Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 83 of 344
Found at i:27516198 original size:79 final size:80
Alignment explanation
Indices: 27516031--27516213 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
27516021 GTGCGAGATA
* *
27516031 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
** **
27516096 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
27516111 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
*
27516175 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
27516190 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
27516214 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:27529526 original size:23 final size:23
Alignment explanation
Indices: 27529499--27529542 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
27529489 ATTTGTTTGG
*
27529499 TATGAATGGTTAGTATTACGGTA
1 TATGAATGGTTAGCATTACGGTA
27529522 TATGAATGGTTAGCATTACGG
1 TATGAATGGTTAGCATTACGG
27529543 CATGTATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (23 bp):
TATGAATGGTTAGCATTACGGTA
Found at i:27530646 original size:26 final size:26
Alignment explanation
Indices: 27530565--27530656 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
27530555 ATATACTTAA
* * *
27530565 TTTAATTTTTAATAAAATTTGGTTTC
1 TTTAATTTTTAATATAATTTGATTCC
* * * **
27530591 TTT-ACTTTGAGATTTAATTT-ATATGT
1 TTTAATTTTTA-ATATAATTTGAT-TCC
27530617 TTTAATTTTTAATATAATTTGATTCC
1 TTTAATTTTTAATATAATTTGATTCC
27530643 TTTAATTTTATAAT
1 TTTAATTTT-TAAT
27530657 GTTATTAGCT
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
25 6 0.12
26 32 0.65
27 11 0.22
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAATTTTTAATATAATTTGATTCC
Found at i:27531758 original size:16 final size:17
Alignment explanation
Indices: 27531737--27531771 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27531727 GAGATTTCTG
27531737 TAAAATTCAAA-TTATT
1 TAAAATTCAAATTTATT
27531753 TAAAATTCAAATTTATT
1 TAAAATTCAAATTTATT
27531770 TA
1 TA
27531772 TTATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAATTCAAATTTATT
Found at i:27542385 original size:49 final size:50
Alignment explanation
Indices: 27542287--27542386 Score: 139
Period size: 49 Copynumber: 2.0 Consensus size: 50
27542277 AACTAATTTC
* *
27542287 AAAATACCTAGGGAGATGAATCCTATGATGGATTCTGTCGTTTGATTTTT
1 AAAATACCTAGGGAGATGAAACCTATAATGGATTCTGTCGTTTGATTTTT
* * * *
27542337 AAAATACCTAGGGAGAT-AAACTTATAATGGATTTTGTTGTTTGTTTTTT
1 AAAATACCTAGGGAGATGAAACCTATAATGGATTCTGTCGTTTGATTTTT
27542386 A
1 A
27542387 TTTTATGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 27 0.61
50 17 0.39
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (50 bp):
AAAATACCTAGGGAGATGAAACCTATAATGGATTCTGTCGTTTGATTTTT
Found at i:27543611 original size:21 final size:22
Alignment explanation
Indices: 27543581--27543627 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
27543571 TGAAACTTAT
* *
27543581 AAAAATTA-TTAAATTTTAATA
1 AAAAAATATTTAAAATTTAATA
*
27543602 AAAAAATATTTAAAATTTACTA
1 AAAAAATATTTAAAATTTAATA
27543624 AAAA
1 AAAA
27543628 TAGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAAATATTTAAAATTTAATA
Found at i:27543969 original size:30 final size:29
Alignment explanation
Indices: 27543933--27544027 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
27543923 CATTTTCTTC
*
27543933 TAATTTTCTTACCA-CTTTATACAATTTTA
1 TAATTTT-TTACCATCTTTATAAAATTTTA
** *
27543962 TATATTTTTTATGATTTTTATAAAATTTTA
1 TA-ATTTTTTACCATCTTTATAAAATTTTA
* * *
27543992 TAATTTTTTTACTATTTTTATAATAATTTTC
1 TAA-TTTTTTACCATCTTTATAA-AATTTTA
27544023 TAATT
1 TAATT
27544028 CTTAATAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.13
30 39 0.71
31 9 0.16
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (29 bp):
TAATTTTTTACCATCTTTATAAAATTTTA
Found at i:27543973 original size:11 final size:10
Alignment explanation
Indices: 27543957--27544015 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
27543947 CTTTATACAA
27543957 TTTTATATATT
1 TTTTATA-ATT
*
27543968 TTTTATGA-T
1 TTTTATAATT
**
27543977 TTTTATAAAA
1 TTTTATAATT
27543987 TTTTATAATT
1 TTTTATAATT
*
27543997 TTTT-TACTAT
1 TTTTATAAT-T
27544007 TTTTATAAT
1 TTTTATAAT
27544016 AATTTTCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
9 11 0.29
10 18 0.47
11 9 0.24
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:27543999 original size:9 final size:9
Alignment explanation
Indices: 27543955--27544015 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
27543945 CACTTTATAC
27543955 AATTTTATAT
1 AATTTT-TAT
*
27543965 ATTTTTTAT
1 AATTTTTAT
*
27543974 GATTTTTAT
1 AATTTTTAT
*
27543983 AAAATTTTAT
1 -AATTTTTAT
*
27543993 AATTTTTTT
1 AATTTTTAT
27544002 ACTATTTTTAT
1 A--ATTTTTAT
27544013 AAT
1 AAT
27544016 AATTTTCTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 20 0.50
10 12 0.30
11 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:27544351 original size:88 final size:89
Alignment explanation
Indices: 27544230--27544438 Score: 232
Period size: 88 Copynumber: 2.4 Consensus size: 89
27544220 TTGAGTGCCA
* * * *
27544230 AAAAAAAAAGCAAGGGCTTAATTAC--TCTTTTGAAAAAGTTTAAGGGCTTTTTTTATGT-ATTT
1 AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGAG-TTTTTTT-TGTAATTT
* *
27544292 TAACAGTTTAAGTATCCAATTGAGTG
64 TAACAGGTCAAGTATCCAATTGAGTG
* *
27544318 AAAA-AACAAG-AGAGGCTTAATTG-TTTCTTTTGAAAAAGTTTGAGAGTTTTTTTTGTACATTT
1 AAAACAA-AAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGAGTTTTTTTTGTA-ATTT
* * *
27544380 TGATAGGTCAAGTATCCAATTGGGTG
64 TAACAGGTCAAGTATCCAATTGAGTG
*
27544406 AAAACAAAAGCAAAGGCTTAATTGCTTTTTTTT
1 AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTT
27544439 TTTAAAAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
86 3 0.03
87 19 0.19
88 58 0.57
89 14 0.14
90 7 0.07
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (89 bp):
AAAACAAAAGCAAAGGCTTAATTGCTTTCTTTTGAAAAAGTTTAAGAGTTTTTTTTGTAATTTTA
ACAGGTCAAGTATCCAATTGAGTG
Found at i:27544930 original size:38 final size:41
Alignment explanation
Indices: 27544888--27544983 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
27544878 AAATTTTAAC
* *
27544888 AAAAATATAAAAAATATTT-T-AATTTATTA-AAAATTAGA
1 AAAAATATAAAAAATATTTATAAAGTTATAAGAAAATTAGA
* *
27544926 AAAAA-ATTATAAAAT-TTTATAAAGTTGTAAGAAAATTAGA
1 AAAAATA-TAAAAAATATTTATAAAGTTATAAGAAAATTAGA
27544966 AAAAATATAAAGAAATAT
1 AAAAATATAAA-AAATAT
27544984 AAAATTCGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
37 4 0.09
38 13 0.28
39 6 0.13
40 17 0.37
41 5 0.11
42 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (41 bp):
AAAAATATAAAAAATATTTATAAAGTTATAAGAAAATTAGA
Found at i:27545000 original size:39 final size:39
Alignment explanation
Indices: 27544917--27545012 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
27544907 TAATTTATTA
** *
27544917 AAAATTAGAAAAAAATTATAAAATTTTATAAAGTTGTAAG
1 AAAATTAG-AAAAAATTATAAAATAATATAAAATTGTAAG
*
27544957 AAAATTAGAAAAAA-TATAAAGA-AATATAAAATTCGTAAT
1 AAAATTAGAAAAAATTATAAA-ATAATATAAAATT-GTAAG
*
27544996 AAAATTA-TAAAAATTAT
1 AAAATTAGAAAAAATTAT
27545013 CGTATCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
38 19 0.40
39 21 0.44
40 8 0.17
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (39 bp):
AAAATTAGAAAAAATTATAAAATAATATAAAATTGTAAG
Found at i:27545214 original size:19 final size:19
Alignment explanation
Indices: 27545192--27545242 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
27545182 TTTTGATGCA
*
27545192 TTTTATATTTTTTTATAAT
1 TTTTATATTTTTTTACAAT
***
27545211 TTTTATAACATTTTACAAT
1 TTTTATATTTTTTTACAAT
27545230 TTTTATATTTTTT
1 TTTTATATTTTTT
27545243 ACGATATTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATATTTTTTTACAAT
Found at i:27545223 original size:11 final size:9
Alignment explanation
Indices: 27545201--27545332 Score: 65
Period size: 9 Copynumber: 14.6 Consensus size: 9
27545191 ATTTTATATT
27545201 TTTTTATAA
1 TTTTTATAA
27545210 TTTTTATAA
1 TTTTTATAA
* *
27545219 CATTTTACAA
1 -TTTTTATAA
*
27545229 TTTTTATAT
1 TTTTTATAA
**
27545238 TTTTTACGA
1 TTTTTATAA
*
27545247 TATTTATAA
1 TTTTTATAA
*
27545256 TTTATTCT-A
1 TTT-TTATAA
*
27545265 TTTTAAATAA
1 TTTT-TATAA
27545275 TTTTTATTAA
1 TTTTTA-TAA
** *
27545285 AATTTATTA
1 TTTTTATAA
27545294 TTTTTATAA
1 TTTTTATAA
* * *
27545303 CTCTTATTGA
1 TTTTTA-TAA
27545313 TTTTTAT--
1 TTTTTATAA
27545320 TTTTTAT-A
1 TTTTTATAA
27545328 TTTTT
1 TTTTT
27545333 TTACACATGT
Statistics
Matches: 89, Mismatches: 27, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 48 0.54
10 28 0.31
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:27545251 original size:28 final size:27
Alignment explanation
Indices: 27545201--27545268 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
27545191 ATTTTATATT
* *
27545201 TTTTTATAATTTTTATAACATTTTACAA
1 TTTTTATATTTTTTACAACA-TTTACAA
* * *
27545229 TTTTTATATTTTTTACGATATTTATAA
1 TTTTTATATTTTTTACAACATTTACAA
*
27545256 TTTATTCTATTTT
1 TTT-TTATATTTT
27545269 AAATAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTTTATATTTTTTACAACATTTACAA
Found at i:27546188 original size:129 final size:128
Alignment explanation
Indices: 27545947--27546308 Score: 367
Period size: 129 Copynumber: 2.8 Consensus size: 128
27545937 TTTGAAAAAC
** ** * * * *
27545947 AACACCGCTATAGAACATAAACTTTAGCGGC-ATTTTTCCTACAAACGCCACTATAGAACATGAC
1 AACACCGCTATAGAATGTAGCCTTTAGCGGCGCTTTTTCC-AGAAACGTCACTATAGAACATGGC
* * * * * * *
27546011 CTTTAGCAGCGTTTTTCCTTCAAATGCCGCTATAGAACATTACCTTTAGCGATGCA-TTTCTAAC
65 CTTTAGCAGCGCTTTTCCTACAAACGACGCTATAGAACGTGACCTTTAGCG--GCACTTTCCAAC
27546075 A
128 A
* *
27546076 AACATCGCTATAGAATGT-GACCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACGTGGC
1 AACACCGCTATAGAATGTAG-CCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACATGGC
* *
27546140 CTTTAGCAGCGCTTTT-CTCACAAACGACGCTATAGAACGTGACTTTTAGCGGCACTTTTCCCAC
65 CTTTAGCAGCGCTTTTCCT-ACAAACGACGCTATAGAACGTGACCTTTAGCGGCAC-TTTCCAAC
27546204 A
128 A
* * * *
27546205 AACACCGCTATAGAATGTAGTCTTTAGTGGTGCTTTTTCC-GCAAACGTTACTATAGAACATGGC
1 AACACCGCTATAGAATGTAGCCTTTAGCGGCGCTTTTTCCAG-AAACGTCACTATAGAACATGGC
* * * *
27546269 ATTTAAC-GACGCTTTTCCTACAAACAACGCTATATAACGT
65 CTTTAGCAG-CGCTTTTCCTACAAACGACGCTATAGAACGT
27546309 AGTCTTTAAC
Statistics
Matches: 195, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
127 3 0.02
