Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 194 of 297
Found at i:65823433 original size:42 final size:43
Alignment explanation
Indices: 65823386--65823499 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
65823376 GGACTACCGA
*
65823386 GATTTCGTATAAGACCATATCTAGGATATGACATCAGTAT-AT
1 GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
* * * *
65823428 GATTTCGTATAAGACCATGTC-AGGGACATGGCGTCAATATGAT
1 GATTTCGTATAAGACCATATCTA-GGATATGACATCAATATGAT
* *
65823471 -ATTTCATGTAAGACCATATCTAGGATATG
1 GATTTCGTATAAGACCATATCTAGGATATG
65823500 GCATTGACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.93
43 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
Found at i:65829056 original size:6 final size:6
Alignment explanation
Indices: 65829038--65829076 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
65829028 AGGTTTCCAA
65829038 AAATGG AAAATGG AAATGG AAAT-G AAATGG AAATGG AAA
1 AAATGG -AAATGG AAATGG AAATGG AAATGG AAATGG AAA
65829077 CTTGTAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:65829066 original size:11 final size:11
Alignment explanation
Indices: 65829038--65829072 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
65829028 AGGTTTCCAA
65829038 AAATGGAAAATGG
1 AAATGG-AAAT-G
65829051 AAATGGAAATG
1 AAATGGAAATG
65829062 AAATGGAAATG
1 AAATGGAAATG
65829073 GAAACTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 4 0.18
13 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:65829262 original size:26 final size:25
Alignment explanation
Indices: 65829218--65829288 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
65829208 TATTTTCTTG
* *
65829218 AAATTTTACT-AGGGCAAAATTGTCA
1 AAATTTTA-TAAGGGTAAAATCGTCA
*
65829243 AAATTTTATAAAGGGTAAAATCGTTA
1 AAATTTTAT-AAGGGTAAAATCGTCA
* *
65829269 AAATTTTGTCAGGGTAAAAT
1 AAATTTTATAAGGGTAAAAT
65829289 AGAGATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 18 0.46
26 20 0.51
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (25 bp):
AAATTTTATAAGGGTAAAATCGTCA
Found at i:65831587 original size:45 final size:45
Alignment explanation
Indices: 65831393--65831602 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
65831383 TGATTCTATC
* * * * * * *
65831393 AAGACCATAGCTGAAAGACGCTATGGCATCATGAAT-CAAAGAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACG-ATGAAAATAAAT
* * * * *
65831438 AAGACCATAGTTGAAAGAAACTATGGCAACACAACGGAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGA-TGAAAATAAAT
** * *
65831484 AAGACTGTGGTTGAAAAACACTATGGCAACACGACGAAAAATAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATG-AAAATAAAT
* * *
65831530 AAGACCATGGTTGAAAGACACTATGGCATCACGATGAGAATAACT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
* *
65831575 AAGACCATGGTTGAAAGATACCATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
65831603 CACTCCGATC
Statistics
Matches: 135, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 61 0.45
46 73 0.54
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
Found at i:65833710 original size:29 final size:29
Alignment explanation
Indices: 65833665--65833828 Score: 109
Period size: 29 Copynumber: 5.7 Consensus size: 29
65833655 GTCCTGACGA
* * **
65833665 ACTTTATCTTC-TATTTATTATCCTAGTGG
1 ACTTTATC-TCGTGTTTACTATCCTAGCAG
* * *
65833694 ATTTTATCTCGTGTTTACTGTCCCAGCAG
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
* *
65833723 ACTTTATCTCTTGTTTACTATCCTTA-CTG
1 ACTTTATCTCGTGTTTACTATCC-TAGCAG
* * * *
65833752 ACTTTATCCCATGTTTACTAT-CTTGACAA
1 ACTTTATCTCGTGTTTACTATCCTAG-CAG
* * * * *
65833781 ACTTTATCTCATGTTTACTGTCCCATCAA
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
*
65833810 ACTTTATCCCGTGTTTACT
1 ACTTTATCTCGTGTTTACT
65833829 GTCTCGATGA
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 3 0.03
29 100 0.94
30 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (29 bp):
ACTTTATCTCGTGTTTACTATCCTAGCAG
Found at i:65833758 original size:58 final size:59
Alignment explanation
Indices: 65833696--65833831 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 59
65833686 CCTAGTGGAT
* * * * **
65833696 TTTATCTCGTGTTTACTGTCCCAG-CAGACTTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCAT-CAAAC
* * ** *
