Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 199 of 253
Found at i:65357743 original size:58 final size:58
Alignment explanation
Indices: 65357598--65357743 Score: 161
Period size: 57 Copynumber: 2.5 Consensus size: 58
65357588 GCCTCATAAA
* * ** * *
65357598 TATAACAGGATTACCAGTCCAGGCCAAATCCTTTTTGTAATATATGCTCAGAAGAGCT
1 TATATCAGGATTACCAGTCCAGGCAAAATCCTAATTGTAACATATGCTCAGAAGAGAT
* * * * *
65357656 CA-ATTAGGATTACCAGTTCAGGCTAAATCCTAATTGTAACATATGCTCA-AGAGGGAT
1 TATATCAGGATTACCAGTCCAGGCAAAATCCTAATTGTAACATATGCTCAGA-AGAGAT
*
65357713 TATATCAGGACTACCAGTCCAGGCAAAATCC
1 TATATCAGGATTACCAGTCCAGGCAAAATCC
65357744 CGTCAGCAAC
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
56 1 0.01
57 45 0.63
58 25 0.35
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCAAAATCCTAATTGTAACATATGCTCAGAAGAGAT
Found at i:65359090 original size:25 final size:25
Alignment explanation
Indices: 65359062--65359150 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
65359052 ATAATTCGCT
* *
65359062 ACAAAAGTTTTCCAAATGGTACACC
1 ACAAAAGCTTTCCAAATGATACACC
* * * *
65359087 ACAAAGGCTTTCTAAA-GAATTCGCC
1 ACAAAAGCTTTCCAAATG-ATACACC
65359112 ACAAAAGCTTTCCAAATGATACACC
1 ACAAAAGCTTTCCAAATGATACACC
65359137 AC-AAAGACTTTCCA
1 ACAAAAG-CTTTCCA
65359151 GGGAATTTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 5 0.10
25 45 0.88
26 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.22
Consensus pattern (25 bp):
ACAAAAGCTTTCCAAATGATACACC
Found at i:65359124 original size:50 final size:50
Alignment explanation
Indices: 65359037--65359166 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
65359027 ACAACTCACT
* * * * *
65359037 ACAATGACTTTCTAGATAATTCGCTACAAAAGTTTTCCAAATGGTACACC
1 ACAAAGACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACC
* *
65359087 ACAAAGGCTTTCTAAAGAATTCGCCACAAAAGCTTTCCAAATGATACACC
1 ACAAAGACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACC
* * *
65359137 ACAAAGACTTTCCAGGGAATTTGCCACAAA
1 ACAAAGACTTTCTAGAGAATTCGCCACAAA
65359167 GATTTTCTAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (50 bp):
ACAAAGACTTTCTAGAGAATTCGCCACAAAAGCTTTCCAAATGATACACC
Found at i:65359163 original size:25 final size:25
Alignment explanation
Indices: 65359135--65359182 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65359125 AAATGATACA
*
65359135 CCACAAAGACTTTCCAGGGAATTTG
1 CCACAAAGACTTTCCAGAGAATTTG
* *
65359160 CCACAAAGATTTTCTAGAGAATT
1 CCACAAAGACTTTCCAGAGAATT
65359183 CTCGAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
CCACAAAGACTTTCCAGAGAATTTG
Found at i:65362635 original size:49 final size:49
Alignment explanation
Indices: 65362576--65362888 Score: 240
Period size: 49 Copynumber: 6.6 Consensus size: 49
65362566 CATCAAAGTT
* * *
65362576 GATGCCATGTCCCAGACAAGTCTTACACTAACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCC
* * * ** *
65362625 GATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCCATCG-GTGTC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAG-GCC
* * * * * * *
65362674 GATGCCATGTCCTAGACAAGTCTTACACT-G-ACACAGA-A-C-AAGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCC
** * * *
65362718 GGCGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATATCGAGGCC
* * * ***
65362767 GATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-T-AATATC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCC
* *
65362813 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCC
*
65362859 GATG-CATGTCCTAGACATGTCTTACACTAG
1 GATGCCATGTCCCAGACATGTCTTACACTAG
65362889 TACACATATC
Statistics
Matches: 205, Mismatches: 49, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
44 26 0.13
45 2 0.01
46 70 0.34
47 4 0.02
48 32 0.16
49 71 0.35
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCC
Found at i:65362780 original size:48 final size:46
Alignment explanation
Indices: 65362723--65362888 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 46
65362713 AAGCTGGCGC
*
65362723 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCT-GAGGCCGATG
* ** * ***
65362771 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTTAATATCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATC-TGAGGCCGATG
* * * *
65362817 CATGTCCCAGACATGTCTTACACTGGCTCTCATA-ATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTGAGGCCGATG
*
65362863 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
65362889 TACACATATC
Statistics
Matches: 94, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
46 65 0.69
47 2 0.02
48 27 0.29
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTGAGGCCGATG
Found at i:65379307 original size:28 final size:27
Alignment explanation
Indices: 65379244--65379395 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
65379234 ATATTAAGTC
* * *
65379244 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
65379271 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
65379299 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
65379326 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
65379354 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
65379381 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65379396 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:65379328 original size:55 final size:55
Alignment explanation
Indices: 65379244--65379395 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
65379234 ATATTAAGTC
* * *
65379244 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
65379299 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
65379354 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
65379396 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:65386597 original size:2 final size:2
Alignment explanation
Indices: 65386592--65386620 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65386582 ATATATACAT
65386592 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
65386621 ACCATACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65389536 original size:20 final size:22
Alignment explanation
Indices: 65389492--65389536 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
65389482 ATATAATTTT
*
65389492 TTTATAATATAATATTTCAGGA
1 TTTATAATATAATATTTCAGAA
65389514 TTTATAATATAAT-TTT-AGAA
1 TTTATAATATAATATTTCAGAA
65389534 TTT
1 TTT
65389537 TTAGTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 3 0.14
22 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTATAATATAATATTTCAGAA
Found at i:65397928 original size:19 final size:18
Alignment explanation
Indices: 65397899--65397943 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
65397889 AGTATAGCAG
65397899 ATTTT-GTTTATTATTTT
1 ATTTTAGTTTATTATTTT
*
65397916 ATTTCTAGTTTATTTTTTT
1 ATTT-TAGTTTATTATTTT
65397935 ATTTTAGTT
1 ATTTTAGTT
65397944 GGGGGAGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (18 bp):
ATTTTAGTTTATTATTTT
Found at i:65400703 original size:18 final size:18
Alignment explanation
Indices: 65400663--65400707 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
65400653 AGTATAGTAG
65400663 ATTTT-GTTTATTATTTT
1 ATTTTAGTTTATTATTTT
65400680 ATTTTTAGTTTATTATTTT
1 A-TTTTAGTTTATTATTTT
65400699 ATTTTAGTT
1 ATTTTAGTT
65400708 AGAGGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.04
18 12 0.46
19 13 0.50
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (18 bp):
ATTTTAGTTTATTATTTT
Found at i:65400786 original size:37 final size:37
Alignment explanation
Indices: 65400736--65400810 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
65400726 AGGAGGGGAA
*
65400736 CCCAAATTGTTTTACACATTCCCACATTTCTCTGTTT
1 CCCAAATTGTTTTACACATTCCCACAGTTCTCTGTTT
65400773 CCCAAATTGTTTTACACATTCCCACAGTTCTCTGTTT
1 CCCAAATTGTTTTACACATTCCCACAGTTCTCTGTTT
65400810 C
1 C
65400811 TTTTTCATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.41
Consensus pattern (37 bp):
CCCAAATTGTTTTACACATTCCCACAGTTCTCTGTTT
Found at i:65400796 original size:20 final size:20
Alignment explanation
Indices: 65400736--65400796 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
65400726 AGGAGGGGAA
65400736 CCCAAATTGTTTTACACATT
1 CCCAAATTGTTTTACACATT
* * ***
65400756 CCCACA-T-TTCT-CTGTTT
1 CCCAAATTGTTTTACACATT
65400773 CCCAAATTGTTTTACACATT
1 CCCAAATTGTTTTACACATT
65400793 CCCA
1 CCCA
65400797 CAGTTCTCTG
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