128 4 0.02
129 178 0.91
130 10 0.05
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (128 bp):
AACACCGCTATAGAATGTAGCCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACATGGCC
TTTAGCAGCGCTTTTCCTACAAACGACGCTATAGAACGTGACCTTTAGCGGCACTTTCCAACA
Found at i:27546216 original size:86 final size:85
Alignment explanation
Indices: 27545947--27546219 Score: 246
Period size: 86 Copynumber: 3.2 Consensus size: 85
27545937 TTTGAAAAAC
* * * *
27545947 AACACCGCTATAGAACATAAACTTTAGCG-GCATTTT-TCCTACAAACGCCACTATAGAACATGA
1 AACACCGCTATAGAACATAACCTTTAGCGCGC-TTTTCT-C-ACAAACGACGCTATAGAACGTGA
* * **
27546010 CCTTTAGCAGCGTTTTTCCTTCA
63 CCTTTAGCGGCGCTTTTCCCACA
** * * * * *
27546033 AATGCCGCTATAGAACATTACCTTTAGCGATGCATTTCTAACAAAC-ATCGCTATAGAATGTGAC
1 AACACCGCTATAGAACATAACCTTTAGCG-CGCTTTTCTCACAAACGA-CGCTATAGAACGTGAC
* *
27546097 CTTTAGCGGCGCTTTTTCCAGA
64 CTTTAGCGGCGCTTTTCCCACA
** * * ** *
27546119 AACGTCACTATAGAACGTGGCCTTTAGCAGCGCTTTTCTCACAAACGACGCTATAGAACGTGACT
1 AACACCGCTATAGAACATAACCTTTAGC-GCGCTTTTCTCACAAACGACGCTATAGAACGTGACC
*
27546184 TTTAGCGGCACTTTTCCCACA
65 TTTAGCGGCGCTTTTCCCACA
27546205 AACACCGCTATAGAA
1 AACACCGCTATAGAA
27546220 TGTAGTCTTT
Statistics
Matches: 148, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
86 140 0.95
87 5 0.03
88 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
AACACCGCTATAGAACATAACCTTTAGCGCGCTTTTCTCACAAACGACGCTATAGAACGTGACCT
TTAGCGGCGCTTTTCCCACA
Found at i:27546230 original size:86 final size:86
Alignment explanation
Indices: 27546067--27546316 Score: 225
Period size: 86 Copynumber: 2.9 Consensus size: 86
27546057 TAGCGATGCA
* * * * * ** *
27546067 TTTCTAACAAAC-ATCGCTATAGAATGTGACCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATA
1 TTTCTCACAAACGA-CGCTATAGAACGTGACATTTAGCGGCGCTTTTCCCACAAACAACGCTATA
* *
27546131 GAACGTGGCCTTTAGCAGCGCT
65 GAACGTAGTCTTTAGCAGCGCT
* * *
27546153 TTTCTCACAAACGACGCTATAGAACGTGACTTTTAGCGGCACTTTTCCCACAAACACCGCTATAG
1 TTTCTCACAAACGACGCTATAGAACGTGACATTTAGCGGCGCTTTTCCCACAAACAACGCTATAG
* ** *
27546218 AATGTAGTCTTTAGTGGTGCT
66 AACGTAGTCTTTAGCAGCGCT
* *** * * * * *
27546239 TTT-TCCGCAAACGTTACTATAGAACATGGCATTTAACGACGCTTTTCCTACAAACAACGCTATA
1 TTTCT-CACAAACGACGCTATAGAACGTGACATTTAGCGGCGCTTTTCCCACAAACAACGCTATA
*
27546303 TAACGTAGTCTTTA
65 GAACGTAGTCTTTA
27546317 ACGTCATTTT
Statistics
Matches: 133, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
85 1 0.01
86 131 0.98
87 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (86 bp):
TTTCTCACAAACGACGCTATAGAACGTGACATTTAGCGGCGCTTTTCCCACAAACAACGCTATAG
AACGTAGTCTTTAGCAGCGCT
Found at i:27546231 original size:43 final size:42
Alignment explanation
Indices: 27545968--27546308 Score: 180
Period size: 43 Copynumber: 8.0 Consensus size: 42
27545958 AGAACATAAA
** * ** * *
27545968 CTTTAGCGGCATTTTTCCTACAAACGCCACTATAGAACATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGTG-C
* * ** *** * *
27546011 CTTTAGCAGCGTTTTTCCTTCAAATGCCGCTATAGAACATTAC
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAAC-GTGC
** * ** *
27546054 CTTTAGCGATGCATTTCTAACAAACATCGCTATAGAATGTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGTG-C
* * * *
27546097 CTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACGTGGC
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGT-GC
* *
27546140 CTTTAGCAGCGCTTTTCTCACAAACGA-CGCTATAGAACGTGAC
1 CTTTAGCGGCGCTTTTCCCACAAAC-ATCGCTATAGAACGTG-C
* * * * *
27546183 TTTTAGCGGCACTTTTCCCACAAACACCGCTATAGAATGTAGT
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGT-GC
* * * * * ** *
27546226 CTTTAGTGGTGCTTTTTCCGCAAACGTTACTATAGAACATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGT-GC
* * * * * *
27546269 ATTTAACGACGCTTTTCCTACAAACAACGCTATATAACGT
1 CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGT
27546309 AGTCTTTAAC
Statistics
Matches: 220, Mismatches: 71, Indels: 14
0.72 0.23 0.05
Matches are distributed among these distances:
42 3 0.01
43 214 0.97
44 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCCACAAACATCGCTATAGAACGTGC
Found at i:27546345 original size:129 final size:129
Alignment explanation
Indices: 27546073--27546348 Score: 292
Period size: 129 Copynumber: 2.1 Consensus size: 129
27546063 TGCATTTCTA
* * *
27546073 ACAAACATCGCTATAGAATGTGACCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACGTG
1 ACAAACACCACTATAGAATGTGACCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACATG
* * * *
27546138 GCCTTTAGCAGCGCTTTTCTCACAAACGACGCTATAGAACGTGACTTTTAGCGGCACTTTTCCC
66 GCATTTAACAGCGCTTTTCTCACAAACAACGCTATAGAACGTGACTTTTAACGGCACTTTTCCC
* * * * *
27546202 ACAAACACCGCTATAGAATGT-AGTCTTTAGTGGTGCTTTTTCC-GCAAACGTTACTATAGAACA
1 ACAAACACCACTATAGAATGTGA-CCTTTAGCGGCGCTTTTTCCAG-AAACGTCACTATAGAACA
* * * *
27546265 TGGCATTTAAC-GACGCTTTTC-CTACAAACAACGCTATATAACGT-AGTCTTTAACGTCATTTT
64 TGGCATTTAACAG-CGCTTTTCTC-ACAAACAACGCTATAGAACGTGACT-TTTAACGGCACTTT
*
27546327 TTCC
126 TCCC
* **
27546331 ATAAATGCCACTATAGAA
1 ACAAACACCACTATAGAA
27546349 CTTGGTTTTT
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
128 6 0.05
129 117 0.95
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (129 bp):
ACAAACACCACTATAGAATGTGACCTTTAGCGGCGCTTTTTCCAGAAACGTCACTATAGAACATG
GCATTTAACAGCGCTTTTCTCACAAACAACGCTATAGAACGTGACTTTTAACGGCACTTTTCCC
Found at i:27546717 original size:21 final size:21
Alignment explanation
Indices: 27546692--27546747 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
27546682 TGCTTTGCTC
27546692 TGCTTCCCTCACTGCTGCCTT
1 TGCTTCCCTCACTGCTGCCTT
27546713 TGCTTCCCTCACTGCTGCCTT
1 TGCTTCCCTCACTGCTGCCTT
27546734 TGCTTCCCTCACTG
1 TGCTTCCCTCACTG
27546748 TTGCTTCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.05, C:0.43, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCTTCCCTCACTGCTGCCTT
Found at i:27547216 original size:13 final size:14
Alignment explanation
Indices: 27547190--27547218 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27547180 ACAAACGAAG
27547190 AATTAAACCATTAT
1 AATTAAACCATTAT
27547204 AATTAAA-CATTAT
1 AATTAAACCATTAT
27547217 AA
1 AA
27547219 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:27551267 original size:38 final size:39
Alignment explanation
Indices: 27551136--27551297 Score: 218
Period size: 39 Copynumber: 4.2 Consensus size: 39
27551126 GGACTTTTTC
* * * *
27551136 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
** * * *
27551175 CTAGTTATAATTCTAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27551214 CCGGATATAATTCCAGCACATAGCCTGCGGACCCT-AGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
27551252 CTGGATATAATTCCAGCACATAGCCTGCGGACCCTAGGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
27551291 CCGGATA
1 CCGGATA
27551298 AACATCACTG
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 37 0.35
39 70 0.65
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:27551279 original size:77 final size:78
Alignment explanation
Indices: 27551136--27551297 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 78
27551126 GGACTTTTTC
* * * * * *
27551136 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTCTAGTTATAATTCTAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
*
27551201 GCGGACCTTAAGT
66 GCGGACCCTAAGT
*
27551214 CCGGATATAATTCCAGCACATAGCCTGCGGACCCT-AGTCTGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
*
27551278 GCGGACCCTAGGT
66 GCGGACCCTAAGT
27551291 CCGGATA
1 CCGGATA
27551298 AACATCACTG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 44 0.59
78 31 0.41
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCTAGATATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:27559287 original size:339 final size:335
Alignment explanation
Indices: 27558365--27559368 Score: 1440
Period size: 336 Copynumber: 3.0 Consensus size: 335
27558355 ATCTACGAAC
* * *
27558365 TGTGTTACAAATTTTACGAGAGAAACAACTATTCGTAAAGTTCAGCAAGTGTGAATTTTGGTTAA
1 TGTGTTAC-AATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAA
* * *
27558430 GGGAGGTAGCGTTCTTGGGTTATGT-AGTTTTTCAGAGGGAGTTTGCATAGACGCAAAGAAGATT
65 GGGAGGTAGCATTCTTGGGTTATGTGA-TTTTTCAGAGGGAGTTTGCGTAGACCCAAAGAAGATT
* * * *
27558494 GAGGAAATTTTAGAGTGTAAATGACCAAAAAGTGTTACTGGGGTGCGAAGCTTTAAGAAGTTAGT
129 GAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGT
* * * *
27558559 AGAATACTATGGCAAGTTTGT-AAAAGGGTTCGCCACCATTGCTACACCCATAATAAAGCTATTG
194 AGAATACTATTGCAAGTTTGTGGAAA-GGTTCGCCACCATTGCAACACCCATAATAAAGCTACTG
* * *
27558623 TAAAAAGATGTGGAGTTCGCATGGATAGAGGAAAGAGC-AAAAAGATTTGAAAAACTTAAGATGA
258 TAGAAAGATGTGGAGTTCGCATGGATAGAGGAAAGA-CAAAAAAGCTTTGAAAAACTTAAGGTGA
*
27558687 TGCTCACCTGTAAA
322 TGCTCACCTGCAAA
* * *
27558701 -CTGTTACAAATTCAGCGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAA
1 TGTGTTACAATTTTA-CGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAA
* *
27558765 GGGAGGTAGCATTCTTGGGTTATGTGGTTTTTACGGAGGGAGTTTGCGTAGACCCAAAGAAGATT
65 GGGAGGTAGCATTCTTGGGTTATGTGATTTTT-CAGAGGGAGTTTGCGTAGACCCAAAGAAGATT
* * * *
27558830 GAGGAAATTATAGATTGGAAATGACCAAAAAGTGTTATTGAGGTGCGAAACTTTATGAGGTTAGT
129 GAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGT
* ** *
27558895 AGAATACTATTGCAAGTTTATGGAAAGGTTCGCCACCATTGTGACACCCATAATAAAGCTACTGC
194 AGAATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGT
*
27558960 AGAAAGATGTGGAGTTCGCATAGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATG
259 AGAAAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATG
27559025 CTCACCTGCAAA
324 CTCACCTGCAAA
* * * *
27559037 TTGTGTTACATATTTTATGTGAGAAGCAACTATTCATGAAGCTCAGCAAGTGTGAATTTTTGTTA
1 -TGTGTTACA-ATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTA
* * * *
27559102 AGAGAGGTAGTATTCTTGGGTTATGTGATTTTTGCAGAGGGAGTTTGCGTAAACCCAAAAAAAGA
64 AGGGAGGTAGCATTCTTGGGTTATGTGATTTTT-CAGAGGGAGTTTGCGTAGACCC-AAAGAAGA
* * *
27559167 TTGAGGAGATTTTAGAGTGGAAATGACCAATAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTCA
127 TTGAGGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTA
* * * *
27559232 GTAGAATACTATTACAAATTTGTGGAAATGTTCGCCACCATTGCAATACCCATAATAAAGCTACT
192 GTAGAATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACT
* *
27559297 GTAGAAAGATGTGGAGTTTGTATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGA
257 GTAGAAAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGA
*
27559362 TACTCAC
322 TGCTCAC
27559369 TAAAGCACCT