65833754 TTTATCCCATGTTTACTAT-CTTGACAAACTTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
65833812 TTTATCCCGTGTTTACTGTC
1 TTTATCCCGTGTTTACTGTC
65833832 TCGATGAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
57 2 0.03
58 57 0.92
59 3 0.05
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (59 bp):
TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
Found at i:65833829 original size:29 final size:29
Alignment explanation
Indices: 65833696--65833831 Score: 114
Period size: 29 Copynumber: 4.7 Consensus size: 29
65833686 CCTAGTGGAT
* * *
65833696 TTTATCTCGTGTTTACTGTCCCAGCAGAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* * * **
65833725 TTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCTCATGTTTACTGTCCCAT-CAAAC
* * **
65833754 TTTATCCCATGTTTACTATCTTGA-CAAAC
1 TTTATCTCATGTTTACTGTC-CCATCAAAC
65833783 TTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* *
65833812 TTTATCCCGTGTTTACTGTC
1 TTTATCTCATGTTTACTGTC
65833832 TCGATGAACT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.04
29 82 0.96
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTATCTCATGTTTACTGTCCCATCAAAC
Found at i:65833841 original size:29 final size:29
Alignment explanation
Indices: 65833752--65833841 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
65833742 ATCCTTACTG
* * *
65833752 ACTTTATCCCATGTTTACTATCTTGACAA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
* *
65833781 ACTTTATCTCATGTTTACTGTC-CCATCAA
1 ACTTTATCCCATGTTTACTGTCTCGAT-AA
* *
65833810 ACTTTATCCCGTGTTTACTGTCTCGATGA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
65833839 ACT
1 ACT
65833842 ATTTATGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
28 1 0.02
29 46 0.92
30 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (29 bp):
ACTTTATCCCATGTTTACTGTCTCGATAA
Found at i:65835973 original size:21 final size:21
Alignment explanation
Indices: 65835949--65835988 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65835939 TAAATAATTT
*
65835949 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAATTTTTAAAAAGA
*
65835970 TTTTTATACTTTTTAAAAA
1 TTTTTATAATTTTTAAAAA
65835989 AAATTAAGAA
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:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTATAATTTTTAAAAAGA
Found at i:65835982 original size:20 final size:21
Alignment explanation
Indices: 65835949--65835987 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
65835939 TAAATAATTT
*
65835949 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAACTTTTGAAAAGA
*
65835970 TTTTTAT-ACTTTTTAAAA
1 TTTTTATAACTTTTGAAAA
65835988 AAAATTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTATAACTTTTGAAAAGA
Found at i:65840524 original size:15 final size:16
Alignment explanation
Indices: 65840504--65840579 Score: 79
Period size: 15 Copynumber: 5.0 Consensus size: 16
65840494 CATTATGATA
65840504 TTGTATCTTGGATTT-
1 TTGTATCTTGGATTTC
65840519 TTGTATCTTGGATTTC
1 TTGTATCTTGGATTTC
*
65840535 TT-TATCTAGGATTTC
1 TTGTATCTTGGATTTC
* *
65840550 TT-TGTCTTGGACTTC
1 TTGTATCTTGGATTTC
* *
65840565 TT-TGTCTTGGTTTTC
1 TTGTATCTTGGATTTC
65840580 ATGTCATCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
15 52 0.96
16 2 0.04
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (16 bp):
TTGTATCTTGGATTTC
Found at i:65846808 original size:13 final size:14
Alignment explanation
Indices: 65846778--65846805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65846768 TCGATCCACC
65846778 TATATTAATTTTTT
1 TATATTAATTTTTT
65846792 TATATTAATTTTTT
1 TATATTAATTTTTT
65846806 ATAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTAATTTTTT
Found at i:65854646 original size:32 final size:32
Alignment explanation
Indices: 65854610--65854674 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
65854600 TGTAAGCATT
*
65854610 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
65854642 TTAGCATTTTAATAGTTAACGGATGATGGGCA
1 TTAGCATTTTAATAGTTAACGGATGATGGGCA
65854674 T
1 T
65854675 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAACGGATGATGGGCA
Found at i:65860219 original size:42 final size:43
Alignment explanation
Indices: 65860172--65860285 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
65860162 GGACTACCGA
*