17 8 0.29
18 4 0.14
19 4 0.14
20 12 0.43
ACGTcount: A:0.25, C:0.31, G:0.05, T:0.39
Consensus pattern (20 bp):
CCCAAATTGTTTTACACATT
Found at i:65401506 original size:20 final size:22
Alignment explanation
Indices: 65401460--65401515 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
65401450 TGTCCCTAGG
65401460 CCACATGGGCGTGTGCCTCCTT
1 CCACATGGGCGTGTGCCTCCTT
*
65401482 CCACACGGGCGTGTGCC-CC-T
1 CCACATGGGCGTGTGCCTCCTT
65401502 CCACATGGGCGTGT
1 CCACATGGGCGTGT
65401516 TGACCCCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 16 0.50
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.21
Consensus pattern (22 bp):
CCACATGGGCGTGTGCCTCCTT
Found at i:65401525 original size:20 final size:20
Alignment explanation
Indices: 65401460--65401529 Score: 88
Period size: 20 Copynumber: 3.4 Consensus size: 20
65401450 TGTCCCTAGG
65401460 CCACATGGGCGTGTGCCTCCTT
1 CCACATGGGCGTGTGCC-CC-T
*
65401482 CCACACGGGCGTGTGCCCCT
1 CCACATGGGCGTGTGCCCCT
*
65401502 CCACATGGGCGTGTTGACCC-
1 CCACATGGGCGTG-TGCCCCT
65401522 CCACATGG
1 CCACATGG
65401530 CCTAGGCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 21 0.48
21 7 0.16
22 16 0.36
ACGTcount: A:0.13, C:0.39, G:0.29, T:0.20
Consensus pattern (20 bp):
CCACATGGGCGTGTGCCCCT
Found at i:65403447 original size:7 final size:7
Alignment explanation
Indices: 65403432--65403463 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
65403422 AGAGATAGAG
*
65403432 AGAATAA
1 AGAACAA
65403439 AGAACAA
1 AGAACAA
65403446 AGAACAA
1 AGAACAA
65403453 AGAACAA
1 AGAACAA
65403460 AGAA
1 AGAA
65403464 AATATGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.09, G:0.16, T:0.03
Consensus pattern (7 bp):
AGAACAA
Found at i:65403954 original size:28 final size:28
Alignment explanation
Indices: 65403919--65403990 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
65403909 ATTAAAAATT
*
65403919 ATTA-AAATATTATAAAA-AATTTAGAAA
1 ATTAGAAATATTATAAAATAATATA-AAA
*
65403946 ATTAGAAATATTATAGAAATACTATAAAA
1 ATTAGAAATATTATA-AAATAATATAAAA
65403975 A-TAGAAATATTATAAA
1 ATTAGAAATATTATAAA
65403991 TATTATTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 6 0.15
28 23 0.57
29 7 0.17
30 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTAGAAATATTATAAAATAATATAAAA
Found at i:65403980 original size:17 final size:17
Alignment explanation
Indices: 65403958--65403990 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65403948 TAGAAATATT
65403958 ATAGAAATACTATAAAA
1 ATAGAAATACTATAAAA
*
65403975 ATAGAAATATTATAAA
1 ATAGAAATACTATAAA
65403991 TATTATTTCA
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:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
ATAGAAATACTATAAAA
Found at i:65404055 original size:30 final size:30
Alignment explanation
Indices: 65404013--65404071 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65404003 ATAATTAATA
*
65404013 TATTATGAAAATT-TTGAAAATTTATAAAAC
1 TATTATGAAAATTATAGAAAA-TTATAAAAC
65404043 TATTATTG-AAATTATAGAAAATTATAAAA
1 TATTA-TGAAAATTATAGAAAATTATAAAA
65404072 AAAATAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (30 bp):
TATTATGAAAATTATAGAAAATTATAAAAC
Found at i:65404199 original size:9 final size:9
Alignment explanation
Indices: 65404150--65404222 Score: 58
Period size: 9 Copynumber: 7.6 Consensus size: 9
65404140 GGAATTTTAG
65404150 AAATTATAGA
1 AAATTATA-A
*
65404160 AAAATA-AA
1 AAATTATAA
65404168 AAAGTTATAGA
1 AAA-TTATA-A
65404179 AAACTATATAA
1 AAA-T-TATAA
65404190 AAATTATAA
1 AAATTATAA
*
65404199 AAACTTGTAA
1 AAA-TTATAA
*
65404209 AACTTATAA
1 AAATTATAA
65404218 AAATT
1 AAATT
65404223 TGTTAACAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 4 0.08
9 20 0.39
10 14 0.27
11 9 0.18
12 4 0.08
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (9 bp):
AAATTATAA
Found at i:65404220 original size:10 final size:10
Alignment explanation
Indices: 65404166--65404220 Score: 60
Period size: 9 Copynumber: 5.5 Consensus size: 10
65404156 TAGAAAAATA
*
65404166 AAAAAGTTAT
1 AAAAACTTAT
65404176 AGAAAACTATAT
1 A-AAAACT-TAT
65404188 AAAAA-TTAT
1 AAAAACTTAT
*
65404197 AAAAACTTGT
1 AAAAACTTAT
65404207 -AAAACTTAT
1 AAAAACTTAT
65404216 AAAAA
1 AAAAA
65404221 TTTGTTAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 16 0.42
10 9 0.24
11 9 0.24
12 4 0.11
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAACTTAT
Found at i:65404225 original size:19 final size:19
Alignment explanation
Indices: 65404166--65404235 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
65404156 TAGAAAAATA
*
65404166 AAAAAGTTATAGAAAACTATAT
1 AAAAA-TTATA-AAAACT-TGT
65404188 AAAAATTATAAAAACTTGT
1 AAAAATTATAAAAACTTGT
* *
65404207 AAAACTTATAAAAATTTGTT
1 AAAAATTATAAAAACTTG-T
*
65404227 AACAATTAT
1 AAAAATTAT
65404236 TAAAGAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 18 0.43
20 14 0.33
21 5 0.12
22 5 0.12
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAACTTGT
Found at i:65407410 original size:19 final size:19
Alignment explanation
Indices: 65407387--65407424 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
65407377 GGTTGCTAAT
65407387 ATTTTTA-TTTTTTTATAA
1 ATTTTTAGTTTTTTTATAA
*
65407405 TTTTTTAGTTTTTTTATAA
1 ATTTTTAGTTTTTTTATAA
65407424 A
1 A
65407425 AAATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTTTAGTTTTTTTATAA
Found at i:65407479 original size:23 final size:23
Alignment explanation
Indices: 65407436--65407491 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
65407426 AATTAATAAA
* *
65407436 ATATTTTTAAATTTTTATTTTTT
1 ATATTTTTAAATATTTATTTTCT
*
65407459 ATGTTTTTAAATAATTT-TTTTCT
1 ATATTTTTAAAT-ATTTATTTTCT
65407482 ATATTTTTAA
1 ATATTTTTAA
65407492 CTTGTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
ATATTTTTAAATATTTATTTTCT
Found at i:65408589 original size:19 final size:19
Alignment explanation
Indices: 65408561--65408599 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
65408551 TTGGGGTAAA
65408561 TGGTGAAAAATAAAA-GTT
1 TGGTGAAAAATAAAACGTT
65408579 TGGTGGAAAAATAAAACGTT
1 TGGT-GAAAAATAAAACGTT
65408599 T
1 T
65408600 TGAGGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (19 bp):
TGGTGAAAAATAAAACGTT
Found at i:65416084 original size:5 final size:5
Alignment explanation
Indices: 65416074--65416105 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
65416064 AATTTGTGAA
65416074 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
65416106 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:65416099 original size:9 final size:9
Alignment explanation
Indices: 65416075--65416105 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
65416065 ATTTGTGAAA
65416075 AAATAAAAT
1 AAATAAAAT
65416084 AAAATAAAAT
1 -AAATAAAAT
65416094 AAATAAAAT
1 AAATAAAAT
65416103 AAA
1 AAA
65416106 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:65420313 original size:3 final size:3
Alignment explanation
Indices: 65420305--65420336 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
65420295 GTCTTGAACC
65420305 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
65420337 ACCCTTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:65437453 original size:29 final size:29
Alignment explanation
Indices: 65437421--65437497 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
65437411 AATCATATTC
* *
65437421 ATATGGCCCATTAGGTCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
65437450 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
65437479 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
65437498 GTCACACTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:65437765 original size:16 final size:16
Alignment explanation
Indices: 65437736--65437791 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
65437726 GCCAAACTTC
**
65437736 CGGCTTTTTGGCATTT
1 CGGCTTTTCAGCATTT
*
65437752 CGACTTTTCAGCATTT
1 CGGCTTTTCAGCATTT
* *
65437768 CGGCATTTCGGCATTT
1 CGGCTTTTCAGCATTT
65437784 CGGCTTTT
1 CGGCTTTT
65437792 ATCTATTCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (16 bp):
CGGCTTTTCAGCATTT
Found at i:65437768 original size:8 final size:8
Alignment explanation
Indices: 65437745--65437787 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
65437735 CCGGCTTTTT
65437745 GGCATTTC
1 GGCATTTC
* *
65437753 GACTTTTC
1 GGCATTTC
*
65437761 AGCATTTC
