752 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACTCGCAAACACATATCG
31804795 ATGCCA
1 ATGCCA
31804801 TGGTCTTACT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACTCGCAAACACATATCG
Found at i:31805587 original size:18 final size:18
Alignment explanation
Indices: 31805564--31805603 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
31805554 AAAAACCGAA
31805564 TAAGAACGAACCTTGATT
1 TAAGAACGAACCTTGATT
31805582 TAAGAACGAACCTTGATT
1 TAAGAACGAACCTTGATT
31805600 TAAG
1 TAAG
31805604 CTTGGAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (18 bp):
TAAGAACGAACCTTGATT
Found at i:31827621 original size:13 final size:13
Alignment explanation
Indices: 31827603--31827628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31827593 TGTGTTGGTG
31827603 CACACGGTCGTGT
1 CACACGGTCGTGT
31827616 CACACGGTCGTGT
1 CACACGGTCGTGT
31827629 TCTGCTTCGT
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:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CACACGGTCGTGT
Found at i:31837948 original size:27 final size:27
Alignment explanation
Indices: 31837868--31837955 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
31837858 AAGGAACTTA
*
31837868 TTTGTTGCGCAATATGAAAGGAATGCC
1 TTTGTGGCGCAATATGAAAGGAATGCC
*
31837895 TTTGTGACGCAATATGAAAGGAATGCC
1 TTTGTGGCGCAATATGAAAGGAATGCC
* *
31837922 TTTGTGGTGTAATATGAAAGGAATGCC
1 TTTGTGGCGCAATATGAAAGGAATGCC
*
31837949 TCTGTGG
1 TTTGTGG
31837956 AAAAATATGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (27 bp):
TTTGTGGCGCAATATGAAAGGAATGCC
Found at i:31837962 original size:27 final size:27
Alignment explanation
Indices: 31837878--31837967 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
31837868 TTTGTTGCGC
*
31837878 AATATGAAAGGAATGCCTTTGT-GACGC
1 AATATGAAAGGAATGCCTTTGTGGA-GA
* *
31837905 AATATGAAAGGAATGCCTTTGTGGTGT
1 AATATGAAAGGAATGCCTTTGTGGAGA
* *
31837932 AATATGAAAGGAATGCCTCTGTGGAAA
1 AATATGAAAGGAATGCCTTTGTGGAGA
31837959 AATATGAAA
1 AATATGAAA
31837968 AAGTAGTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (27 bp):
AATATGAAAGGAATGCCTTTGTGGAGA
Found at i:31844118 original size:79 final size:82
Alignment explanation
Indices: 31844007--31844192 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
31843997 GCTACTCATT
* * *
31844007 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31844070 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
31844087 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
31844150 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
31844167 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31844193 TATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.03
79 47 0.52
80 30 0.33
81 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31844121 original size:39 final size:41
Alignment explanation
Indices: 31844007--31844192 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
31843997 GCTACTCATT
* * *
31844007 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
31844047 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
31844087 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
31844126 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
31844167 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31844193 TATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 65 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:31852184 original size:79 final size:80
Alignment explanation
Indices: 31852071--31852256 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 80
31852061 TACTCGTTCA
* *
31852071 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
31852135 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
31852151 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
31852214 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
* *
31852230 AAAGCCTTCGGGACTTAGCCTGGATAT
1 AATGCCTTCGGGACTTAGCCCGGATAT
31852257 CATTCGAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.04
79 60 0.65
80 27 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:31852255 original size:40 final size:40
Alignment explanation
Indices: 31852050--31852256 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
31852040 TCGAATTTAA
** *
31852050 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31852090 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31852130 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31852169 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
31852209 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
*
31852249 CTGGATAT
1 CCGGATAT
31852257 CATTCGAATA
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 97 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31858062 original size:21 final size:21