65860172 GATTTCGTATAAGACCATATCTAGGATATGACATCAGTAT-AT
1 GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
* * * *
65860214 GATTTCGTATAAGACCATGTC-AGGGACATGGCGTCAATATGAT
1 GATTTCGTATAAGACCATATCTA-GGATATGACATCAATATGAT
* *
65860257 -ATTTCATGTAAGACCATATCTAGGATATG
1 GATTTCGTATAAGACCATATCTAGGATATG
65860286 GCATTGACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.93
43 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCTAGGATATGACATCAATATGAT
Found at i:65865842 original size:6 final size:6
Alignment explanation
Indices: 65865824--65865862 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
65865814 AGGTTTCCAA
65865824 AAATGG AAAATGG AAATGG AAAT-G AAATGG AAATGG AAA
1 AAATGG -AAATGG AAATGG AAATGG AAATGG AAATGG AAA
65865863 CTTGTAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:65865852 original size:11 final size:11
Alignment explanation
Indices: 65865824--65865858 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
65865814 AGGTTTCCAA
65865824 AAATGGAAAATGG
1 AAATGG-AAAT-G
65865837 AAATGGAAATG
1 AAATGGAAATG
65865848 AAATGGAAATG
1 AAATGGAAATG
65865859 GAAACTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 4 0.18
13 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.17
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:65866048 original size:26 final size:25
Alignment explanation
Indices: 65866004--65866074 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
65865994 TATTTTCTTG
* *
65866004 AAATTTTACT-AGGGCAAAATTGTCA
1 AAATTTTA-TAAGGGTAAAATCGTCA
*
65866029 AAATTTTATAAAGGGTAAAATCGTTA
1 AAATTTTAT-AAGGGTAAAATCGTCA
* *
65866055 AAATTTTGTCAGGGTAAAAT
1 AAATTTTATAAGGGTAAAAT
65866075 AGAGATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 18 0.46
26 20 0.51
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (25 bp):
AAATTTTATAAGGGTAAAATCGTCA
Found at i:65868373 original size:45 final size:45
Alignment explanation
Indices: 65868179--65868388 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
65868169 TGATTCTATC
* * * * * * *
65868179 AAGACCATAGCTGAAAGACGCTATGGCATCATGAAT-CAAAGAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACG-ATGAAAATAAAT
* * * * *
65868224 AAGACCATAGTTGAAAGAAACTATGGCAACACAACGGAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGA-TGAAAATAAAT
** * *
65868270 AAGACTGTGGTTGAAAAACACTATGGCAACACGACGAAAAATAAAT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATG-AAAATAAAT
* * *
65868316 AAGACCATGGTTGAAAGACACTATGGCATCACGATGAGAATAACT
1 AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
* *
65868361 AAGACCATGGTTGAAAGATACCATGGCA
1 AAGACCATGGTTGAAAGACACTATGGCA
65868389 CACTCCGATC
Statistics
Matches: 135, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.01
45 61 0.45
46 73 0.54
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGACACTATGGCAACACGATGAAAATAAAT
Found at i:65870496 original size:29 final size:29
Alignment explanation
Indices: 65870451--65870614 Score: 109
Period size: 29 Copynumber: 5.7 Consensus size: 29
65870441 GTCCTGACGA
* * **
65870451 ACTTTATCTTC-TATTTATTATCCTAGTGG
1 ACTTTATC-TCGTGTTTACTATCCTAGCAG
* * *
65870480 ATTTTATCTCGTGTTTACTGTCCCAGCAG
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
* *
65870509 ACTTTATCTCTTGTTTACTATCCTTA-CTG
1 ACTTTATCTCGTGTTTACTATCC-TAGCAG
* * * *
65870538 ACTTTATCCCATGTTTACTAT-CTTGACAA
1 ACTTTATCTCGTGTTTACTATCCTAG-CAG
* * * * *
65870567 ACTTTATCTCATGTTTACTGTCCCATCAA
1 ACTTTATCTCGTGTTTACTATCCTAGCAG
*
65870596 ACTTTATCCCGTGTTTACT
1 ACTTTATCTCGTGTTTACT
65870615 GTCTCGATGA
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 3 0.03
29 100 0.94
30 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (29 bp):
ACTTTATCTCGTGTTTACTATCCTAGCAG
Found at i:65870544 original size:58 final size:59
Alignment explanation
Indices: 65870482--65870617 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 59
65870472 CCTAGTGGAT
* * * * **
65870482 TTTATCTCGTGTTTACTGTCCCAG-CAGACTTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCAT-CAAAC
* * ** *
65870540 TTTATCCCATGTTTACTAT-CTTGACAAACTTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
65870598 TTTATCCCGTGTTTACTGTC
1 TTTATCCCGTGTTTACTGTC
65870618 TCGATGAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