Statistics
Matches: 595, Mismatches: 64, Indels: 15
0.88 0.09 0.02
Matches are distributed among these distances:
334 5 0.01
335 82 0.14
336 210 0.35
337 3 0.01
338 101 0.17
339 194 0.33
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (335 bp):
TGTGTTACAATTTTACGAGAGAAGCAACTATTCGTGAAGCTCAGCAAGTGTGAATTTTGGTTAAG
GGAGGTAGCATTCTTGGGTTATGTGATTTTTCAGAGGGAGTTTGCGTAGACCCAAAGAAGATTGA
GGAAATTTTAGAGTGGAAATGACCAAAAAGTGTTACTGAGGTGCGAAGCTTTATGAGGTTAGTAG
AATACTATTGCAAGTTTGTGGAAAGGTTCGCCACCATTGCAACACCCATAATAAAGCTACTGTAG
AAAGATGTGGAGTTCGCATGGATAGAGGAAAGACAAAAAAGCTTTGAAAAACTTAAGGTGATGCT
CACCTGCAAA
Found at i:27561732 original size:23 final size:22
Alignment explanation
Indices: 27561681--27561732 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
27561671 CCTCGTCTTT
*
27561681 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
27561703 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
27561726 TTCTTTT
1 TTCTTTT
27561733 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:27565560 original size:81 final size:81
Alignment explanation
Indices: 27565425--27565588 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
27565415 ACCTTAGCCG
*
27565425 AATACCATTTTCTCTCCTTATCTCTGTTCTTTCAGCTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCATTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
27565490 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
*
27565506 AATACCTTTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
1 AATACCATTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
27565571 AAAATCGAACACTTTC
66 AAAATCGAACACTTTC
27565587 AA
1 AA
27565589 CTGTTCTTCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (81 bp):
AATACCATTTTCTCTCCTTATCTCTGTTCTTTCAACTTTCATCAAGCGCCCCTTCTTGTGTTGCT
AAAATCGAACACTTTC
Found at i:27566697 original size:27 final size:26
Alignment explanation
Indices: 27566655--27566904 Score: 263
Period size: 27 Copynumber: 9.4 Consensus size: 26
27566645 CACCTAGACC
*
27566655 CCCTT-TGTGGTAAAATGACTATATTG
1 CCCTTATGTGGT-AAATGACTATTTTG
* * *
27566681 CTCTTGTGTGATTAAATGACTATTTTG
1 CCCTTATGTG-GTAAATGACTATTTTG
27566708 CCCTTATGTGGTAAAGTGACTATTTTG
1 CCCTTATGTGGTAAA-TGACTATTTTG
* * *
27566735 CCCTTATATGGTAAAATAACTA-TGTG
1 CCCTTATGTGGT-AAATGACTATTTTG
27566761 CCCTTATGTGGTAGAATGACTATTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
*
27566788 CCCTTATGTGGTAGAATGACTGTTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
* *
27566815 CCCTTATGTGATAGAATGACTGTTTTG
1 CCCTTATGTGGTA-AATGACTATTTTG
*
27566842 CCCTTATATGGTAAAATGACTATTTTG
1 CCCTTATGTGGT-AAATGACTATTTTG
* * * *
27566869 CCCTTATATGATAAGACGACTGTTTTG
1 CCCTTATGTGGTAA-ATGACTATTTTG
27566896 CCC-TATGTG
1 CCCTTATGTG
27566905 ATGTATGTTT
Statistics
Matches: 195, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 36 0.18
27 153 0.78
28 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (26 bp):
CCCTTATGTGGTAAATGACTATTTTG
Found at i:27566823 original size:107 final size:108
Alignment explanation
Indices: 27566655--27566875 Score: 306
Period size: 107 Copynumber: 2.1 Consensus size: 108
27566645 CACCTAGACC
* * * *
27566655 CCCTT-TGTGGTAAAATGACTATATTGCTCTTGTGTGATTAAATGACTATTTTGCCCTTATGTGG
1 CCCTTATGTGGTAAAATGACTATATTGCCCTTATGTGAGTAAATGACTATTTTGCCCTTATGTGA
27566719 TA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-TGTG
66 TAGAA-TGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
* * *
27566761 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTG-GTAGAATGACTGTTTTGCCCTTATGTG
1 CCCTTATGTGGTAAAATGACTATATTGCCCTTATGTGAGTA-AATGACTATTTTGCCCTTATGTG
* * *
27566825 ATAGAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTG
65 ATAGAATGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
27566869 CCCTTAT
1 CCCTTAT
27566876 ATGATAAGAC
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
106 7 0.07
107 82 0.81
108 12 0.12
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (108 bp):
CCCTTATGTGGTAAAATGACTATATTGCCCTTATGTGAGTAAATGACTATTTTGCCCTTATGTGA
TAGAATGACTATTTTGCCCTTATATGGTAAAATAACTATTGTG
Found at i:27566903 original size:107 final size:107
Alignment explanation
Indices: 27566695--27566904 Score: 291
Period size: 107 Copynumber: 2.0 Consensus size: 107
27566685 TGTGTGATTA
*
27566695 AATGACTATTTTGCCCTTATGTGGTAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
1 AATGACTATTTTGCCCTTATGTGATAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
* * *
27566760 GCCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAG
66 GCCCTTATATGATAGAACGACTATTTTGCCCTTATGTGGTAG
* * *
27566802 AATGACTGTTTTGCCCTTATGTGATAGAA-TGACTGTTTTGCCCTTATATGGTAAAATGACTATT
1 AATGACTATTTTGCCCTTATGTGATA-AAGTGACTATTTTGCCCTTATATGGTAAAATAACTA-T
* *
27566866 TTGCCCTTATATGATA-AGACGACTGTTTTGCCC-TATGTG
64 GTGCCCTTATATGATAGA-ACGACTATTTTGCCCTTATGTG
27566905 ATGTATGTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 62 0.68
108 29 0.32
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (107 bp):
AATGACTATTTTGCCCTTATGTGATAAAGTGACTATTTTGCCCTTATATGGTAAAATAACTATGT
GCCCTTATATGATAGAACGACTATTTTGCCCTTATGTGGTAG
Found at i:27569799 original size:37 final size:37
Alignment explanation
Indices: 27569749--27569827 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27569739 TTATTACGAA
* *
27569749 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27569786 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27569823 GTCTT
1 GTCTT
27569828 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27570024 original size:47 final size:47
Alignment explanation
Indices: 27569946--27570340 Score: 610
Period size: 47 Copynumber: 8.4 Consensus size: 47
27569936 CCCTTCGGGA
* * * * * * *
27569946 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27569993 CCTGTCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27570040 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27570087 CTTATTACAAATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27570134 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27570181 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27570228 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27570275 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27570322 CTTATAACATATATACACT
1 CTTATCACATATATACACT
27570341 GTCTTGGCTG
Statistics
Matches: 318, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 318 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27572530 original size:27 final size:26
Alignment explanation
Indices: 27572500--27572711 Score: 194
Period size: 27 Copynumber: 7.9 Consensus size: 26
27572490 CTTTGTGGGA
* * *
27572500 AAATGACTATATTGCCCCTGTGTGATT
1 AAATGACTATTTTGCCCCTATGTG-GT
*
27572527 AAATGACTATTTTGCCCTTATGTGGT
1 AAATGACTATTTTGCCCCTATGTGGT
*
27572553 AGAATGACTATTTTGCCCTTATGTGGT
1 A-AATGACTATTTTGCCCCTATGTGGT
*
27572580 AGAATGACTGTTTTG-CCCTGATGTGGT
1 A-AATGACTATTTTGCCCCT-ATGTGGT
* *
27572607 AGAATGACTATTTTACCCTTATGTGGT
1 A-AATGACTATTTTGCCCCTATGTGGT
* * *
27572634 AAAATGACTATTTTTCCCTTATATGGT
1 -AAATGACTATTTTGCCCCTATGTGGT
* * *
27572661 AAAATGACTGTTTTGCCCTTATATGGT
1 -AAATGACTATTTTGCCCCTATGTGGT
* *
27572688 AAGATGACTGTTTT-TCCCTATGTG
1 AA-ATGACTATTTTGCCCCTATGTG
27572712 ATGTATGTTT
Statistics
Matches: 164, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.09
27 146 0.89
28 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (26 bp):
AAATGACTATTTTGCCCCTATGTGGT
Found at i:27572569 original size:54 final size:53
Alignment explanation
Indices: 27572488--27572711 Score: 236
Period size: 54 Copynumber: 4.2 Consensus size: 53
27572478 TATCTAGACT
* * * *
27572488 CCCTT-TGTGGGAAAATGACTATATTGCCCCTGTGTGATTAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTG-TTAAATGACTATTTTG
* * *
27572541 CCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAGAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGTTA-AATGACTATTTTG
* * * * *
27572595 CCCTGATGTGGTAGAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTATTTTGCCCTTATGT-GTTAAATGACTATTTTG
* * * * * *
27572649 CCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGGTAAGATGACTGTTTTT
1 CCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGTTAA-ATGACTATTTTG
27572703 CCC-TATGTG
1 CCCTTATGTG
27572712 ATGTATGTTT
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 15 0.10
54 127 0.88
55 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (53 bp):
CCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGTTAAATGACTATTTTG
Found at i:27572613 original size:81 final size:80
Alignment explanation
Indices: 27572526--27572711 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 80
27572516 CCTGTGTGAT
* * * *
27572526 TAAATGACTATTTTGCCCTTATGTGGTAGAATGACTATTTTGCCCTTATGTGGTAGAATGACTGT
1 TAAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGT
*
27572591 TTTGCCCTGATGTGG
66 TTTGCCCTGATATGG
*
27572606 TAGAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTTCCCTTATATGGTAAAATGACTG
1 TA-AATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACTG
*
27572671 TTTTGCCCTTATATGG
65 TTTTGCCCTGATATGG
* *
27572687 TAAGATGACTGTTTTTCCC-TATGTG
1 TAA-ATGACTATTTTACCCTTATGTG
27572712 ATGTATGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 9 0.09
81 86 0.91
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (80 bp):
TAAATGACTATTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGT
TTTGCCCTGATATGG
Found at i:27573074 original size:18 final size:18
Alignment explanation
Indices: 27573051--27573091 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
27573041 TATACTGTTT
*
27573051 CTGCACTGTTTACCGTTA
1 CTGCACTGTTTACCATTA
*
27573069 CTGCACTGTTTACTATTA
1 CTGCACTGTTTACCATTA
27573087 CTGCA
1 CTGCA
27573092 ATGGGCCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.39
Consensus pattern (18 bp):
CTGCACTGTTTACCATTA
Found at i:27574523 original size:16 final size:16
Alignment explanation
Indices: 27574504--27574534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27574494 CTTCTTCACT
27574504 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27574520 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27574535 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27574540 original size:20 final size:20
Alignment explanation
Indices: 27574501--27574540 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27574491 AAACTTCTTC