Alignment explanation
Indices: 31858036--31858076 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
31858026 CTCTCCTATG
31858036 CTCGCCTAAGCATAAAACATA
1 CTCGCCTAAGCATAAAACATA
31858057 CTCGCCTAAGCATAAAACAT
1 CTCGCCTAAGCATAAAACAT
31858077 GAAATTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (21 bp):
CTCGCCTAAGCATAAAACATA
Found at i:31859780 original size:49 final size:50
Alignment explanation
Indices: 31859706--31859901 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
31859696 TAGCCGAAGC
*
31859706 TATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
* * * *
31859754 TAGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACAGATGTGACCTCAC
1 TA-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
* ** * * * * * *
31859805 CATCTAATACATGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCACA-A
* * * *
31859856 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC
31859902 TCACAATAGA
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
48 2 0.02
49 39 0.33
50 40 0.34
51 37 0.31
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCACAA
Found at i:31859891 original size:101 final size:99
Alignment explanation
Indices: 31859718--31859905 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
31859708 TCTGGTACGC
* * * *
31859718 GTAGTAGCCTGCACTTAGTACTACACATGCGACCAATAGTCTGGTACACGTAGTAGCCTGCACTT
1 GTAGTAGCCTGCACTTAGCACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTT
* *
31859783 AGTACTACAGATGTGACCTCACCATCTAATACAT
66 AGTACTACACATGCGACCTCACCATCTAATACAT
* * ** *
31859817 GTAGTAGCCTGCACTTAGCACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 GTAGTAGCCTGCACTTAGCACTACACACGCGA-C-CAATAGTCGGGTACACATAGTAGCCTGCAC
31859882 TTAGTACTACACATGCGACCTCAC
64 TTAGTACTACACATGCGACCTCAC
31859906 AATAGATCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 29 0.38
100 1 0.01
101 46 0.61
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (99 bp):
GTAGTAGCCTGCACTTAGCACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTT
AGTACTACACATGCGACCTCACCATCTAATACAT
Found at i:31866543 original size:30 final size:30
Alignment explanation
Indices: 31866495--31866555 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31866485 TCCTTAACTC
*
31866495 AAACTTTTGAAAAATTACAATTTTTCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
31866525 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
31866555 A
1 A
31866556 GGCTCGGGAA
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:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:31871884 original size:40 final size:39
Alignment explanation
Indices: 31871802--31872009 Score: 146
Period size: 40 Copynumber: 5.2 Consensus size: 39
31871792 TATTCGGATG
* *
31871802 ATATCTGGGCTAAGTCCCGAAGGCATTTGT-GCA-AGTTACT
1 ATATCCGGGCT-A-TCCCGAAGGCATTTGTCG-ATAGTTGCT
31871842 ATATCCGGGCT-TCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTATCCCGAAGGCATTTGT-CGA-TAGTTGCT
* * *
31871882 ATACCCGGGCTAAGTCACGAAGGCATTTGT-GCTAG-TGACT
1 ATATCCGGGCT-A-TCCCGAAGGCATTTGTCGATAGTTG-CT
** *
31871922 ATATCCGGGCTAAGTCCCGAAGGCATTCAT-GCTAG-TGACT
1 ATATCCGGGCT-A-TCCCGAAGGCATTTGTCGATAGTTG-CT
*
31871962 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG--AGTTGCT
1 ATATCCGGGCT-A-TCCCGAAGGCATTTGT-CGATAGTTGCT
31872002 ATATCCGG
1 ATATCCGG
31872010 CTAAATCCTG
Statistics
Matches: 145, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
37 16 0.11
38 1 0.01
39 3 0.02
40 106 0.73
41 3 0.02
42 1 0.01
43 15 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTATCCCGAAGGCATTTGTCGATAGTTGCT
Found at i:31871964 original size:80 final size:82
Alignment explanation
Indices: 31871808--31872022 Score: 248
Period size: 80 Copynumber: 2.7 Consensus size: 82
31871798 GATGATATCT
* *
31871808 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCT--TCCCGAAGGCATTTGTAC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAATCCCGAAGGCATTTGCAC
*
31871871 GAGTAGTTGCTATACCC
66 GACTAGTTGCTATACCC
* *
31871888 GGGCTAAGTCACGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TT-CA
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAA-TCCCGAAGGCATTTGCA
* *
31871951 TG-CTAG-TGACTATATCC
65 CGACTAGTTG-CTATACCC
* * *
31871968 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCTGAAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCT-AATCCCGAAG
31872023 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
79 13 0.11
80 88 0.75
81 4 0.03
82 2 0.02
83 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (82 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAATCCCGAAGGCATTTGCAC
GACTAGTTGCTATACCC
Found at i:31876585 original size:23 final size:23
Alignment explanation