57 2 0.03
58 57 0.92
59 3 0.05
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (59 bp):
TTTATCCCGTGTTTACTGTCCCAGACAAACTTTATCTCATGTTTACTATCCCATCAAAC
Found at i:65870615 original size:29 final size:29
Alignment explanation
Indices: 65870482--65870617 Score: 114
Period size: 29 Copynumber: 4.7 Consensus size: 29
65870472 CCTAGTGGAT
* * *
65870482 TTTATCTCGTGTTTACTGTCCCAGCAGAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* * * **
65870511 TTTATCTCTTGTTTACTAT-CCTTACTGAC
1 TTTATCTCATGTTTACTGTCCCAT-CAAAC
* * **
65870540 TTTATCCCATGTTTACTATCTTGA-CAAAC
1 TTTATCTCATGTTTACTGTC-CCATCAAAC
65870569 TTTATCTCATGTTTACTGTCCCATCAAAC
1 TTTATCTCATGTTTACTGTCCCATCAAAC
* *
65870598 TTTATCCCGTGTTTACTGTC
1 TTTATCTCATGTTTACTGTC
65870618 TCGATGAACT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.04
29 82 0.96
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTATCTCATGTTTACTGTCCCATCAAAC
Found at i:65870627 original size:29 final size:29
Alignment explanation
Indices: 65870538--65870627 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
65870528 ATCCTTACTG
* * *
65870538 ACTTTATCCCATGTTTACTATCTTGACAA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
* *
65870567 ACTTTATCTCATGTTTACTGTC-CCATCAA
1 ACTTTATCCCATGTTTACTGTCTCGAT-AA
* *
65870596 ACTTTATCCCGTGTTTACTGTCTCGATGA
1 ACTTTATCCCATGTTTACTGTCTCGATAA
65870625 ACT
1 ACT
65870628 ATTTATGTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
28 1 0.02
29 46 0.92
30 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (29 bp):
ACTTTATCCCATGTTTACTGTCTCGATAA
Found at i:65872696 original size:21 final size:21
Alignment explanation
Indices: 65872672--65872711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65872662 TAAATAATTT
*
65872672 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAATTTTTAAAAAGA
*
65872693 TTTTTATACTTTTTAAAAA
1 TTTTTATAATTTTTAAAAA
65872712 AAATTAAGAA
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:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTTATAATTTTTAAAAAGA
Found at i:65872705 original size:20 final size:21
Alignment explanation
Indices: 65872672--65872710 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
65872662 TAAATAATTT
*
65872672 TTTTTATAATTTTTGAAAAGA
1 TTTTTATAACTTTTGAAAAGA
*
65872693 TTTTTAT-ACTTTTTAAAA
1 TTTTTATAACTTTTGAAAA
65872711 AAAATTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTATAACTTTTGAAAAGA
Found at i:65877945 original size:92 final size:92
Alignment explanation
Indices: 65877788--65877964 Score: 354
Period size: 92 Copynumber: 1.9 Consensus size: 92
65877778 GTACAATTGG
65877788 TAAATGGAGAAATGGGGTTGAACAAAAAGTGCAAACAAGAACCAATACCGATTTGGTATCGACCC
1 TAAATGGAGAAATGGGGTTGAACAAAAAGTGCAAACAAGAACCAATACCGATTTGGTATCGACCC
65877853 GTTGTTTATAAGCTCTTTTACTTCAGT
66 GTTGTTTATAAGCTCTTTTACTTCAGT
65877880 TAAATGGAGAAATGGGGTTGAACAAAAAGTGCAAACAAGAACCAATACCGATTTGGTATCGACCC
1 TAAATGGAGAAATGGGGTTGAACAAAAAGTGCAAACAAGAACCAATACCGATTTGGTATCGACCC
65877945 GTTGTTTATAAGCTCTTTTA
66 GTTGTTTATAAGCTCTTTTA
65877965 GTTCGGTTTG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (92 bp):
TAAATGGAGAAATGGGGTTGAACAAAAAGTGCAAACAAGAACCAATACCGATTTGGTATCGACCC
GTTGTTTATAAGCTCTTTTACTTCAGT
Found at i:65879088 original size:15 final size:15
Alignment explanation
Indices: 65879068--65879115 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65879058 GCTAAGATGG
65879068 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65879083 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
65879097 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65879112 GTTT
1 GTTT
65879116 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65879102 original size:14 final size:14
Alignment explanation
Indices: 65879062--65879105 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65879052 AGTTGAGCTA
65879062 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
65879076 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
65879091 AGATGGGTTTATGG
1 AGATGGGTTTATGG
65879105 A
1 A
65879106 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:65879131 original size:29 final size:29
Alignment explanation