* *
27574501 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27574521 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27574541 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27574921 original size:55 final size:53
Alignment explanation
Indices: 27574731--27574986 Score: 222
Period size: 55 Copynumber: 4.8 Consensus size: 53
27574721 ACATGGGTAC
* * * * *
27574731 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
27574780 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* *
27574833 CTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGA-CATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
27574888 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
** * **
27574941 CCTTACCAATTGCCATACCTTGGCATGGTCTTACATGATATCCTTG
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
27574987 AACCCTAATG
Statistics
Matches: 175, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 3 0.02
53 48 0.27
54 10 0.06
55 72 0.41
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:27574922 original size:108 final size:110
Alignment explanation
Indices: 27574778--27574977 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
27574768 ATCCTTTTGA
* *
27574778 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
27574841 -TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
27574886 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
27574951 TGCCATACCTTGGCATGGTCTTACATG
66 TGCCATACCTTAGCATGGTCTTACATG
27574978 ATATCCTTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:27582105 original size:16 final size:16
Alignment explanation
Indices: 27582086--27582116 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27582076 CTTCTTCACT
27582086 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27582102 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27582117 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27582122 original size:20 final size:20
Alignment explanation
Indices: 27582083--27582122 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27582073 AAACTTCTTC
* *
27582083 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27582103 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27582123 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27584478 original size:42 final size:42
Alignment explanation
Indices: 27584431--27584516 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
27584421 TTATAGAGAT
27584431 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
1 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
27584473 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
1 AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
27584515 AG
1 AG
27584517 ATCCTCGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (42 bp):
AGTGTGACTCCATGGTGTACCAGTTTCCATTACCTTCAATTG
Found at i:27585491 original size:27 final size:28
Alignment explanation
Indices: 27585437--27585509 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
27585427 TTTTAGGCCT
*
27585437 GGGGAGTTCGCCAGAAGGCTTGACGAGT-
1 GGGG-GTTCGCCAAAAGGCTTGACGAGTA
* * **
27585465 TGGTGTTCGCCAAAAGGCTTGGTGAGTA
1 GGGGGTTCGCCAAAAGGCTTGACGAGTA
*
27585493 GGGGGTTCACCAAAAGG
1 GGGGGTTCGCCAAAAGG
27585510 ATTAGAGAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.23, C:0.16, G:0.40, T:0.21
Consensus pattern (28 bp):
GGGGGTTCGCCAAAAGGCTTGACGAGTA
Found at i:27588146 original size:51 final size:51
Alignment explanation
Indices: 27588070--27588245 Score: 160
Period size: 51 Copynumber: 3.5 Consensus size: 51
27588060 TAGGTTATGT
* * *** *
27588070 GTGTAGTACTAAGTGCATGCTACTATGCGTACCCGATAGCTTTGATCACAT
1 GTGTAGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAA
* *
27588121 GTGT-GCTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAA
1 GTGTAG-TACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAA
* * * * *
27588172 GTGTAGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA-CTACAA
1 GTGTAGTACTAAGTGCAGGCCACTATGCGTAA-AAGATAGCTTTGATC-ACAA
* * *
27588223 GGGTGGTACTATGTGCAGGCCAC
1 GTGTAGTACTAAGTGCAGGCCAC
27588246 CGGGCATCCG
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
50 4 0.04
51 100 0.95
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (51 bp):
GTGTAGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTTGATCACAA
Found at i:27600224 original size:21 final size:21
Alignment explanation
Indices: 27600200--27600239 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27600190 TTAATCTTTC
*
27600200 ATCATTCAACCATATTAAGTT
1 ATCAATCAACCATATTAAGTT
*
27600221 ATCAATCAACCATTTTAAG
1 ATCAATCAACCATATTAAG
27600240 GCTACTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (21 bp):
ATCAATCAACCATATTAAGTT
Found at i:27615427 original size:30 final size:30
Alignment explanation
Indices: 27615393--27615454 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
27615383 CTTAACAAGT
* *
27615393 AAATGGCTCTAAAGTAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
* *
27615423 AAATGCCTTTAAAATAATAAGAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
27615453 AA
1 AA
27615455 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:27616344 original size:159 final size:155
Alignment explanation
Indices: 27616024--27616346 Score: 369
Period size: 159 Copynumber: 2.1 Consensus size: 155
27616014 GACATTTGGA
* *
27616024 TAAAAAACGCCGCTATAGATCAAGCATTAGTGACGCTTTTTAAAAAATGCCGCTATAGGTAGACC
1 TAAAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACC
* * * * * * * * **
27616089 ATTAGCGGCATTTTTTGAAAAATACCACAAAAAAATTAAGCACAATGCCGTCATTTTATGTTAAG
66 ATTAACAGCACTTTCTGAAAAAGACCAAAAAAAAAGTAAGCACAACGCAATCATTTTATGTTAAG
*
27616154 CTTTAGTGGCACTAGCAGCACTTTT
131 CGTTAGTGGCACTAGCAGCACTTTT
* * * * *
27616179 TGAAAAATGCCACTATAGATCGAGCATTAGCGATGCTTTTTAAAAAAATGCCGCTATAGGTTGAC
1 TAAAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTT-AAAAAATGCCGCTATAGGTAGAC
* * * *
27616244 CATTAACAGCGCTTTCTGAAAAGCGCCGCAAAAAAAAAAGTAAGCACAACGCAATCGTTTTATGT
65 CATTAACAGCACTTTCTGAAAA-AGAC-C-AAAAAAAAAGTAAGCACAACGCAATCATTTTATGT
* * *
27616309 TGAGCGTTAGTGGCATTAGC-GACGCTTTT
127 TAAGCGTTAGTGGCACTAGCAG-CACTTTT
27616338 TAAAAAACG
1 TAAAAAACG
27616347 TCGCAAAAAT
Statistics
Matches: 136, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
155 35 0.26
156 39 0.29
157 1 0.01
158 2 0.01
159 59 0.43
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (155 bp):
TAAAAAACGCCACTATAGATCAAGCATTAGCGACGCTTTTTAAAAAATGCCGCTATAGGTAGACC
ATTAACAGCACTTTCTGAAAAAGACCAAAAAAAAAGTAAGCACAACGCAATCATTTTATGTTAAG
CGTTAGTGGCACTAGCAGCACTTTT
Found at i:27616736 original size:22 final size:22
Alignment explanation
Indices: 27616711--27616757 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
27616701 GAGTTACAAT
*
27616711 TTTAAGGTA-TATGGATTATGGG
1 TTTAAGGGATTATGGATTAT-GG
*
27616733 TTT-AGGGATTATGGTTTATGG
1 TTTAAGGGATTATGGATTATGG
27616754 TTTA
1 TTTA
27616758 TGGTTTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGGATTATGGATTATGG
Found at i:27616753 original size:7 final size:7
Alignment explanation
Indices: 27616720--27616764 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
27616710 TTTTAAGGTA
*
27616720 TATGGAT
1 TATGGTT
27616727 TATGGGTT
1 TAT-GGTT
* *
27616735 TAGGGAT
1 TATGGTT
27616742 TATGGTT
1 TATGGTT
27616749 TATGGTT
1 TATGGTT
27616756 TATGGTT
1 TATGGTT
27616763 TA
1 TA
27616765 AGAGTTGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TATGGTT
Found at i:27616800 original size:21 final size:21
Alignment explanation
Indices: 27616776--27616850 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
27616766 GAGTTGGGAT
27616776 TTAAGGTTTAGGGGTTAGGGG
1 TTAAGGTTTAGGGGTTAGGGG
** *
27616797 TTAA-GTGTTAGAGATTTAGGGT
1 TTAAGGT-TTAG-GGGTTAGGGG
** *
27616819 TTAAGGGATA-AGGTTAGGGG
1 TTAAGGTTTAGGGGTTAGGGG
27616839 TTTAAGGTTTAG
1 -TTAAGGTTTAG
27616851 ATTAATTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 9
0.66 0.19 0.16
Matches are distributed among these distances:
20 8 0.21
21 16 0.42
22 13 0.34
23 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (21 bp):
TTAAGGTTTAGGGGTTAGGGG
Found at i:27619031 original size:48 final size:48
Alignment explanation
Indices: 27618960--27619098 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
27618950 GGTAAATTAT
27618960 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * * * *
27619008 CGATGCCATGTCCCA-AGTATGGTCTTACATTGGCTCTCATAACGTGGC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCACATATCGAGGC
* * * *
27619056 TGATGTCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
27619099 ACCCAAACGT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 74 0.97
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
Found at i:27622788 original size:9 final size:9
Alignment explanation
Indices: 27622774--27623102 Score: 212
Period size: 9 Copynumber: 36.9 Consensus size: 9
27622764 TTCTTTAAAA
27622774 TTACATAAC
1 TTACATAAC
*
27622783 TTACATATC
1 TTACATAAC
*
27622792 TTACATAAA
1 TTACATAAC
*
27622801 TGT--ATATC
1 T-TACATAAC
*
27622809 ATATCATAAC
1 TTA-CATAAC
*
27622819 TTACATACC
1 TTACATAAC
*
27622828 TCACATAAC
1 TTACATAAC
*
27622837 ATACATAAC
1 TTACATAAC
27622846 TTACATAAC
1 TTACATAAC
27622855 TT--ATAA-
1 TTACATAAC
* * *
27622861 ATATATATC
1 TTACATAAC
* *
27622870 ATATCAAAAC
1 TTA-CATAAC
27622880 TTACATAAC
1 TTACATAAC
27622889 TTACATAA-
1 TTACATAAC
27622897 -TACATAA-
1 TTACATAAC
* * *
27622904 ATATATATC
1 TTACATAAC
* *
27622913 ATATCATAAA
1 TTA-CATAAC
27622923 TGT-CATAAC
1 T-TACATAAC
*
27622932 TTATATAAC
1 TTACATAAC
27622941 TTACATAAC
1 TTACATAAC
*
27622950 TTACATAAT
1 TTACATAAC
27622959 TTACATAAC
1 TTACATAAC
*
27622968 TTACATAAT
1 TTACATAAC
*
27622977 TTACATAAT
1 TTACATAAC
27622986 TTACATAAC
1 TTACATAAC
*
27622995 TTACATAAT
1 TTACATAAC
27623004 TTACATAA-
1 TTACATAAC
*
27623012 TGTACATAAT
1 T-TACATAAC
*
27623022 TTACATAAT
1 TTACATAAC
*
27623031 TTTCATAAC
1 TTACATAAC
*
27623040 TTACATAAT
1 TTACATAAC
* *
27623049 TTACATGAT
1 TTACATAAC
*
27623058 TTACATTAAT
1 TTACA-TAAC
*
27623068 TTTCATAAC
1 TTACATAAC
* **
27623077 TTACCTATT
1 TTACATAAC
27623086 TTACATAA-
1 TTACATAAC
27623094 TTGACATAA
1 TT-ACATAA
27623103 ATAAATATCA
Statistics
Matches: 254, Mismatches: 49, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