1 GGCATTTC
65437769 GGCATTTC
1 GGCATTTC
65437777 GGCATTTC
1 GGCATTTC
65437785 GGC
1 GGC
65437788 TTTTATCTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (8 bp):
GGCATTTC
Found at i:65439320 original size:20 final size:20
Alignment explanation
Indices: 65439295--65439342 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
65439285 AAGCTTATGC
65439295 TAAGTAAAT-GAAATGGAAAG
1 TAAGTAAATAG-AATGGAAAG
*
65439315 TAAGTAAATAGATTGGAAAG
1 TAAGTAAATAGAATGGAAAG
65439335 TAAAGTAA
1 T-AAGTAA
65439343 GTAAATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (20 bp):
TAAGTAAATAGAATGGAAAG
Found at i:65439608 original size:81 final size:81
Alignment explanation
Indices: 65439468--65439642 Score: 323
Period size: 81 Copynumber: 2.1 Consensus size: 81
65439458 ATGAGTTGAT
*
65439468 GGTTATAAAGTTTTACAAATCTTATGGTATTGGCATAAGTTTATATTTATCCTATAAAGTTCGTT
1 GGTT-TAAAGTTTTACAAATCTTATGGTATTGGCATAAGTTTATATTTATCCTATAAAGTTCATT
*
65439533 ATTGAAATGGAATGTTA
65 ATTGAAATGAAATGTTA
65439550 GGTTTAAAGTTTTACAAATCTTATGGTATTGGCATAAGTTTATATTTATCCTATAAAGTTCATTA
1 GGTTTAAAGTTTTACAAATCTTATGGTATTGGCATAAGTTTATATTTATCCTATAAAGTTCATTA
65439615 TTGAAATGAAATGTTA
66 TTGAAATGAAATGTTA
65439631 GGTTTAAAGTTT
1 GGTTTAAAGTTT
65439643 ATATGAGCTT
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 87 0.96
82 4 0.04
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (81 bp):
GGTTTAAAGTTTTACAAATCTTATGGTATTGGCATAAGTTTATATTTATCCTATAAAGTTCATTA
TTGAAATGAAATGTTA
Found at i:65440599 original size:20 final size:20
Alignment explanation
Indices: 65440570--65440609 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65440560 CCCCTACAGT
* * *
65440570 TTAATTTTTCCAATTTTTCC
1 TTAATGTTTCAAATGTTTCC
65440590 TTAATGTTTCAAATGTTTCC
1 TTAATGTTTCAAATGTTTCC
65440610 AATTTAGTCT
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:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (20 bp):
TTAATGTTTCAAATGTTTCC
Found at i:65447627 original size:20 final size:20
Alignment explanation
Indices: 65447578--65447633 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
65447568 GTATTGGTAG
*
65447578 TTTATCTGCAATACTGGCAG
1 TTTATCTGCAATACTGGCAA
* *
65447598 TGTT-TTTGCACTACTGGCAA
1 T-TTATCTGCAATACTGGCAA
*
65447618 TTTATCTGCATTACTG
1 TTTATCTGCAATACTG
65447634 ATGGCTTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (20 bp):
TTTATCTGCAATACTGGCAA
Found at i:65447653 original size:40 final size:40
Alignment explanation
Indices: 65447609--65447767 Score: 131
Period size: 40 Copynumber: 4.0 Consensus size: 40
65447599 GTTTTTGCAC
*
65447609 TACTGGCAATTTATCTGCATTACTGATGGCTTGACCACAT
1 TACTGGCAATTTATCTGCATTACTGGTGGCTTGACCACAT
* * * **** *
65447649 TACTGGAAATTTATCTGCAATATTGG-GAGCTTGTTTGCAC
1 TACTGGCAATTTATCTGCATTACTGGTG-GCTTGACCACAT
* * * *
65447689 TACTGACAGTTTATTTGCATTATTGGTGGCTTGACCACAT
1 TACTGGCAATTTATCTGCATTACTGGTGGCTTGACCACAT
* ** * * *
65447729 TATTGGCAGCTTGTCTGTATTACTGGTGGCTTGTCCACA
1 TACTGGCAATTTATCTGCATTACTGGTGGCTTGACCACA
65447768 ATTTGGAGTG
Statistics
Matches: 90, Mismatches: 27, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
39 1 0.01
40 88 0.98
41 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (40 bp):
TACTGGCAATTTATCTGCATTACTGGTGGCTTGACCACAT
Found at i:65447719 original size:80 final size:80
Alignment explanation
Indices: 65447578--65447730 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
65447568 GTATTGGTAG
* *
65447578 TTTATCTGCAATACTGGCAGTGTTTTTGCACTACTGGCAATTTATCTGCATTACTGATGGCTTGA
1 TTTATCTGCAATACTGGCAGTGTGTTTGCACTACTGACAATTTATCTGCATTACTGATGGCTTGA
65447643 CCACATTACTGGAAA
66 CCACATTACTGGAAA
* * * * * *
65447658 TTTATCTGCAATATTGGGAGCT-TGTTTGCACTACTGACAGTTTATTTGCATTATTGGTGGCTTG
1 TTTATCTGCAATACTGGCAG-TGTGTTTGCACTACTGACAATTTATCTGCATTACTGATGGCTTG
65447722 ACCACATTA
65 ACCACATTA
65447731 TTGGCAGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 63 0.98
81 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (80 bp):
TTTATCTGCAATACTGGCAGTGTGTTTGCACTACTGACAATTTATCTGCATTACTGATGGCTTGA
CCACATTACTGGAAA
Found at i:65449018 original size:19 final size:19
Alignment explanation
Indices: 65448994--65449034 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
65448984 ACCTTAGGAA
65448994 ATAGTCAACCCAAATGAAC
1 ATAGTCAACCCAAATGAAC
65449013 ATAGTCAACCCAAATGAAC
1 ATAGTCAACCCAAATGAAC
65449032 ATA
1 ATA
65449035 TTGTTTGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.17
Consensus pattern (19 bp):
ATAGTCAACCCAAATGAAC
Found at i:65453169 original size:32 final size:32
Alignment explanation
Indices: 65453131--65453195 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65453121 AAACATACCT
65453131 AAACATGTGCATATTTAACCATTTATCAACTA
1 AAACATGTGCATATTTAACCATTTATCAACTA
65453163 AAACATGTGCATATTTAACCATTTATCAACTA
1 AAACATGTGCATATTTAACCATTTATCAACTA
65453195 A
1 A
65453196 CTTGTTTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
AAACATGTGCATATTTAACCATTTATCAACTA
Found at i:65457636 original size:27 final size:27
Alignment explanation
Indices: 65457585--65457674 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
65457575 GTGACAGAGT
65457585 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
65457614 CACCAGAATAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
65457641 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
65457669 CACCAG
1 CACCAG
65457675 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:65457827 original size:28 final size:28
Alignment explanation
Indices: 65457784--65457843 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
65457774 TAACCCTAGG
*
65457784 GGTATAAAGGTCATTTTGCACACATAGA
1 GGTATAAAGGTAATTTTGCACACATAGA
* * *
65457812 GGTATAATGGTAATTTTGCATACATAGG
1 GGTATAAAGGTAATTTTGCACACATAGA
65457840 GGTA
1 GGTA
65457844 CTCTAGTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (28 bp):
GGTATAAAGGTAATTTTGCACACATAGA
Found at i:65460329 original size:21 final size:22
Alignment explanation
Indices: 65460313--65460353 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
65460303 GGGAAATAAT
*
65460313 GTGTTTTGA-GGTTGAAAAAAG
1 GTGTCTTGATGGTTGAAAAAAG
65460334 GTGTCTTGATGGTT-AAAAAA
1 GTGTCTTGATGGTTGAAAAAA
65460354 TTAGGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (22 bp):
GTGTCTTGATGGTTGAAAAAAG
Found at i:65460352 original size:22 final size:21
Alignment explanation
Indices: 65460313--65460353 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
65460303 GGGAAATAAT
* *
65460313 GTGTTTTGAGGTTGAAAAAAG
1 GTGTCTTGAGGTTAAAAAAAG
65460334 GTGTCTTGATGGTTAAAAAA
1 GTGTCTTGA-GGTTAAAAAA
65460354 TTAGGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (21 bp):
GTGTCTTGAGGTTAAAAAAAG
Found at i:65460652 original size:20 final size:21
Alignment explanation
Indices: 65460615--65460653 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65460605 TTACCCTCGG
65460615 TGTTGCGACACATGGCTCTTA
1 TGTTGCGACACATGGCTCTTA
*
65460636 TGTTGTGACAC-TGGCTCT
1 TGTTGCGACACATGGCTCT
65460654 GTTTTTACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTTGCGACACATGGCTCTTA
Found at i:65463346 original size:45 final size:45
Alignment explanation
Indices: 65463285--65463374 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
65463275 GATTAGTAAC
65463285 AATAAAGAAAATAAAATCGTATGTATCACCTAAAAATTTCTTAAT
1 AATAAAGAAAATAAAATCGTATGTATCACCTAAAAATTTCTTAAT
* *
65463330 AATAAAGAAAATAAAATCTTATGTATCACCTAAACATTTCTTAAT
1 AATAAAGAAAATAAAATCGTATGTATCACCTAAAAATTTCTTAAT
65463375 TATTCTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (45 bp):
AATAAAGAAAATAAAATCGTATGTATCACCTAAAAATTTCTTAAT
Found at i:65467895 original size:30 final size:30
Alignment explanation
Indices: 65467859--65467918 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
65467849 GATAAAATTG
65467859 ATAAATTCAGCTCGATGTCATGACACAACA
1 ATAAATTCAGCTCGATGTCATGACACAACA
* *
65467889 ATAAATTTAGCTCGGTGTCATGACACAACA
1 ATAAATTCAGCTCGATGTCATGACACAACA
65467919 CCTCTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (30 bp):
ATAAATTCAGCTCGATGTCATGACACAACA
Found at i:65469189 original size:22 final size:22
Alignment explanation
Indices: 65469161--65469213 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
65469151 GACTAATGTT
65469161 GTGACACCGTAGTGCTTGTGTC
1 GTGACACCGTAGTGCTTGTGTC
65469183 GTGACACCGTAGTGCTTGTGTC