Indices: 65879062--65879121 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65879052 AGTTGAGCTA
*
65879062 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65879091 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65879120 AG
1 AG
65879122 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65880141 original size:14 final size:14
Alignment explanation
Indices: 65880099--65880143 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65880089 TTAAAGAAGC
65880099 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65880113 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65880126 AACTCATTTAATTA
1 AACTCATTAAATTA
65880140 AACT
1 AACT
65880144 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65880651 original size:10 final size:10
Alignment explanation
Indices: 65880636--65880662 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65880626 TAAGTTGAAG
65880636 TTGAGCTGAT
1 TTGAGCTGAT
65880646 TTGAGCTGAT
1 TTGAGCTGAT
65880656 TTGAGCT
1 TTGAGCT
65880663 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:65881123 original size:18 final size:17
Alignment explanation
Indices: 65881089--65881123 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65881079 TTACAACTTG
*
65881089 ATTTTTTTTAATTCGAA
1 ATTTTTTTTAATACGAA
65881106 ATTTTTTTTAACTACGAA
1 ATTTTTTTTAA-TACGAA
65881124 CCTATTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTTTTTTTAATACGAA
Found at i:65882480 original size:20 final size:20
Alignment explanation
Indices: 65882433--65882481 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
65882423 AAACGAGCTC
65882433 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
65882454 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
65882473 AAATGAGCT
1 AAATGAGCT
65882482 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:65884969 original size:22 final size:22
Alignment explanation
Indices: 65884944--65884986 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65884934 GACTTATGGA
*
65884944 AATTCA-ATCTTGATAATTCGAC
1 AATTCAGATC-TGACAATTCGAC
65884966 AATTCAGATCTGACAATTCGA
1 AATTCAGATCTGACAATTCGA
65884987 GAAGCGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
AATTCAGATCTGACAATTCGAC
Found at i:65889539 original size:20 final size:20
Alignment explanation
Indices: 65889492--65889540 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
65889482 AAACGAGCTC
65889492 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
65889513 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
65889532 AAATGAGCT
1 AAATGAGCT
65889541 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:65891120 original size:18 final size:19
Alignment explanation
Indices: 65891097--65891135 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
65891087 TTTATCTCAA
*
65891097 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
65891115 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
65891134 TT
1 TT
65891136 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:65891151 original size:48 final size:49
Alignment explanation
Indices: 65891099--65891202 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
65891089 TATCTCAATT
* * *
65891099 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
65891147 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
65891195 TCTTTTTC
1 TCTTTTTC
65891203 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:65891174 original size:18 final size:18
Alignment explanation
Indices: 65891153--65891202 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
65891143 AAACTCTTTT
65891153 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65891171 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
65891189 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
65891203 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:65891192 original size:24 final size:24
Alignment explanation
Indices: 65891128--65891209 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
65891118 CTTGTTCACA
*
65891128 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
65891152 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
65891176 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
65891200 TTCTTTTTCT
1 TTCTTTTTCT