6 1 0.00
7 12 0.05
8 15 0.06
9 202 0.80
10 23 0.09
11 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:27622818 original size:36 final size:34
Alignment explanation
Indices: 27622777--27622896 Score: 112
Period size: 34 Copynumber: 3.6 Consensus size: 34
27622767 TTTAAAATTA
*
27622777 CATAACTTACATATCTTACATAAATGTATATCATAT
1 CATAACTTACATAACTT-CATAAAT-TATATCATAT
* *
27622813 CATAACTTACAT-ACCTC--ACA-TA-A-CATA-
1 CATAACTTACATAACTTCATAAATTATATCATAT
27622840 CATAACTTACATAACTT-ATAAATATATATCATAT
1 CATAACTTACATAACTTCATAAAT-TATATCATAT
*
27622874 CAAAACTTACATAACTTACATAA
1 CATAACTTACATAACTT-CATAA
27622897 TACATAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
27 12 0.18
28 7 0.10
29 3 0.04
30 2 0.03
31 2 0.03
32 3 0.04
33 4 0.06
34 17 0.25
35 2 0.03
36 16 0.24
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (34 bp):
CATAACTTACATAACTTCATAAATTATATCATAT
Found at i:27622872 original size:61 final size:60
Alignment explanation
Indices: 27622775--27623029 Score: 215
Period size: 61 Copynumber: 4.3 Consensus size: 60
27622765 TCTTTAAAAT
* * *
27622775 TACATAACTTACATATCTTACATAAATGTATATCATATCATAACTTACATACCTCACATAACA
1 TACATAACTTACATAACTT--ATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
* *
27622838 TACATAACTTACATAACTTATAAATATATATCATATCAAAACTTACATAACTTACAT-AA
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
* * * * * *
27622897 TACATAAATATATATCATA-TCATAAATGTCATAACTTAT-ATAACTTACATAACTTACATAATT
1 TACATAACT-TACAT-A-ACTTATAAATGT-ATATCATATCATAACTTACATAACTTACATAA-A
* * * *
27622960 TACATAACTTACATAA-TT-TACA--TA-AT-TTA-CATAACTTACATAATTTACATAATG
1 TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAA-A
*
27623014 TACATAATTTACATAA
1 TACATAACTTACATAA
27623030 TTTTCATAAC
Statistics
Matches: 164, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
54 40 0.24
55 1 0.01
56 1 0.01
57 1 0.01
59 12 0.07
60 7 0.04
61 63 0.38
62 13 0.08
63 26 0.16
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (60 bp):
TACATAACTTACATAACTTATAAATGTATATCATATCATAACTTACATAACTTACATAAA
Found at i:27622887 original size:43 final size:44
Alignment explanation
Indices: 27622838--27622943 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 44
27622828 TCACATAACA
27622838 TACATAACTTACATAACTTATAAATATATATCATATCA-AAACT-
1 TACATAACTTACATAACTTATAAATATATATCATATCATAAA-TG
*
27622881 TACATAACTTACATAA-TACATAAATATATATCATATCATAAATG
1 TACATAACTTACATAACT-TATAAATATATATCATATCATAAATG
*
27622925 T-CATAACTTATATAACTTA
1 TACATAACTTACATAACTTA
27622944 CATAACTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
42 1 0.02
43 50 0.89
44 5 0.09
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (44 bp):
TACATAACTTACATAACTTATAAATATATATCATATCATAAATG
Found at i:27627412 original size:21 final size:20
Alignment explanation
Indices: 27627383--27627426 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
27627373 CCTCCTATTT
27627383 TTTTATTTATTCTAATTTTTA
1 TTTTATTTATT-TAATTTTTA
* *
27627404 TTTTCTTTATTTTATTTTTA
1 TTTTATTTATTTAATTTTTA
27627424 TTT
1 TTT
27627427 CACTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATTTATTTAATTTTTA
Found at i:27627445 original size:24 final size:25
Alignment explanation
Indices: 27627410--27627470 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
27627400 TTTATTTTCT
* *
27627410 TTATTTTATTTTTATTTCACTTTTGA
1 TTATTTTATTTTCATTTCAATTTT-A
27627436 -T-TTTTATTTTCATTTCAATTTTA
1 TTATTTTATTTTCATTTCAATTTTA
27627459 TTATTTTATTTT
1 TTATTTTATTTT
27627471 GAAAGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.03
24 20 0.65
25 10 0.32
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (25 bp):
TTATTTTATTTTCATTTCAATTTTA
Found at i:27630367 original size:13 final size:13
Alignment explanation
Indices: 27630351--27630375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27630341 TTAAATCAGT
27630351 TAATTAGTTTAAA
1 TAATTAGTTTAAA
27630364 TAATTAGTTTAA
1 TAATTAGTTTAA
27630376 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:27631697 original size:6 final size:6
Alignment explanation
Indices: 27631660--27631693 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
27631650 TGTTAGTTTT
27631660 TTTCCA TTTCCA TTTCCA TTTCCA TTTCC- TTTCC
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCC
27631694 CTTTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTCCA
Found at i:27657669 original size:7 final size:7
Alignment explanation
Indices: 27657657--27657681 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27657647 GCGTGTTTGC
27657657 TGCAACT
1 TGCAACT
27657664 TGCAACT
1 TGCAACT
27657671 TGCAACT
1 TGCAACT
27657678 TGCA
1 TGCA
27657682 GACGAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (7 bp):
TGCAACT
Found at i:27662796 original size:30 final size:30
Alignment explanation
Indices: 27662760--27662825 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
27662750 AAACCGTCAT
* *
27662760 TTTTCATTAATTGATTGTCA-TCACCATCCC
1 TTTTCATTAATTGATGGT-AGTCACCACCCC
*
27662790 TTTTCA-TAGTTGATGGTAGTCACCACCCC
1 TTTTCATTAATTGATGGTAGTCACCACCCC
27662819 TTTTCAT
1 TTTTCAT
27662826 AATCGATAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTTCATTAATTGATGGTAGTCACCACCCC
Found at i:27662848 original size:29 final size:29
Alignment explanation
Indices: 27662816--27663035 Score: 214
Period size: 29 Copynumber: 7.6 Consensus size: 29
27662806 TAGTCACCAC
* *
27662816 CCCTTTTCATAATCGATAGCCAAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* *
27662845 CCC-TTTCATATACAATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
* * * *
27662873 CCCTTTTCATATTCGATGGTCGTCA-CCAT
1 CCCTTTTCATATTCGATAGCCG-AAGCTAT
* * * * *
27662902 CTCTTTTCATAGTT-GATGGTCGTCA-CCAT
1 CCCTTTTCATA-TTCGATAGCCG-AAGCTAT
* *
27662931 CTCTTTTCATAATCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
*
27662960 CCCTTTTTATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
***
27662989 TAGTTTTCATATTCGATAGCCGAAGCTAT
1 CCCTTTTCATATTCGATAGCCGAAGCTAT
27663018 CCCTTTTCATATTCGATA
1 CCCTTTTCATATTCGATA
27663036 ATCGTCGATA
Statistics
Matches: 160, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
28 26 0.16
29 131 0.82
30 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (29 bp):
CCCTTTTCATATTCGATAGCCGAAGCTAT
Found at i:27662937 original size:115 final size:116
Alignment explanation
Indices: 27662780--27663005 Score: 346
Period size: 115 Copynumber: 2.0 Consensus size: 116
27662770 TTGATTGTCA
27662780 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
1 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
*
27662845 CCC-TTTCATATACAATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCG
66 CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGATGGTCG
* * * * *
27662895 TCACCATCTCTTTTCATAGTTGATGGTCGTCACCATCTCTTTTCATAATCGATAGCCGAAGCTAT
1 TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
* * * * *
27662960 CCCTTTTTATATTCGATAGCCGAAGCTATTAGTTTTCATATTCGAT
66 CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGAT
27663006 AGCCGAAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
115 63 0.64
116 36 0.36
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.36
Consensus pattern (116 bp):
TCACCATCCCTTTTCATAGTTGATGGTAGTCACCACCCCTTTTCATAATCGATAGCCAAAGCTAT
CCCTTTTCATATACAATAGCCGAAGCTATCACTTTTCATATTCGATGGTCG
Found at i:27664853 original size:24 final size:24
Alignment explanation
Indices: 27664825--27664872 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27664815 CTTGACAACA
27664825 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
27664849 ACACCTTTACGCTTGATCTTAGGT
1 ACACCTTTACGCTTGATCTTAGGT
27664873 GTGTTCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
ACACCTTTACGCTTGATCTTAGGT
Found at i:27668911 original size:40 final size:40
Alignment explanation
Indices: 27668813--27669075 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27668803 TCCTCGTTCA
* * * * *
27668813 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27668852 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27668892 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27668932 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27668972 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
27669012 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27669052 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27669076 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27672444 original size:44 final size:44
Alignment explanation
Indices: 27672395--27672493 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
27672385 TAACATTCCC
27672395 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTTCGT
1 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTTCGT
* *
27672439 ACACTTAGTGCTTTAAGGGTTAGCCGATGCTAGAACAATTTTGT
1 ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTTCGT
27672483 ACACTTAGTGC
1 ACACTTAGTGC
27672494 CATTTCAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
ACACTTAGTGCTTTAAGGGTTAGCCCATGCTAGAACAATTTCGT
Found at i:27677091 original size:43 final size:43
Alignment explanation
Indices: 27677044--27677161 Score: 209
Period size: 43 Copynumber: 2.7 Consensus size: 43
27677034 GCATTACGCT
*
27677044 TGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
27677087 TGCTAGGCACAAAGGCCCGAATACACATCACCGGCATGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
27677130 TGCTAGGCACGAAGGCCCGAATACACATCACC
1 TGCTAGGCACGAAGGCCCGAATACACATCACC
27677162 TGTAACACCC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:27678586 original size:40 final size:40
Alignment explanation
Indices: 27678525--27678771 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
27678515 CGGAATTTAG
* * * *
27678525 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
27678565 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
27678605 CCGGAT-ATATCAACTGGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
27678645 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
27678685 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
27678725 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
27678765 CCGGATA
1 CCGGATA
27678772 TCATTCAAAT
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 181 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:27680848 original size:43 final size:43