1 GTGACACCGTAGTGCTTGTGTC
65469205 GTGACACCG
1 GTGACACCG
65469214 AAGGCAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (22 bp):
GTGACACCGTAGTGCTTGTGTC
Found at i:65476017 original size:12 final size:12
Alignment explanation
Indices: 65476000--65476027 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65475990 AAAATTATTT
65476000 CAAATCATTTTA
1 CAAATCATTTTA
65476012 CAAATCATTTTA
1 CAAATCATTTTA
65476024 CAAA
1 CAAA
65476028 AACCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (12 bp):
CAAATCATTTTA
Found at i:65476797 original size:40 final size:40
Alignment explanation
Indices: 65476740--65476816 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
65476730 ACAAACCATG
**
65476740 TGGGGATAAAATCAACCCACCCAGGCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
* *
65476780 TGGGGATAAAATTAACCCATCCAACCCTACACACCAA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAA
65476817 ATGGTACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.32, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:65480443 original size:17 final size:18
Alignment explanation
Indices: 65480421--65480455 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
65480411 ATTTTGGGGC
65480421 TGTGTGGGC-CACACGGG
1 TGTGTGGGCTCACACGGG
65480438 TGTGTGGGCTCACACGGG
1 TGTGTGGGCTCACACGGG
65480456 CCCGTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
TGTGTGGGCTCACACGGG
Found at i:65486256 original size:44 final size:42
Alignment explanation
Indices: 65486108--65486264 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 42
65486098 AGCTCGTACA
* * *
65486108 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCG
* *
65486151 ATGCC-ACTGT--CAGATAAGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CG
* * * * *
65486191 ATGCCGATGTCCTAGATATGGTCTCACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TCG
65486235 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
65486265 ATAACACATA
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
39 2 0.02
40 11 0.12
41 18 0.20
42 17 0.19
43 13 0.14
44 29 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATCG
Found at i:65487294 original size:16 final size:16
Alignment explanation
Indices: 65487273--65487318 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
65487263 TATAAAGACA
65487273 TAGCAAATAGGCACTT
1 TAGCAAATAGGCACTT
*
65487289 TAGCAAATAGAC-CTT
1 TAGCAAATAGGCACTT
65487304 T--C-AATAGGCACTT
1 TAGCAAATAGGCACTT
65487317 TA
1 TA
65487319 CATTTTCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 6 0.23
13 5 0.19
15 4 0.15
16 11 0.42
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (16 bp):
TAGCAAATAGGCACTT
Found at i:65496264 original size:43 final size:42
Alignment explanation
Indices: 65496146--65496306 Score: 223
Period size: 43 Copynumber: 3.8 Consensus size: 42
65496136 TTTTTAAGGT
* *
65496146 CTTTAGCGGCGCTTTCCCACAAACACTGCTAAAGATCACGAC
1 CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGATCACGAC
* **
65496188 CTTTAGTGGCGCTTTCCCACAAACGCCATTAAAGATCACGAC
1 CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGATCACGAC
*
65496230 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCAGGAC
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGATCACGAC
* * *
65496273 CTTTAGCCGCGCTTTTCTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAA
65496307 AGTCATGAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 48 0.45
43 58 0.55
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGATCACGAC
Found at i:65497392 original size:15 final size:15
Alignment explanation
Indices: 65497372--65497402 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65497362 GTCATGTAAG
65497372 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
65497387 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
65497402 T
1 T
65497403 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:65497592 original size:17 final size:17
Alignment explanation
Indices: 65497559--65497597 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
65497549 TAAGCTTTTG
65497559 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
65497576 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
65497593 ATTTT
1 ATTTT
65497598 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:65498362 original size:15 final size:15
Alignment explanation
Indices: 65498338--65498367 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65498328 TGGAGATCGA
*
65498338 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
65498353 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
65498368 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:65501746 original size:15 final size:15
Alignment explanation
Indices: 65501726--65501756 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65501716 GTCATGTAAG
65501726 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
65501741 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
65501756 T
1 T
65501757 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:65501946 original size:17 final size:17
Alignment explanation
Indices: 65501913--65501951 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
65501903 TAAGCTTTTG
65501913 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
65501930 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
65501947 ATTTT
1 ATTTT
65501952 CCACACAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:65504856 original size:40 final size:40
Alignment explanation
Indices: 65504778--65504914 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
65504768 ACCCAAGTAT
* *
65504778 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
65504817 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65504857 CTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
65504897 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
65504915 GACTTAGCCC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 11 0.13
40 75 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65504917 original size:12 final size:12
Alignment explanation
Indices: 65504900--65504926 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
65504890 CAAATGCCTT
65504900 CGGGACTTAGCC
1 CGGGACTTAGCC
65504912 CGGGACTTAGCC
1 CGGGACTTAGCC
65504924 CGG
1 CGG
65504927 ATATAGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (12 bp):
CGGGACTTAGCC
Found at i:65504938 original size:52 final size:52
Alignment explanation
Indices: 65504860--65504966 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
65504850 TGAATGCCTT
*
65504860 CGGGACTTAGCCCGGATATATTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
*
65504912 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGTCTTCGGGACTTAGCC
1 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
65504964 CGG
1 CGG
65504967 ATATCATTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (52 bp):
CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
Found at i:65512038 original size:40 final size:40
Alignment explanation
Indices: 65511978--65512158 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
65511968 GCCCAAGTAT
* * *
65511978 CTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* ** *
65512017 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65512057 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
65512097 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
65512137 CTTCAGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
65512159 CATTCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
39 11 0.09
40 113 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65514966 original size:16 final size:18
Alignment explanation
Indices: 65514947--65514992 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
65514937 AATTTTATTA
65514947 TTTTTTA-ATTTAAC-TT
1 TTTTTTATATTTAACATT
*
65514963 TTTTTTATTTTTAACATT
1 TTTTTTATATTTAACATT
*
65514981 TTTTTTCTATTT
1 TTTTTTATATTT
65514993 TTTTCTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 12 0.48
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATATTTAACATT
Found at i:65515379 original size:19 final size:21
Alignment explanation
Indices: 65515355--65515394 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
65515345 CTATAATGAT
65515355 AATTAAT-TCAATATT-TTAA
1 AATTAATATCAATATTATTAA
*