65891210 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:65891261 original size:42 final size:42
Alignment explanation
Indices: 65891206--65891302 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
65891196 CTTTTTCTTT
* * *
65891206 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
65891247 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
65891289 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
65891303 CTCATAATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.14
42 44 0.86
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:65891280 original size:21 final size:21
Alignment explanation
Indices: 65891213--65891280 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
65891203 TTTTTCTTTC
*
65891213 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
65891234 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
65891254 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
65891276 ATTTC
1 ATTTC
65891281 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:65892242 original size:19 final size:18
Alignment explanation
Indices: 65892217--65892259 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
65892207 GATCACACAC
65892217 TTTTTTTTTAATTTCGTA
1 TTTTTTTTTAATTTCGTA
*
65892235 TATTTTTTTTAATTTTGTA
1 T-TTTTTTTTAATTTCGTA
65892254 TTTTTT
1 TTTTTT
65892260 AATACTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTAATTTCGTA
Found at i:65893805 original size:20 final size:20
Alignment explanation
Indices: 65893759--65893806 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
65893749 AGTAAGCTCG
*
65893759 GTTGAGTTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
***
65893779 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
65893799 GTTGAGCT
1 GTTGAGCT
65893807 GGACAAAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:65899995 original size:50 final size:52
Alignment explanation
Indices: 65899909--65900005 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 52
65899899 TTGCATGACT
*
65899909 TAATTTAATGATGCAAACTTTAACTAACATGGGAGTTAAATAATGCAGGTCA
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTAAATAATGCAGGTCA
* * *
65899961 TAATTT-ATGATGCAAAC-TTAACTGACATGAGAGTTACATGATGCA
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTAAATAATGCA
65900006 TGACTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 24 0.59
51 11 0.27
52 6 0.15
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTAAATAATGCAGGTCA
Found at i:65900126 original size:39 final size:39
Alignment explanation
Indices: 65900028--65900153 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
65900018 ATGCAGAACA
* * *
65900028 CATATTAATGATGTTCAAATTATGACTTAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
* *
65900067 CATTGCTAATGATGTTCAAACTATGACATAATTAATGACT
1 CA-TACTAATGATGTTCAAACTATGACATAATTAAAGACT
* *
65900107 CATACTAATGATGTTCAAACTACGACATAATTAAAGACA
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
*
65900146 CAAACTAA
1 CATACTAA
65900154 AATAACTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 42 0.55
40 34 0.45
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:65901871 original size:21 final size:20
Alignment explanation
Indices: 65901834--65901872 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65901824 GCTTTTTCAA
* *
65901834 TTTTTTTTCTTTCATTTCTC
1 TTTTTCTTCTCTCATTTCTC
65901854 TTTTTCTTCTCTCAATTTC
1 TTTTTCTTCTCTC-ATTTC
65901873 ATTCCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTCTTCTCTCATTTCTC
Found at i:65904739 original size:43 final size:43
Alignment explanation
Indices: 65904691--65905124 Score: 692
Period size: 43 Copynumber: 10.1 Consensus size: 43
65904681 CCGGCATTAC
* * *
65904691 GCCTGCTAGGCACGAAGGCCCGAATATACGTCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
65904734 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
65904777 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
65904820 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
65904863 GCCTGCTAGGCACGAAGTCCCGAATACACATCTCCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
65904906 GCCTCCTAAGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
65904949 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