Alignment explanation
Indices: 27680800--27680928 Score: 233
Period size: 43 Copynumber: 3.0 Consensus size: 43
27680790 TTTGGGCTGT
27680800 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
*
27680843 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATA
1 CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
27680886 CACATCACCGGCACTAAGCCTAG-TAGGCACGAAGGCCCGAATA
1 CACATCACCGGCACTAAGCCT-GCTAGGCACGAAGGCCCGAATA
27680929 TAATACCAGC
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
43 82 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
CACATCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
Found at i:27686456 original size:45 final size:45
Alignment explanation
Indices: 27686368--27686481 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
27686358 CTGACATTTC
* *
27686368 GCCTGTTAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGAATTATA
27686411 GCCTGCTAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGAATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGGAATTATA
** * *
27686456 GTTTGCTAAGCTCAAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAGGCCCGAATA
27686482 ATCAAGTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 13 0.21
44 8 0.13
45 39 0.64
46 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGAATTATA
Found at i:27686859 original size:43 final size:43
Alignment explanation
Indices: 27686811--27686965 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
27686801 CCGGCATTAC
*
27686811 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
* * *
27686854 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
*
27686897 GCCTGCTAGGGACGAAGGCCCGAATACACATCACCGGTACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
27686940 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
27686966 TAATACCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACTAA
Found at i:27686956 original size:86 final size:84
Alignment explanation
Indices: 27686811--27686986 Score: 289
Period size: 86 Copynumber: 2.1 Consensus size: 84
27686801 CCGGCATTAC
27686811 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCG
*
27686876 AATACACATCATCAGCACTAA
66 AATACA-AT-ACCAGCACTAA
* *
27686897 GCCTGCTAGGGACGAAGGCCCGAATACACATCACCGGTACTAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCG
* *
27686962 AATATAATACCAGCACTAG
66 AATACAATACCAGCACTAA
27686981 GCCTGC
1 GCCTGC
27686987 GGGATTTATC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
84 15 0.18
85 2 0.02
86 68 0.80
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (84 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCG
AATACAATACCAGCACTAA
Found at i:27687006 original size:38 final size:38
Alignment explanation
Indices: 27686958--27687041 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
27686948 GGCACGAAGG
* * *
27686958 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
27686996 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
27687034 CCCGAATA
1 CCCGAATA
27687042 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:27690849 original size:40 final size:40
Alignment explanation
Indices: 27690772--27690929 Score: 219
Period size: 40 Copynumber: 4.0 Consensus size: 40
27690762 CGGATGTAAC
* * * *
27690772 AACCAGCACAAATGCCTTCGGCACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
* *
27690812 AACCCACACGAATTG-CTTTGGGACTTACCCCGGTTATAAT
1 AACCCGCACGAA-TGCCTTTGGGACTTAACCCGGTTATAAT
*
27690852 AACCCGCACGAATGCCTTTGGGACTTAACCCTGTTATAAT
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
* *
27690892 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATA
27690930 TTTTTTCCAG
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.02
40 100 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
Found at i:27699162 original size:40 final size:40
Alignment explanation
Indices: 27699104--27699261 Score: 271
Period size: 40 Copynumber: 4.0 Consensus size: 40
27699094 CGGATGTAAC
* * *
27699104 AACCAGCACAAATACCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
27699144 AACCCGCACGAATGCCTTCGGGACTTACCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
27699184 AACCCGCACGAATGCCTTCGGGACTTAACCCTGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
27699224 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
27699262 TTTTTTTCCA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:27704375 original size:26 final size:26
Alignment explanation
Indices: 27704341--27704393 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
27704331 CTTCTTTTTT
*
27704341 AATAATGCATTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
*
27704367 AATAGTGCACTTGGAAATAATTTTGA
1 AATAATGCACTTGGAAATAATTTTGA
27704393 A
1 A
27704394 CTCTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (26 bp):
AATAATGCACTTGGAAATAATTTTGA
Found at i:27709602 original size:47 final size:48
Alignment explanation
Indices: 27709543--27709766 Score: 232
Period size: 47 Copynumber: 4.8 Consensus size: 48
27709533 TGGGTAAGGT
27709543 GCCGATGCCATGTCCCAGACATGATCTTACACTAGCTAAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTAATCATCTCGAA
** *
27709590 GTTGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTAATCATCTCGAA
* * *
27709638 GCCGATG-CATGTCCCAGACATGTTTTACACTAGCTTA-CATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGAA
* * * *
27709684 GCCGAT-ACATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTC-AGT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGA-A
* *
27709730 GTCGATGCCTTGTCCCAGACATGGTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT
27709767 TCCATAATTT
Statistics
Matches: 149, Mismatches: 16, Indels: 22
0.80 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 63 0.42
47 65 0.44
48 20 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTAATCATCTCGAA
Found at i:27709793 original size:94 final size:93
Alignment explanation
Indices: 27709543--27709814 Score: 270
Period size: 94 Copynumber: 2.9 Consensus size: 93
27709533 TGGGTAAGGT
* * **
27709543 GCCGATGCCATGTCCCAGACATGATCTTACACTAGC-TA-ATATCTCAAGTTGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTTACATATC-GAGGCCGATG-CATGTCCC
27709606 AGACATGGTCTTACACT-G-ACTATCATCTCGTA
62 AGACAT-GTCTTACACTAGCAC-ATCATCTCGTA
* * *
27709638 GCCGATGCATGTCCCAGACATGTTTTACACTAGCTTACATCTCGAGGCCGATACATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGAC
*
27709703 ATGTCTTACACTAGCAC-TCGTCTCAGT-
66 ATGTCTTACACTAGCACATCATCTC-GTA
* * * **
27709730 GTCGATGCCTTGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-TTGGCCGATGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-ATCGAGGCCGATGCATGTCCCA
* *
27709794 AACATGTTTTACACTAGCACA
63 GACATGTCTTACACTAGCACA
27709815 CACAAGTGAC
Statistics
Matches: 150, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
92 22 0.15
93 41 0.27
94 75 0.50
95 12 0.08
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACATCATCTCGTA
Found at i:27709803 original size:140 final size:140
Alignment explanation
Indices: 27709551--27709811 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 140
27709541 GTGCCGATGC
27709551 CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
* *
27709616 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTTTTACACTAGCTTACATCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGCTTACATCTC
27709681 GAGGCCGATA
131 GAGGCCGATA
* * *
27709691 CATGTCCCAGACATG-TCTTACACTAGC-ACTCGTCTC-AGTGTCGATGCCTTGTCCCAGACATG
1 CATGTCCCAGACATGATCTTACACTAGCTAAT-ATCTCAAGT-T-GATGCCATGTCCCAGACATG
* *
27709753 GTCTTACACT-AGCT-TCCATAAT-TTGGCCGATGCATGTCCCAAACATGTTTTACACTAGC
63 GTCTTACACTGA-CTAT-CAT-ATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGC
27709812 ACACACAAGT
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
138 5 0.05
139 19 0.18
140 83 0.77
141 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGATCTTACACTAGCTAATATCTCAAGTTGATGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAACATGTTTTACACTAGCTTACATCTC
GAGGCCGATA
Found at i:27715596 original size:27 final size:26
Alignment explanation
Indices: 27715566--27715651 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
27715556 ATATACAATG
27715566 AATCAATATAAGCCAATACATATGGCT
1 AATCAATATAAG-CAATACATATGGCT
* ***
27715593 AATC-ATAATAGTAGCTAT-CATAAAACT
1 AATCAAT-ATA--AGCAATACATATGGCT
27715620 AATCAATATAAGACAATACATATGGCT
1 AATCAATATAAG-CAATACATATGGCT
27715647 AATCA
1 AATCA
27715652 TAATAGTAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 2 0.04
26 5 0.11
27 31 0.69
28 5 0.11
29 2 0.04
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (26 bp):
AATCAATATAAGCAATACATATGGCT
Found at i:27715630 original size:54 final size:54
Alignment explanation
Indices: 27715566--27715675 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
27715556 ATATACAATG
* *
27715566 AATCAATATAAGCCAATACATATGGCTAATCATAATAGTAGCTATCATAAAACT
1 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
27715620 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
1 AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
27715674 AA
1 AA
27715676 GTCCCTATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.26
Consensus pattern (54 bp):
AATCAATATAAGACAATACATATGGCTAATCATAATAGTAGCTACCATAAAACT
Found at i:27715668 original size:27 final size:26
Alignment explanation
Indices: 27715582--27715664 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
27715572 TATAAGCCAA
27715582 TACATATGGCTAATCATAATAGTAGC
1 TACATATGGCTAATCATAATAGTAGC
***
27715608 TATCATAAAACTAATC--AATA-TAAGAC
1 TA-CATATGGCTAATCATAATAGT-AG-C
27715634 AATACATATGGCTAATCATAATAGTAGC
1 --TACATATGGCTAATCATAATAGTAGC
27715662 TAC
1 TAC
27715665 CATAAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 6 0.14
27 20 0.47
28 3 0.07
29 6 0.14
30 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (26 bp):
TACATATGGCTAATCATAATAGTAGC
Found at i:27715675 original size:27 final size:26
Alignment explanation
Indices: 27715591--27715675 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 26
27715581 ATACATATGG
27715591 CTAATCATAATAGTAGCTATCATAAAA
1 CTAATCATAATAGTAGCTA-CATAAAA
***
27715618 CTAATC--AATA-TAAGACAATACATATGG
1 CTAATCATAATAGT-AG-C--TACATAAAA
27715645 CTAATCATAATAGTAGCTACCATAAAA
1 CTAATCATAATAGTAGCTA-CATAAAA
27715672 CTAA
1 CTAA
27715676 GTCCCTATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 3 0.07