65515374 AATTAATATTAATATTATTAA
1 AATTAATATCAATATTATTAA
65515395 TATAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTAATATCAATATTATTAA
Found at i:65515919 original size:18 final size:19
Alignment explanation
Indices: 65515896--65515939 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
65515886 CCGTATATCT
65515896 TAAACCATAG-TT-AACTCC
1 TAAACCATAGTTTAAACT-C
65515914 TAAACC-T-GTTTAAACTC
1 TAAACCATAGTTTAAACTC
65515931 TAAACCATA
1 TAAACCATA
65515940 TATCTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAACCATAGTTTAAACTC
Found at i:65516189 original size:41 final size:41
Alignment explanation
Indices: 65516127--65516386 Score: 344
Period size: 41 Copynumber: 6.3 Consensus size: 41
65516117 TTATATAACT
* * * *
65516127 TTTAGCGACGTTTTACTAAAAGCACCGCTAATGCTTTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
65516168 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
65516209 TTTAGCGGCGTTTTACCTAAAGTGCTGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
65516250 TTTAGCGGCGTTTTACCAAAGGCGCCGCTAATGCTCTTGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
** *
65516291 TTTAGCGGCGTTTTACCAATGGCGTCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* ** *
65516332 TTTAGCGGCGTTTTTTACTAAAA-CGCCGCTGTTGCTCT-GTT
1 TTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGTC
65516373 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
65516387 TTGTAAAACG
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.02
41 171 0.88
42 12 0.06
43 8 0.04
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:65518737 original size:27 final size:26
Alignment explanation
Indices: 65518707--65518774 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
65518697 TTATGCTACA
* *
65518707 ATTATCTGTTCTGGTGGCTCTGCCTC
1 ATTATCTGTTCTGGTGACTCTGCCAC
* * *
65518733 GATTATCTGTATCTAGTTACTCTGTCAC
1 -ATTATCTGT-TCTGGTGACTCTGCCAC
65518761 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
65518775 CAGCCATGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.12
27 18 0.53
28 12 0.35
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGACTCTGCCAC
Found at i:65527122 original size:6 final size:6
Alignment explanation
Indices: 65527104--65527185 Score: 80
Period size: 6 Copynumber: 13.3 Consensus size: 6
65527094 AAGAAACATT
65527104 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
65527153 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
65527186 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 5 0.08
6 49 0.77
7 7 0.11
8 3 0.05
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:65527149 original size:25 final size:25
Alignment explanation
Indices: 65527118--65527185 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
65527108 GAACTAGAAT
65527118 CAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65527143 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
65527168 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
65527186 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:65527448 original size:27 final size:26
Alignment explanation
Indices: 65527400--65527451 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65527390 GCGAGGCTGG
*
65527400 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
65527426 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
65527452 TTATAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65527460 original size:67 final size:68
Alignment explanation
Indices: 65527332--65527470 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 68
65527322 CACCAAATAT
* * * *
65527332 AGATATTGTGGCTAAGCCACCAGAACAGATATATATGTGGCGAAGCCACTAGATTGCAGCGAGGC
1 AGATATTGTGACGAAGCCACCAGAACAGA-ATATATGTGGCGAAGCCACCAGATTACAGCGAGGC
*
65527397 TGGC
65 TGCC
* * *
65527401 AGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCGAGGCCACCAGATTATAGCGAGGCT
1 AGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
65527465 GCC
66 GCC
65527468 AGA
1 AGA
65527471 ATGCTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 37 0.60
69 25 0.40
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (68 bp):
AGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTACAGCGAGGCT
GCC
Found at i:65527725 original size:27 final size:27
Alignment explanation
Indices: 65527695--65528052 Score: 491
Period size: 27 Copynumber: 13.3 Consensus size: 27
65527685 GGGGTAAAAT
* * *
65527695 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65527722 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65527749 AGTAATTCTACCCTACAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65527776 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65527803 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65527830 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
65527857 GGTATTTTTACCCTACAAGGGTATATA
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
65527884 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65527911 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
65527938 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
65527965 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65527992 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65528019 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65528046 AGTAATT
1 GGTAATT
65528053 TTGTAAATCA
Statistics
Matches: 292, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 292 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65528093 original size:81 final size:81
Alignment explanation
Indices: 65528008--65528222 Score: 211
Period size: 81 Copynumber: 2.7 Consensus size: 81
65527998 TCTACCCTAC
* ** * *
65528008 AAGGGTATTTCGGTAATTCTACCCTATAAGG-GTATTTCAGTAATTTTGTAAATC-AGAGGTATT
1 AAGGGTATTTTGGTAATTCTA-CAAACAAGGAGTATTTCAGTAATTTTGTAAACCAAG-GGTATT
65528071 TTGATAATTTTATAAACA
64 TTGATAATTTTATAAACA
* * * **
65528089 AAGGGTATTTTAGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AAGGGTATTTTGGTAATTCTACAAACAAGGAGTATTTCAGTAATTTTGTAAACCAAGGGTATTTT
* *
65528154 GGTAATTTTATAAACT
66 GATAATTTTATAAACA
* * ** * * *
65528170 AGGGGTATTTTGGTAATTTTGTAAACTAAGG-GTATTTTAATAATTTGGTAAAC
1 AAGGGTATTTTGGTAATTCTACAAAC-AAGGAGTATTTCAGTAATTTTGTAAAC
65528223 TAAAGTATTC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.05
81 101 0.91
82 5 0.05
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTCTACAAACAAGGAGTATTTCAGTAATTTTGTAAACCAAGGGTATTTT
GATAATTTTATAAACA
Found at i:65528222 original size:54 final size:54
Alignment explanation
Indices: 65528034--65528224 Score: 240
Period size: 54 Copynumber: 3.5 Consensus size: 54
65528024 TTCTACCCTA
* * * * *
65528034 TAAGGGTATTTCAGTAATTTTGTAAA-TCAGAGGTATTTTGATAATTTTATAAAC
1 TAAGGGTATTTTAGTAATTTTATAAACT-AGGGGTATTTTGGTAATTTTGTAAAC
* * * *
65528088 AAAGGGTATTTTAGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTGTAAAC
1 TAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAAC
* *
65528142 CAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 TAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAAC
* **
65528196 TAAGGGTATTTTAATAATTTGGTAAACTA
1 TAAGGGTATTTTAGTAATTTTATAAACTA
65528225 AAGTATTCTA
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (54 bp):
TAAGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAAC
Found at i:65528223 original size:27 final size:27
Alignment explanation
Indices: 65528034--65528225 Score: 208
Period size: 27 Copynumber: 7.1 Consensus size: 27
65528024 TTCTACCCTA
**
65528034 TAAGGGTATTTCAGTAATTTTGTAAA-
1 TAAGGGTATTTTGGTAATTTTGTAAAC
* * *
65528060 TCAGAGGTATTTTGATAATTTTATAAAC
1 TAAG-GGTATTTTGGTAATTTTGTAAAC
* * **
65528088 AAAGGGTATTTTAGTAATTTTACAAAC
1 TAAGGGTATTTTGGTAATTTTGTAAAC
*
65528115 -CAGGAGTATTTTGGTAATTTTGTAAAC
1 TAAGG-GTATTTTGGTAATTTTGTAAAC
* *
65528142 CAAGGGTATTTTGGTAATTTTATAAAC
1 TAAGGGTATTTTGGTAATTTTGTAAAC
*
65528169 TAGGGGTATTTTGGTAATTTTGTAAAC
1 TAAGGGTATTTTGGTAATTTTGTAAAC
** *
65528196 TAAGGGTATTTTAATAATTTGGTAAAC
1 TAAGGGTATTTTGGTAATTTTGTAAAC
65528223 TAA
1 TAA
65528226 AGTATTCTAA
Statistics
Matches: 139, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 6 0.04
27 128 0.92
28 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (27 bp):
TAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:65533510 original size:3 final size:3
Alignment explanation