65904992 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
65905035 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
65905078 GCCTTCTAGGCACGAAGGCCCGAATACA-AT-ACCAGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
65905119 GCCTGC
1 GCCTGC
65905125 GGGATTTANN
Statistics
Matches: 365, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
41 14 0.04
42 2 0.01
43 349 0.96
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:65909519 original size:29 final size:29
Alignment explanation
Indices: 65909380--65909506 Score: 211
Period size: 29 Copynumber: 4.4 Consensus size: 29
65909370 TACATACATG
* *
65909380 CATATGGCCCACTAGGCCC-AATCACATT
1 CATATGGCCCATTAGGCCCAAATCACGTT
*
65909408 CATATGGCCCATTAGGCCCAAATCATGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
65909437 CATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
*
65909466 TATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATTAGGCCCAAATCACGTT
65909495 CATATGGCCCAT
1 CATATGGCCCAT
65909507 CCAGCCCGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 18 0.20
29 74 0.80
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACGTT
Found at i:65909519 original size:58 final size:58
Alignment explanation
Indices: 65909380--65909523 Score: 206
Period size: 58 Copynumber: 2.5 Consensus size: 58
65909370 TACATACATG
*
65909380 CATATGGCCCA-CTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCATGTT
1 CATATGGCCCATCTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
* *
65909437 CATATGGCCCAT-TAGGCCCAAATCACGTTTATATGGCCCATTAGGCCCAAATCACGTT
1 CATATGGCCCATCTAGGCCC-AATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
*
65909495 CATATGGCCCATCCA-GCCCGAATCA-ATTC
1 CATATGGCCCATCTAGGCCC-AATCACATTC
65909524 CAAGCCATGT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
57 20 0.26
58 56 0.73
59 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (58 bp):
CATATGGCCCATCTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACGTT
Found at i:65911788 original size:52 final size:51
Alignment explanation
Indices: 65911694--65911852 Score: 153
Period size: 50 Copynumber: 3.1 Consensus size: 51
65911684 TAAATGCATG
* * * * * *
65911694 TTTAA-GATGTAAACTAAACGAACA-AATGAGTTACTTATTGCATGACTTCA
1 TTTAATGATGCAAACTAAACTAACATGA-GAGTTACATAATGCATGACTTAA
* * * * *
65911744 TTTAATGATGCAAAATTTAACTAACATGGGAGTTACATAATGCATGTCATAA
1 TTTAATGATGC-AAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
* *
65911796 TTT-ATGATGCAAACTAAACTAACATGATAGTTACATAATGCATGACTTTA
1 TTTAATGATGCAAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
*
65911846 TTAAATG
1 TTTAATG
65911853 TAGAACACCT
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
50 40 0.47
51 14 0.16
52 32 0.37
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (51 bp):
TTTAATGATGCAAACTAAACTAACATGAGAGTTACATAATGCATGACTTAA
Found at i:65911945 original size:39 final size:39
Alignment explanation
Indices: 65911865--65911945 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
65911855 GAACACCTAA
* ** *
65911865 TAATGATGTTCAAACTATGATATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
65911904 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
1 TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
65911943 TAA
1 TAA
65911946 AATAACATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (39 bp):
TAATGATGTTCAAACTATGACATAATTAAAGAAACAAAC
Found at i:65928702 original size:23 final size:22
Alignment explanation
Indices: 65928651--65928702 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
65928641 CCTCGTCTTT
*
65928651 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
65928673 -TCATTTTCTCTTCTTTTT-TCAAC
1 TTC-TTTTCT-TTCTTTTTCT-AAC
65928696 TTCTTTT
1 TTCTTTT
65928703 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 6 0.24
23 15 0.60
24 2 0.08
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:65928717 original size:18 final size:18
Alignment explanation
Indices: 65928696--65928734 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
65928686 TTTTTTCAAC
* *
65928696 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
65928714 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
65928732 TTC
1 TTC