Indices: 31876555--31876739 Score: 196
Period size: 23 Copynumber: 8.0 Consensus size: 23
31876545 TAGGAATTTA
*
31876555 TCGGCTACAATATACTGGTAGCT
1 TCGGCTACAATATAGTGGTAGCT
*
31876578 TCGGCTAC-ATCTCAGTGGTAGCT
1 TCGGCTACAATAT-AGTGGTAGCT
*
31876601 TCGGCTACAATATACTGGTAGCT
1 TCGGCTACAATATAGTGGTAGCT
** *
31876624 TCAACTACAATACAGTGGTAGCT
1 TCGGCTACAATATAGTGGTAGCT
* * *
31876647 TTGGCTAC-ATCTCAGTGATAGCT
1 TCGGCTACAATAT-AGTGGTAGCT
*
31876670 TCGGCTAC-ATCTCAGTGGTAGCT
1 TCGGCTACAATAT-AGTGGTAGCT
*
31876693 TCGGCTACAATACAGTGGTAGCT
1 TCGGCTACAATATAGTGGTAGCT
* * *
31876716 TCGGCTACGATACAGTGATAGCT
1 TCGGCTACAATATAGTGGTAGCT
31876739 T
1 T
31876740 TAGCTATATT
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
22 5 0.04
23 128 0.93
24 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
TCGGCTACAATATAGTGGTAGCT
Found at i:31876622 original size:46 final size:46
Alignment explanation
Indices: 31876555--31876723 Score: 225
Period size: 46 Copynumber: 3.7 Consensus size: 46
31876545 TAGGAATTTA
31876555 TCGGCTACAATATACTGGTAGCTTCGGCTACATCTCAGTGGTAGCT
1 TCGGCTACAATATACTGGTAGCTTCGGCTACATCTCAGTGGTAGCT
** *
31876601 TCGGCTACAATATACTGGTAGCTTCAACTACAAT-ACAGTGGTAGCT
1 TCGGCTACAATATACTGGTAGCTTCGGCTAC-ATCTCAGTGGTAGCT
* * * *
31876647 TTGGCTAC-ATCTCAGTGATAGCTTCGGCTACATCTCAGTGGTAGCT
1 TCGGCTACAATAT-ACTGGTAGCTTCGGCTACATCTCAGTGGTAGCT
* *
31876693 TCGGCTACAATACAGTGGTAGCTTCGGCTAC
1 TCGGCTACAATATACTGGTAGCTTCGGCTAC
31876724 GATACAGTGA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
45 5 0.05
46 96 0.91
47 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (46 bp):
TCGGCTACAATATACTGGTAGCTTCGGCTACATCTCAGTGGTAGCT
Found at i:31876670 original size:69 final size:69
Alignment explanation
Indices: 31876559--31876739 Score: 249
Period size: 69 Copynumber: 2.6 Consensus size: 69
31876549 AATTTATCGG
* * *
31876559 CTACAATATACTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTACAATAT-ACTGGTAGC
1 CTACAATACAGTGGTAGCTTCGGCTACATCTCAGTGATAGCTTCGGCTAC-ATATCACTGGTAGC
31876623 TTCAA
65 TTCAA
* * *
31876628 CTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGATAGCTTCGGCTACATCTCAGTGGTAGCT
1 CTACAATACAGTGGTAGCTTCGGCTACATCTCAGTGATAGCTTCGGCTACATATCACTGGTAGCT
**
31876693 TCGG
66 TCAA
*
31876697 CTACAATACAGTGGTAGCTTCGGCTACGAT-ACAGTGATAGCTT
1 CTACAATACAGTGGTAGCTTCGGCTAC-ATCTCAGTGATAGCTT
31876740 TAGCTATATT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
68 3 0.03
69 95 0.95
70 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (69 bp):
CTACAATACAGTGGTAGCTTCGGCTACATCTCAGTGATAGCTTCGGCTACATATCACTGGTAGCT
TCAA
Found at i:31881952 original size:15 final size:17
Alignment explanation
Indices: 31881932--31881964 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
31881922 CGAAGCCTAG
31881932 CTTTCTT-TTTAT-TTT
1 CTTTCTTATTTATGTTT
31881947 CTTTCTTATTTATGTTT
1 CTTTCTTATTTATGTTT
31881964 C
1 C
31881965 GGCAATGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.73
Consensus pattern (17 bp):
CTTTCTTATTTATGTTT
Found at i:31888546 original size:48 final size:48
Alignment explanation
Indices: 31888482--31888962 Score: 788
Period size: 48 Copynumber: 10.0 Consensus size: 48
31888472 AGATAAATAT
* * *
31888482 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
31888530 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAG
*
31888578 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
31888626 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
**
31888674 ATATGTATATGCCGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAG
*
31888722 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
* *
31888770 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
* *
31888818 ATATGTGTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
* *
31888866 ATATGTATGTGTGGTAAAG-CGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
* *
31888913 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
31888961 AT
1 AT
31888963 GTGTGTATAT
Statistics
Matches: 407, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 44 0.11
48 361 0.89
49 2 0.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
Found at i:31889201 original size:37 final size:37
Alignment explanation
Indices: 31889103--31889241 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
31889093 GGAAATATAT
31889103 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
31889140 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31889176 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31889213 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
31889242 GGACTATTCG
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
36 36 0.36
37 63 0.64
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Done.