Indices: 65533502--65533532 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
65533492 TTTATTTAGT
65533502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65533533 CATCATCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65533537 original size:3 final size:3
Alignment explanation
Indices: 65533531--65533556 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65533521 TATTATTATT
65533531 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
65533557 AATCTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:65543929 original size:43 final size:44
Alignment explanation
Indices: 65543880--65544032 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 44
65543870 GATTACCGAG
*
65543880 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
*
65543924 -TGTGATTA-A-GT----CCATGTCTGGGACATTGGCATTGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * * * *
65543960 ATATGATTTCGTATAAGACCCTATCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
*
65544003 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
65544033 TATAACATTG
Statistics
Matches: 87, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
36 1 0.01
37 30 0.34
39 1 0.01
41 2 0.02
42 1 0.01
43 52 0.60
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:65543967 original size:37 final size:37
Alignment explanation
Indices: 65543893--65543967 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
65543883 TGATTACATG
*
65543893 TAAGACCATGTCTGGGACATTGGCATTGTATTGTGAT
1 TAAGACCATGTCTGGGACATTGGCATTGTATTATGAT
*
65543930 TAAGTCCATGTCTGGGACATTGGCATTGT-TATATGAT
1 TAAGACCATGTCTGGGACATTGGCATTGTAT-TATGAT
65543967 T
1 T
65543968 TCGTATAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 34 0.97
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (37 bp):
TAAGACCATGTCTGGGACATTGGCATTGTATTATGAT
Found at i:65544047 original size:34 final size:34
Alignment explanation
Indices: 65544009--65544078 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
65543999 CGATATGTGA
65544009 TAACATGTAAGACCATATCTGGGATATAACATTG
1 TAACATGTAAGACCATATCTGGGATATAACATTG
**
65544043 TAACATGTAAGACCATATCTGGGATATGGCATTG
1 TAACATGTAAGACCATATCTGGGATATAACATTG
65544077 TA
1 TA
65544079 TGAGCTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (34 bp):
TAACATGTAAGACCATATCTGGGATATAACATTG
Found at i:65545886 original size:81 final size:81
Alignment explanation
Indices: 65545746--65545911 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
65545736 CAGGATTGTT
*
65545746 TTATGAACTACTTAGTGGGCACCACCAGAACCCTTGCTCTATTGCATAAGGCCACCACTATGTGG
1 TTATGAACTACTTAGTGGACACCACCAGAACCCTTGCTCTATTGCATAAGGCCACCACTATGTGG
65545811 GGATACCAAGAGTTTG
66 GGATACCAAGAGTTTG
* *
65545827 TTATGAACTACTTAGTGGACACCACCAGAACCCTTGCTCTGTTGCATAAGGCCATCACTATGTGG
1 TTATGAACTACTTAGTGGACACCACCAGAACCCTTGCTCTATTGCATAAGGCCACCACTATGTGG
*
65545892 GGATACCAAGATTTTG
66 GGATACCAAGAGTTTG
65545908 TTAT
1 TTAT
65545912 AAAATTCAGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (81 bp):
TTATGAACTACTTAGTGGACACCACCAGAACCCTTGCTCTATTGCATAAGGCCACCACTATGTGG
GGATACCAAGAGTTTG
Found at i:65553168 original size:42 final size:42
Alignment explanation
Indices: 65553122--65553204 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
65553112 TCGATGCTGC
65553122 ATCCCAGACACGGTCTTACACGAAATCTCATACCGAAGCCAT
1 ATCCCAGACACGGTCTTACACGAAATCTCATACCGAAGCCAT
* * * * *
65553164 ATCCCAGAGATGGTCTTACACGTAATCTCATATCGATGCCA
1 ATCCCAGACACGGTCTTACACGAAATCTCATACCGAAGCCA
65553205 ATGCTATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
ATCCCAGACACGGTCTTACACGAAATCTCATACCGAAGCCAT
Found at i:65553177 original size:84 final size:84
Alignment explanation
Indices: 65553049--65553202 Score: 193
Period size: 84 Copynumber: 1.8 Consensus size: 84
65553039 ATCCAACTAT
* * * * * * *
65553049 GGTCTTACACAAAGTCTCACATCTATGCCATCTCCTAGAAATGGTCTTATACGAAATCACTTATC
1 GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGAAATGGTCTTACACGAAATCACATATC
65553114 GATGCTGCATCCCAGACAC
66 GATGCTGCATCCCAGACAC
* * * *
65553133 GGTCTTACACGAAA-TCTCATACCGAAGCCATATCCCAGAGATGGTCTTACACGTAATCTCATAT
1 GGTCTTACAC-AAAGTCTCACACCGAAGCCATATCCCAGAAATGGTCTTACACGAAATCACATAT
65553197 CGATGC
65 CGATGC
65553203 CAATGCTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 55 0.95
85 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (84 bp):
GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGAAATGGTCTTACACGAAATCACATATC
GATGCTGCATCCCAGACAC
Found at i:65553334 original size:37 final size:37
Alignment explanation
Indices: 65553245--65553385 Score: 157
Period size: 36 Copynumber: 3.9 Consensus size: 37
65553235 GATCTCATAT
*
65553245 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACCT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCA
* *
65553281 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
* * *
65553318 CGATGCCATGGTCCAGCTATGGTCTTACACG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCA
*
65553355 CGATG-CATAGCCCAACTATGGTCTTACACGT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGT
65553386 ACTCACATGT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.01
36 48 0.54
37 40 0.45
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTCATCA
Found at i:65553345 original size:73 final size:73
Alignment explanation
Indices: 65553245--65553382 Score: 201
Period size: 73 Copynumber: 1.9 Consensus size: 73
65553235 GATCTCATAT
*
65553245 CGATGCCATGTCCCAGACATGGTCTTACAC-CTATCACAATGCCATAGCCCAGCTATGGTCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACGCTATCACAATG-CATAGCCCAACTATGGTCTTAC
65553309 ATGTCATCA
65 ATGTCATCA
* *
65553318 CGATGCCATGGT-CCAG-CTATGGTCTTACACGCTATTACGATGCATAGCCCAACTATGGTCTTA
1 CGATGCCAT-GTCCCAGAC-ATGGTCTTACACGCTATCACAATGCATAGCCCAACTATGGTCTTA
65553381 CA
64 CA
65553383 CGTACTCACA
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
72 1 0.02
73 47 0.80
74 11 0.19
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (73 bp):
CGATGCCATGTCCCAGACATGGTCTTACACGCTATCACAATGCATAGCCCAACTATGGTCTTACA
TGTCATCA
Found at i:65554279 original size:12 final size:12
Alignment explanation
Indices: 65554262--65554303 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
65554252 TCCAAAACTT
65554262 GGAAAACTTTTG
1 GGAAAACTTTTG
65554274 GGAAAAC--TT-
1 GGAAAACTTTTG
65554283 GGAAAACTTTTG
1 GGAAAACTTTTG
65554295 GGAAAACTT
1 GGAAAACTT
65554304 AAAAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 2 0.07
12 16 0.59
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (12 bp):
GGAAAACTTTTG
Found at i:65554309 original size:21 final size:21
Alignment explanation
Indices: 65554255--65554303 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
65554245 GATTAAATCC
65554255 AAAACTTGGAAAACTTTTGGG
1 AAAACTTGGAAAACTTTTGGG
65554276 AAAACTTGGAAAACTTTTGGG
1 AAAACTTGGAAAACTTTTGGG
65554297 AAAACTT
1 AAAACTT
65554304 AAAAAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AAAACTTGGAAAACTTTTGGG
Found at i:65562276 original size:19 final size:19
Alignment explanation
Indices: 65562252--65562290 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65562242 ACTTAAATAG
65562252 GAAGAAGTAGAGTGATGGA
1 GAAGAAGTAGAGTGATGGA
65562271 GAAGAAGTAGAGTGATGGA
1 GAAGAAGTAGAGTGATGGA
65562290 G
1 G
65562291 TAATTACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (19 bp):
GAAGAAGTAGAGTGATGGA
Found at i:65564197 original size:13 final size:13
Alignment explanation
Indices: 65564181--65564213 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65564171 TTTAATGAAA
*
65564181 TTAGTTAATTAGT
1 TTAGATAATTAGT
65564194 TTAGATAATTAGT
1 TTAGATAATTAGT
65564207 TTA-ATAA
1 TTAGATAA
65564214 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:65567660 original size:21 final size:20
Alignment explanation
Indices: 65567628--65567672 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
65567618 ACCATTCAGC
* *
65567628 CGTGTACAATAATACATGGG
1 CGTGTACAATAAAACACGGG
*
65567648 CGTGCTACCATAAAACACGGG
1 CGTG-TACAATAAAACACGGG
65567669 CGTG
1 CGTG
65567673 GGAGAAGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (20 bp):
CGTGTACAATAAAACACGGG
Found at i:65569604 original size:16 final size:15
Alignment explanation
Indices: 65569583--65569677 Score: 65
Period size: 14 Copynumber: 6.3 Consensus size: 15
65569573 ATCCTCCTAT
65569583 TTTTTATTTATTCTTA