27 24 0.55
28 3 0.07
29 6 0.14
30 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (26 bp):
CTAATCATAATAGTAGCTACATAAAA
Found at i:27716987 original size:43 final size:43
Alignment explanation
Indices: 27716917--27717000 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
27716907 TACATGAATC
* *
27716917 GCATCCATTATGAACTTGGACCACTCAACGAGCTCGGATGCTT
1 GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGCTT
* *
27716960 GCATCCATAATGAACTTAGACCTCTCAACGAGCTTGGATGC
1 GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGC
27717001 CACATAGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
GCATCCATAATGAACTTAGACCACTCAACGAGCTCGGATGCTT
Found at i:27717030 original size:42 final size:43
Alignment explanation
Indices: 27716928--27717049 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 43
27716918 CATCCATTAT
** * *
27716928 GAACTTGGACCACTCAACGAGCTCGGATGCTTGCATCCATAAT
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
* * * * *
27716971 GAACTTAGACCTCTCAACGAGCTTGGATGC-CACATAGATCAC
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
* * * *
27717013 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATA
1 GAACTTGGACCACTCAACGAGCTCGGATGCTCACATA
27717050 TATCACAAAC
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GAACTTGGACCACTCAACGAGCTCGGATGCTCACATACATAAC
Found at i:27719763 original size:15 final size:15
Alignment explanation
Indices: 27719704--27719763 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
27719694 TATAGATAAC
* *
27719704 AAGAAAACCAAGATT
1 AAGAAATCCAAGATA
*
27719719 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
27719734 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
27719749 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
27719764 CAATATCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:27724577 original size:22 final size:23
Alignment explanation
Indices: 27724532--27724586 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
27724522 ATTCACTAAT
* *
27724532 TCATCACAATATCATCTATTTCA
1 TCATCACAAAATCATCTATATCA
27724555 T-ATCACAAAACTCATC-ATATCA
1 TCATCACAAAA-TCATCTATATCA
*
27724577 TCATCTCAAA
1 TCATCACAAA
27724587 CCAAACCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (23 bp):
TCATCACAAAATCATCTATATCA
Found at i:27725269 original size:41 final size:43
Alignment explanation
Indices: 27725179--27725270 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 43
27725169 TGTTTAGCCG
** **
27725179 AAGCTATAACGATATCGCACACTTAGTGCCATCACATTGAACTG
1 AAGCTATAACGATATCGCACACTTAGTGCCA-CACATAAAACCA
* *
27725223 GAGCTATATCGATATCGCACACTTAGTG-C-CACATAAAACCA
1 AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
27725264 AAGCTAT
1 AAGCTAT
27725271 TTCAATTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
41 14 0.34
43 1 0.02
44 26 0.63
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (43 bp):
AAGCTATAACGATATCGCACACTTAGTGCCACACATAAAACCA
Found at i:27727195 original size:12 final size:12
Alignment explanation
Indices: 27727180--27727212 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
27727170 TACACGGGTA
27727180 AGAACACGAGTT
1 AGAACACGAGTT
27727192 AGAACACGAGTT
1 AGAACACGAGTT
27727204 AGAACACGA
1 AGAACACGA
27727213 CTATGTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (12 bp):
AGAACACGAGTT
Found at i:27730555 original size:46 final size:45
Alignment explanation
Indices: 27730456--27730602 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 45
27730446 ACTCGAGAAA
* * *
27730456 CTCGTACACTTAGTGCCAA-ATA-A-ATAG-CGAAGCTATATCAGT
1 CTCGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCA-T
*
27730498 CTTGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTC-AT
* * *
27730544 CTCGCATACTAAGTG----TAAATATATAGCCGAAGTTATCTCAAT
1 CTCGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTC-AT
*
27730586 TTCGCACACTAAGTGCC
1 CTCGCACACTAAGTGCC
27730603 CAAAATTAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 53 0.61
43 3 0.03
44 1 0.01
45 4 0.05
46 25 0.29
47 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
CTCGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCAT
Found at i:27731290 original size:25 final size:25
Alignment explanation
Indices: 27731262--27731339 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
27731252 AAAATGAGTT
27731262 AAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
* ** * ***
27731287 AAAA--GCTTGCAAAAATTCAAGCCC
1 AAAATTGCTTAC-CTAATTGAAGGAG
*
27731311 TAAATTGCTTACCTAATTGAAGGAG
1 AAAATTGCTTACCTAATTGAAGGAG
27731336 AAAA
1 AAAA
27731340 GCTTGCCAAA
Statistics
Matches: 34, Mismatches: 16, Indels: 6
0.61 0.29 0.11
Matches are distributed among these distances:
23 5 0.15
24 10 0.29
25 14 0.41
26 5 0.15
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAATTGCTTACCTAATTGAAGGAG
Found at i:27731320 original size:49 final size:49
Alignment explanation
Indices: 27731263--27731364 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
27731253 AAATGAGTTA
27731263 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
* *
27731312 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCCAAAATTCAAGCTCT
1 AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
27731361 AAAT
1 AAAT
27731365 GGATTTTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (49 bp):
AAATTGCTTACCTAATTGAAGGAGAAAAGCTTGCAAAAATTCAAGCCCT
Found at i:27731352 original size:24 final size:24
Alignment explanation
Indices: 27731276--27731352 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
27731266 TTGCTTACCT
*
27731276 AATTGAAGGAGAAAAGCTTGCAAA
1 AATTGAAGGAGAAAAGCTTGCCAA
* *** * * *
27731300 AATTCAAGCCCTAAATTGCTTACC-T
1 AATTGAAG-GAGAAA-AGCTTGCCAA
27731325 AATTGAAGGAGAAAAGCTTGCCAA
1 AATTGAAGGAGAAAAGCTTGCCAA
27731349 AATT
1 AATT
27731353 CAAGCTCTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
23 6 0.17
24 14 0.40
25 10 0.29
26 5 0.14
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (24 bp):
AATTGAAGGAGAAAAGCTTGCCAA
Found at i:27738694 original size:6 final size:6
Alignment explanation
Indices: 27738683--27738725 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
27738673 AGGCAACCCA
*
27738683 ATTTTT A-TTTT -TCTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT
27738726 ATTTTATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 7 0.21
6 26 0.79
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:27739140 original size:3 final size:3
Alignment explanation
Indices: 27739132--27739164 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
27739122 ATGCTGATTT
27739132 TTG TTG TTG TTG TTG TTG TT- TTGG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TT-G TTG TTG TTG
27739165 CCCATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:27739845 original size:97 final size:97
Alignment explanation
Indices: 27739665--27739849 Score: 264
Period size: 97 Copynumber: 1.9 Consensus size: 97
27739655 TTTTTAAGAA
* * *
27739665 TATGTTAGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGGTTC
1 TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
* * *
27739730 GATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 AATATATTCTAAAGAAAAATAAAAATTAGGAG
* * *
27739762 TATGTTGGGCTAAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTTACATC-AAAAGGTTC
1 TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
*
27739826 AATATATTCCTAAATAAAAATAAA
66 AATATATT-CTAAAGAAAAATAAA
27739850 TAAATAAAGT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 15 0.19
97 62 0.81
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (97 bp):
TATGTTAGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACATCAAAAAGGTTC
AATATATTCTAAAGAAAAATAAAAATTAGGAG
Found at i:27740473 original size:14 final size:13
Alignment explanation
Indices: 27740454--27740491 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
27740444 ATTTAATTTT
27740454 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
27740468 TAATTATTAAGGA
1 TAATTATTTAGGA
27740481 TAATTATTTAG
1 TAATTATTTAG
27740492 CTTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:27740547 original size:10 final size:10
Alignment explanation
Indices: 27740517--27740564 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
27740507 TTATTTCTAT
27740517 TTATCTTTAA
1 TTATCTTTAA
*
27740527 CTATCTTTAA
1 TTATCTTTAA
27740537 TTATCTTTAA
1 TTATCTTTAA
*
27740547 TTAT-TTGTAT
1 TTATCTT-TAA
27740557 TTATCTTT
1 TTATCTTT
27740565 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:27755973 original size:47 final size:46
Alignment explanation
Indices: 27755821--27755995 Score: 158
Period size: 47 Copynumber: 3.8 Consensus size: 46
27755811 CGTAACCCGC
* * * * * *
27755821 CCATAACTGAACTCAGACTCAACTCAACAAGCTCGAGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACTTTCACAT
** *
27755867 TTATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAA---CT-TTCACAT
* * *
27755917 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGAACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAAC-TTTCACAT
* *
27755961 CCATAAGTGAACTCGGACTCAACTTAATGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
27755996 GATGTTCAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
44 7 0.07
45 2 0.02
46 32 0.31
47 52 0.51
48 2 0.02
49 1 0.01
50 6 0.06
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACTTTCACAT
Found at i:27756452 original size:30 final size:30
Alignment explanation
Indices: 27756418--27756477 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27756408 CCTTAATACG
27756418 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
27756448 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
27756478 GTCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:27757582 original size:17 final size:17
Alignment explanation
Indices: 27757562--27757597 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27757552 CCGACGTGAT
27757562 ATAGATACGTGGAACAC
1 ATAGATACGTGGAACAC
27757579 ATAGATACGTGGAACAC
1 ATAGATACGTGGAACAC
27757596 AT
1 AT
27757598 CATGGATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (17 bp):
ATAGATACGTGGAACAC
Found at i:27763548 original size:47 final size:46
Alignment explanation
Indices: 27763396--27763569 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 46
27763386 CGTAACCCGC
* * * *