1 TTTTTATTTATT-TTA
65569599 TTTTTATTCTTATTTTA
1 TTTTTA-T-TTATTTTA
65569616 -TTTTATTTATTTT-
1 TTTTTATTTATTTTA
* *
65569629 TATTTT-TCT-TTTAA
1 T-TTTTATTTATTTTA
*
65569643 TTTTTATTTTCATTTCA
1 TTTTTA-TTT-ATTTTA
*
65569660 ATTTTA-TTATTTTA
1 TTTTTATTTATTTTA
65569674 TTTT
1 TTTT
65569678 GAAAGACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
13 7 0.11
14 18 0.29
15 9 0.14
16 11 0.17
17 13 0.21
18 5 0.08
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:65569606 original size:12 final size:11
Alignment explanation
Indices: 65569580--65569677 Score: 76
Period size: 12 Copynumber: 8.5 Consensus size: 11
65569570 TGAATCCTCC
65569580 TATTTT-TTATT
1 TATTTTATT-TT
65569591 TATTCTTATTTT
1 TATT-TTATTTT
65569603 TATTCTTA-TTT
1 TATT-TTATTTT
*
65569614 TATTTTATTTA
1 TATTTTATTTT
65569625 T-TTTTATTTT
1 TATTTTATTTT
*
65569635 TCTTTTAATTTT
1 TATTTT-ATTTT
*
65569647 TATTTTCATTTC
1 TATTTT-ATTTT
*
65569659 AATTTTATTATTT
1 TATTTTA-T-TTT
65569672 TATTTT
1 TATTTT
65569678 GAAAGACATA
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.17
11 19 0.26
12 32 0.44
13 9 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:65569625 original size:32 final size:33
Alignment explanation
Indices: 65569584--65569657 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
65569574 TCCTCCTATT
65569584 TTTTATTTATTCTTATTTTTATTCTT-A-TTTTA
1 TTTTATTTATTCTTATTTTTATT-TTAATTTTTA
* *
65569616 TTTTATTTATTTTTATTTTTCTTTTAATTTTTA
1 TTTTATTTATTCTTATTTTTATTTTAATTTTTA
65569649 TTTTCATTT
1 TTTT-ATTT
65569658 CAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 2 0.05
32 22 0.59
33 9 0.24
34 4 0.11
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTATTTATTCTTATTTTTATTTTAATTTTTA
Found at i:65569632 original size:26 final size:28
Alignment explanation
Indices: 65569596--65569651 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
65569586 TTATTTATTC
65569596 TTATTTTTATTCTTATTTT-A-TTTTAT
1 TTATTTTTATTCTTATTTTAATTTTTAT
* *
65569622 TTATTTTTATTTTTCTTTTAATTTTTAT
1 TTATTTTTATTCTTATTTTAATTTTTAT
65569650 TT
1 TT
65569652 TCATTTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 17 0.65
27 1 0.04
28 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (28 bp):
TTATTTTTATTCTTATTTTAATTTTTAT
Found at i:65569646 original size:17 final size:17
Alignment explanation
Indices: 65569596--65569667 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 17
65569586 TTATTTATTC
*
65569596 TTATTTTTATTCTT-ATT
1 TTATTTTTCTT-TTAATT
* *
65569613 TTA-TTTT-ATTTATTT
1 TTATTTTTCTTTTAATT
65569628 TTATTTTTCTTTTAATT
1 TTATTTTTCTTTTAATT
*
65569645 TT-TATTTTCATTTCAATT
1 TTAT-TTTTC-TTTTAATT
65569663 TTATT
1 TTATT
65569668 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
14 2 0.05
15 6 0.14
16 9 0.20
17 16 0.36
18 10 0.23
19 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTCTTTTAATT
Found at i:65569647 original size:7 final size:6
Alignment explanation
Indices: 65569580--65569657 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
65569570 TGAATCCTCC
* * * *
65569580 TATTTT T-TATT TATTCT TATTTT TATTCT TATTTT ATTTTATT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT -TATT-TT TATTTT
* * *
65569629 TATTTT TCTTTT AATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTT
65569658 CAATTTTATT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 4 0.07
6 44 0.79
7 6 0.11
8 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:65569662 original size:18 final size:17
Alignment explanation
Indices: 65569611--65569664 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
65569601 TTTATTCTTA
65569611 TTTTATTTT-ATTT-AT
1 TTTTATTTTCATTTAAT
*
65569626 TTTTATTTTTCTTTTAAT
1 TTTTA-TTTTCATTTAAT
65569644 TTTTATTTTCATTTCAAT
1 TTTTATTTTCATTT-AAT
65569662 TTT
1 TTT
65569665 ATTATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 5 0.15
16 4 0.12
17 11 0.33
18 13 0.39
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTCATTTAAT
Found at i:65569670 original size:38 final size:37
Alignment explanation
Indices: 65569584--65569677 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
65569574 TCCTCCTATT
* * * *
65569584 TTTTATTTATTCTTATTTTTATTCTTATTTTATTTTAT
1 TTTTA-TTATTTTTATTTTAATTCTTATTTTATTTCAA
* * *
65569622 TTATTTTTATTTTTCTTTTAATTTTTATTTTCATTTCAA
1 TT-TTATTATTTTTATTTTAATTCTTATTTT-ATTTCAA
65569661 TTTTATTA-TTTTATTTT
1 TTTTATTATTTTTATTTT
65569678 GAAAGACATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
37 8 0.18
38 28 0.62
39 9 0.20
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (37 bp):
TTTTATTATTTTTATTTTAATTCTTATTTTATTTCAA
Found at i:65572580 original size:13 final size:13
Alignment explanation
Indices: 65572564--65572596 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65572554 TTTAATTAAA
*
65572564 TTAGTTAATTAGT
1 TTAGATAATTAGT
65572577 TTAGATAATTAGT
1 TTAGATAATTAGT
65572590 TTA-ATAA
1 TTAGATAA
65572597 ACAAATCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:65573228 original size:34 final size:35
Alignment explanation
Indices: 65573157--65573240 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
65573147 GTTCCAGTTA
* *
65573157 GGGCCTTAGCCCCTTTTACAGTAACAGTATCAATCT
1 GGGCCTTAGCCCATTTTA-AGTAACAGTAGCAATCT
* * *
65573193 GGGCCTGAGCCCATTTT-AGTAACAGTGGCAGTCT
1 GGGCCTTAGCCCATTTTAAGTAACAGTAGCAATCT
65573227 GGGCCTTAGCCCAT
1 GGGCCTTAGCCCAT
65573241 ATCAATACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 27 0.64
36 15 0.36
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (35 bp):
GGGCCTTAGCCCATTTTAAGTAACAGTAGCAATCT
Found at i:65583719 original size:42 final size:43
Alignment explanation
Indices: 65583628--65583720 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
65583618 GACGTTGATA
* * *
65583628 GTCTTACATGTAATCAAATATCGATGCCACTGTCTCAGACATG
1 GTCTTACATGAAATCAAATATCGATACCACTGTCCCAGACATG
*
65583671 GTCTTACATGAAATCATATAT-GATACCGA-TGTCCCAGACATG
1 GTCTTACATGAAATCAAATATCGATACC-ACTGTCCCAGACATG
65583713 GTCTTACA
1 GTCTTACA
65583721 CGTAAATCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
GTCTTACATGAAATCAAATATCGATACCACTGTCCCAGACATG
Found at i:65584882 original size:13 final size:13
Alignment explanation
Indices: 65584864--65584890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65584854 CAGAAACGAT
65584864 AAAATTTTCACAC
1 AAAATTTTCACAC
65584877 AAAATTTTCACAC
1 AAAATTTTCACAC
65584890 A
1 A
65584891 TTACATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:65589944 original size:55 final size:53
Alignment explanation
Indices: 65589857--65590111 Score: 261
Period size: 55 Copynumber: 4.8 Consensus size: 53
65589847 ATTAGGGTTT
* *
65589857 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATCGGTACGATTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT-GGTAAG-TTTCTAAGGA
* * * * *
65589912 AAGGATACCATGTAGGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT--TCTAAGG-A
* * * *
65589968 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTC-TAAGGA
* *
65590020 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTCTAAGGA
* * * *
65590069 AAGGATACCACGTAAGACTATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG
65590112 GTCCGTGTAT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 6 0.04
53 39 0.23
54 8 0.05
55 71 0.42
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTCTAAGGA
Found at i:65590063 original size:108 final size:109
Alignment explanation
Indices: 65589864--65590064 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 109
65589854 TTTAAGGATA
* *
65589864 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTACGATTTCTAAGGAAAGGATACCATGTAGGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTA-GAGTTCTAAGGAAAGGATACCATGTAAGA
*
65589929 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
65 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
65589974 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAGTTCATAAGGAAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAGAGTTC-TAAGGAAAGGATACCATGTAAGA
* *
65590037 CCATGTCGAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
65590065 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 5 0.06
108 47 0.56
109 5 0.06
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAGAGTTCTAAGGAAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65595202 original size:43 final size:41
Alignment explanation
Indices: 65595089--65595225 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 41
65595079 ACTTTTAATA
65595089 ATTCACCGGCATAAAGCCTGCTAGGCAT-AAGCCTGTATTAC
1 ATTCACCGGCAT-AAGCCTGCTAGGCATAAAGCCTGTATTAC
* * * *
65595130 A--CACCGGC-TCAAAGCCTGCTAGACTTAAAGTCTGATATTAT
1 ATTCACCGGCAT--AAGCCTGCTAGGCATAAAGCCTG-TATTAC
*
65595171 ATTCACCGGCAATAAGCCTGCTAGGCATAAAGCTTG-ATTAC
1 ATTCACCGGC-ATAAGCCTGCTAGGCATAAAGCCTGTATTAC
*
65595212 ATTCACCAGCATAA
1 ATTCACCGGCATAA
65595226 TGCTTTCTAG
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
38 1 0.01
39 21 0.27
40 10 0.13
41 20 0.25
43 26 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
ATTCACCGGCATAAGCCTGCTAGGCATAAAGCCTGTATTAC
Found at i:65599046 original size:16 final size:16
Alignment explanation
Indices: 65599025--65599059 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65599015 ATGTATTGGC
65599025 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
* *
65599041 AAAAGCCGAAATGTCG
1 AAAAGCCAAAATGCCG
65599057 AAA
1 AAA
65599060 GTTTGGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:65599368 original size:29 final size:29
Alignment explanation
Indices: 65599283--65599384 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
65599273 TGAATGTGAC
* * *
65599283 TGGGCCTAACGGGCCATATAAATCTAATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* **
65599312 TGGGCCTAATAGGCCATATAAAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* *
65599341 TAGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
*
65599369 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
65599385 GATACATGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:65606420 original size:16 final size:17
Alignment explanation
Indices: 65606399--65606435 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
65606389 TGTAACGCCA
65606399 CAAAAATCCCGAAA-CC
1 CAAAAATCCCGAAATCC
*
65606415 CAAAAATCCTGAAATCC
1 CAAAAATCCCGAAATCC
65606432 CAAA
1 CAAA
65606436 CTTTCTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.51, C:0.32, G:0.05, T:0.11
Consensus pattern (17 bp):
CAAAAATCCCGAAATCC
Found at i:65607519 original size:8 final size:8
Alignment explanation
Indices: 65607502--65607544 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
65607492 ATGTATCGGC
65607502 AAAAGCCG
1 AAAAGCCG
*
65607510 AAATGCCG
1 AAAAGCCG
65607518 AAAAGCC-
1 AAAAGCCG
*
65607525 AAAATACCG
1 AAAA-GCCG
65607534 AAAAGCCG
1 AAAAGCCG
65607542 AAA
1 AAA
65607545 GTTTGGCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 4 0.14
8 21 0.72
9 4 0.14
ACGTcount: A:0.53, C:0.23, G:0.19, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:65607523 original size:16 final size:16
Alignment explanation
Indices: 65607502--65607544 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
65607492 ATGTATCGGC
*
65607502 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATACCG
*
65607518 AAAAGCCAAAATACCG
1 AAAAGCCGAAATACCG
65607534 AAAAGCCGAAA
1 AAAAGCCGAAA
65607545 GTTTGGCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.23, G:0.19, T:0.05
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:65607686 original size:18 final size:19
Alignment explanation
Indices: 65607653--65607688 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
65607643 ATTTGGCCAT
65607653 ATGGGCCGTAATGGGCTAA
1 ATGGGCCGTAATGGGCTAA
*
65607672 ATGGGCC-TGATGGGCTA
1 ATGGGCCGTAATGGGCTA
65607689 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (19 bp):
ATGGGCCGTAATGGGCTAA
Found at i:65607867 original size:28 final size:28
Alignment explanation
Indices: 65607756--65607869 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
65607746 TGAGCATGAT
* *
65607756 TATGAATGTGACTGGGCCTAACGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
65607784 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
*
65607813 TAT-ACAGGTGATTCGGGCCTAATGGGCCA
1 TATGA-ATGTGATT-GGGCCTAATGGGCCA
* *
65607842 TATGAATATGATTGGGCTTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
65607870 GATACAGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:65607876 original size:57 final size:58
Alignment explanation
Indices: 65607769--65607878 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 58
65607759 GAATGTGACT
* *
65607769 GGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTC
1 GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTC
* * *
65607827 GGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
65607879 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (58 bp):
GGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTC
Found at i:65618473 original size:40 final size:40
Alignment explanation
Indices: 65618426--65618609 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
65618416 CTACTCACTC
* *
65618426 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
65618466 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
65618506 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
65618546 AATGCCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
65618587 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
65618610 TTATCATCCA
Statistics
Matches: 132, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
40 105 0.80
41 23 0.17
42 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:65622072 original size:55 final size:53
Alignment explanation
Indices: 65621985--65622218 Score: 205
Period size: 55 Copynumber: 4.4 Consensus size: 53
65621975 ATTAGGGTTT
*
65621985 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAA-GG
* ** *
65622040 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTTATAAGTTACTATAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * * *
65622094 CAAAGG-TCCCATGTAAGACCATGCCAAGGCTTGG-TATTGGTGAG-TTCATAAGG
1 --AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* * *
65622147 CAAGAATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA--
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
**
65622197 AAGGATACCACATAAGACCATG
1 AAGGATACCATGTAAGACCATG
65622219 AAAAGTCATG
Statistics
Matches: 145, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
49 19 0.13
52 6 0.04
53 37 0.26
54 13 0.09
55 66 0.46
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:65622191 original size:108 final size:110
Alignment explanation
Indices: 65621992--65622192 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
65621982 TTTAAGGATA
* *
65621992 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGGAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAATACCATGTAAGA
* *
65622057 CCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
65622102 CCATGTAAGACCATGCCAAGGCTTGG-TATTGGTGA-G-TTCATAAGGCAAGAATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGAATACCATGTAAG
* *
65622164 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
65622193 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65622334 original size:23 final size:24
Alignment explanation
Indices: 65622308--65622355 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
65622298 AAGGTAAGGT
*
65622308 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
65622331 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
65622355 A
1 A
65622356 GAGCAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:65627365 original size:24 final size:24
Alignment explanation
Indices: 65627328--65627409 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
65627318 CTGGAGGCCT
* *
65627328 AGCCTCTTTCAATAACT-GGGACAAA
1 AGCC-CTTTTAATAACTAGGG-CATA
*
65627353 ATCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
65627377 AGCCATTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
65627401 AGCCCTTTT
1 AGCCCTTTT
65627410 TGCACTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 44 0.88
25 6 0.12
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:65627486 original size:20 final size:20
Alignment explanation
Indices: 65627461--65627519 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
65627451 TATGAGTACA
*
65627461 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATG
65627481 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
65627501 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
65627520 ACCATGTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Done.