27763396 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
27763442 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
27763492 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA-TTCACAT
27763536 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
27763570 AGATGTTCAA
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 35 0.32
47 55 0.51
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:27763565 original size:94 final size:93
Alignment explanation
Indices: 27763404--27763574 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 93
27763394 GCCCATAAGT
* *
27763404 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
27763469 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
27763497 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAGACA-TTCACATCCATAAGTGAACTCGGACTCAACTCA
27763562 ACGAGTTCAGATG
65 ACGAGTTCAGATG
27763575 TTCAACCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 28 0.39
94 43 0.61
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:27764027 original size:30 final size:30
Alignment explanation
Indices: 27763993--27764052 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27763983 CCTTAATACG
27763993 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
27764023 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
27764053 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:27767464 original size:33 final size:33
Alignment explanation
Indices: 27767436--27767503 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
27767426 TAAAGATATA
27767436 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
1 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
27767469 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
1 AACCTTCATGCATGTCTAATCTCAAAAGAAACT
27767502 AA
1 AA
27767504 GTTTTCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (33 bp):
AACCTTCATGCATGTCTAATCTCAAAAGAAACT
Found at i:27772152 original size:54 final size:54
Alignment explanation
Indices: 27772093--27772202 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
27772083 CCATAGAAAC
*
27772093 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGGATCGAGAAATTT
1 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGAATCGAGAAATTT
*
27772147 CAAGGTTTCTATCTCTTCCATAACTGAACACTTTTTTTCCGAATCGAGAAATTT
1 CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGAATCGAGAAATTT
27772201 CA
1 CA
27772203 TCACTTTAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (54 bp):
CAAGGTTTCTATCTCTTCCATAACTGAACACTCTTTTTCCGAATCGAGAAATTT
Found at i:27774508 original size:7 final size:7
Alignment explanation
Indices: 27774496--27774525 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
27774486 CACATCCATT
*
27774496 ACCAACA
1 ACCAACC
27774503 ACCAACC
1 ACCAACC
27774510 ACCAACC
1 ACCAACC
27774517 ACCAACC
1 ACCAACC
27774524 AC
1 AC
27774526 ATCACAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCAACC
Found at i:27777980 original size:21 final size:21
Alignment explanation
Indices: 27777942--27777990 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
27777932 ATGATTGAGC
**
27777942 TTTTGAATGATTTTTGATAAA
1 TTTTGAATGATTGATGATAAA
* *
27777963 TTTTGAATGCTTGATGATAGA
1 TTTTGAATGATTGATGATAAA
*
27777984 TATTGAA
1 TTTTGAA
27777991 GTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (21 bp):
TTTTGAATGATTGATGATAAA
Found at i:27778706 original size:43 final size:42
Alignment explanation
Indices: 27778552--27778706 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 42
27778542 GGTTACCGAG
* * * *
27778552 ATGTAATTACATATAAGACCATGTCTAGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCGT
* * * *
27778594 ATTGAGATTACGTGTAAGACCATGTAT-GGTACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTAGG-ACATTGGCATCG-T
** * * * *
27778638 AACTGATTTCGTGTAAGACCCTATCTAGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCG-T
*
27778681 ATGTGATAACATGTAAGACCATATCT
1 ATGTGATTACATGTAAGACCATATCT
27778707 GGGATATGGC
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 3 0.03
43 81 0.92
44 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCGT
Found at i:27779989 original size:26 final size:26
Alignment explanation
Indices: 27779909--27780020 Score: 127
Period size: 26 Copynumber: 4.2 Consensus size: 26
27779899 AATTTACCAT
*
27779909 TTTTACCTTACTGGGGTA-TTCAGTCA
1 TTTTACCCTA-TGGGGTATTTCAGTCA
* *
27779935 TTTTACCCTTACAGGGGTATTTCGGTCA
1 TTTTACCC-TA-TGGGGTATTTCAGTCA
* *
27779963 TTCTACCCTATGGGGTATTTCAATCA
1 TTTTACCCTATGGGGTATTTCAGTCA
*
27779989 TTTTACCCTATGAGGGTATTTCAGTTA
1 TTTTACCCTATG-GGGTATTTCAGTCA
27780016 TTTTA
1 TTTTA
27780021 TCACATAAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 31 0.42
27 28 0.38
28 14 0.19
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (26 bp):
TTTTACCCTATGGGGTATTTCAGTCA
Found at i:27780031 original size:27 final size:27
Alignment explanation
Indices: 27779922--27780031 Score: 66
Period size: 27 Copynumber: 4.1 Consensus size: 27
27779912 TACCTTACTG
* *
27779922 GGGTA-TTCAGTCATTTTACCCT-TACA
1 GGGTATTTCAATCATTTTACACTATA-A
** * * *
27779948 GGGGTATTTCGGTCATTCTACCCTAT-G
1 -GGGTATTTCAATCATTTTACACTATAA
* *
27779975 GGGTATTTCAATCATTTTACCCTATGA
1 GGGTATTTCAATCATTTTACACTATAA
* *
27780002 GGGTATTTCAGTTATTTTATCAC-ATAA
1 GGGTATTTCAATCATTTTA-CACTATAA
27780029 GGG
1 GGG
27780032 AAAAATTGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 22 0.32
27 28 0.41
28 17 0.25
29 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAATCATTTTACACTATAA
Found at i:27780049 original size:27 final size:27
Alignment explanation
Indices: 27780015--27780166 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
27780005 TATTTCAGTT
* *
27780015 ATTTTATCACATAAGGGAAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* * *
27780042 ATTCTATCACATGAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
27780069 ATTTTATTACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* * *
27780096 ATTTTATCACAGAAGGGCAAGATCATC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
27780123 ATTTTATCACAAAAGGGAAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
27780150 ATTTTATCACATAAGGG
1 ATTTTATCACATAAGGG
27780167 TTCAGGTACG
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATCGTC
Found at i:27797084 original size:17 final size:17
Alignment explanation
Indices: 27797058--27797090 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27797048 TGTAGGATAA
27797058 ATTTTAATTGATTTATG
1 ATTTTAATTGATTTATG
*
27797075 ATTTTGATTGATTTAT
1 ATTTTAATTGATTTAT
27797091 CTTGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTTTAATTGATTTATG
Found at i:27819032 original size:6 final size:6
Alignment explanation
Indices: 27819023--27819055 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
27819013 AATAAAATTG
*
27819023 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
27819056 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:27819174 original size:29 final size:29
Alignment explanation
Indices: 27819097--27819180 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 29
27819087 GGTGGTAGAA
27819097 GGTGTGCCAATGAAGCAGCCGCATGAACT
1 GGTGTGCCAATGAAGCAGCCGCATGAACT
*
27819126 GGT-CG-C-ATGAAGCAGCCGCATGAACT
1 GGTGTGCCAATGAAGCAGCCGCATGAACT
* *
27819152 GGTGTGCCAATGAAGCAGACGCATAAACT
1 GGTGTGCCAATGAAGCAGCCGCATGAACT
27819181 AGTCGCTCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 23 0.48
27 2 0.04
28 2 0.04
29 21 0.44
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.17
Consensus pattern (29 bp):
GGTGTGCCAATGAAGCAGCCGCATGAACT
Found at i:27837306 original size:62 final size:62
Alignment explanation
Indices: 27837209--27837330 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 62
27837199 ACACAACAAA
27837209 AATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAGCAAG
1 AATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAGCAAG
* * *
27837271 AATCTATCTAAATACGGTCTAAAAATCTGATTCATCAAATCCATAAAGACTGTAGGAGCA
1 AATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAGCA
27837331 TTAATTAATC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (62 bp):
AATCTATCTAAATACGGTCTAAAAATCCGATTCATCAAATCCATAAAGACTATAAGAGCAAG
Found at i:27841415 original size:42 final size:42
Alignment explanation
Indices: 27841320--27841400 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
27841310 TATATATATT
*
27841320 TATATAGCCGAAGCTATCTTAATCTCGCACACTAAGTGCAAA
1 TATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCAAA
* * *
27841362 TATATAGCCGAAGTTATCTCAATTTTGCACACTAAGTGC
1 TATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGC
27841401 CTAAAATTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (42 bp):
TATATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCAAA
Found at i:27860193 original size:47 final size:47
Alignment explanation
Indices: 27859639--27860157 Score: 930
Period size: 47 Copynumber: 11.0 Consensus size: 47
27859629 GAAATGATAG
*
27859639 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27859686 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
27859733 TAAGGCCTAATAGCCGAAGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27859780 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27859827 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
27859876 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27859923 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27859970 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27860017 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
27860064 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTCA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
27860111 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27860158 CAGTGCCGAG
Statistics
Matches: 457, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 412 0.90
49 45 0.10
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:27860383 original size:37 final size:37
Alignment explanation
Indices: 27860327--27860405 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27860317 CCGAGCTCTA
* *
27860327 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
27860364 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27860401 AAGAC
1 AAGAC
27860406 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.