65928735 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:65941085 original size:13 final size:13
Alignment explanation
Indices: 65941067--65941091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65941057 TTTTTACTTT
65941067 CTTAGTTAATTTA
1 CTTAGTTAATTTA
65941080 CTTAGTTAATTT
1 CTTAGTTAATTT
65941092 TTAGTTTTTA
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:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
CTTAGTTAATTTA
Found at i:65943770 original size:21 final size:21
Alignment explanation
Indices: 65943744--65943806 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
65943734 TTGGTATTTG
65943744 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
65943765 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
65943786 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
65943807 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:65945320 original size:49 final size:49
Alignment explanation
Indices: 65945264--65945362 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
65945254 ACCACACACC
65945264 CATGTGTCTAGCCCGTGTGCCCTTCGAAGTGGCCACACATGCCCGTGGG
1 CATGTGTCTAGCCCGTGTGCCCTTCGAAGTGGCCACACATGCCCGTGGG
65945313 CATGTGTCTAGCCCGTGTGCCCTTCGAAGTGGCCACACATGCCCGTGGG
1 CATGTGTCTAGCCCGTGTGCCCTTCGAAGTGGCCACACATGCCCGTGGG
65945362 C
1 C
65945363 CAGGCGGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.22
Consensus pattern (49 bp):
CATGTGTCTAGCCCGTGTGCCCTTCGAAGTGGCCACACATGCCCGTGGG
Found at i:65959543 original size:49 final size:51
Alignment explanation
Indices: 65959466--65959708 Score: 248
Period size: 49 Copynumber: 4.9 Consensus size: 51
65959456 TATTGTGAGG
* * * *
65959466 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGA
* * *
65959515 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTC-GATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATAACTTAGA
* * * * * *
65959566 TTACGTGTGTAGTACTAAGTGTAGGCTACTATGGGTACCCGATAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGA
* * ** *
65959617 TTACATGTGTAGT-CTAAGTGCAGGCTACTA--CGTGATCAGAT-GGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGT-ACCAGATAACTTAGA
*
65959665 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
65959709 GCCTTGTCTA
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
48 16 0.10
49 60 0.37
50 26 0.16
51 60 0.37
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGA
Found at i:65963665 original size:14 final size:14
Alignment explanation
Indices: 65963646--65963677 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
65963636 ATTGTTGGAT
65963646 GTCTTGAAATTCTA
1 GTCTTGAAATTCTA
65963660 GTCTTGAAATTCTA
1 GTCTTGAAATTCTA
65963674 GTCT
1 GTCT
65963678 ACATAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (14 bp):
GTCTTGAAATTCTA
Found at i:65965090 original size:27 final size:27
Alignment explanation
Indices: 65965049--65965102 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65965039 TGTCATGTGA
* *
65965049 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
65965076 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
65965103 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:65965427 original size:49 final size:50
Alignment explanation
Indices: 65965355--65965543 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 50
65965345 TGAGGTCATG
* * *
65965355 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCGCT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * *
65965404 TGTGTAGTACTAAGTGCAGGCTACTATAG-GTACCCGATAACTTCGATTACA
1 TGTGTAGTACTAAGTGCAGGCTACTAT-GTGTACCAGATAA-TTAGGTCACA
* ** * ** *
65965455 TGTGTAGTACTAAGTGCTGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
*
65965505 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
65965544 GCCTTGTCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 37 0.32
50 42 0.37
51 35 0.31
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
Found at i:65965538 original size:101 final size:100
Alignment explanation
Indices: 65965355--65965543 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 100
65965345 TGAGGTCATG
** * * *
65965355 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCTTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
*
65965420 CAGGCTACTATAGGTACCCGATAACTTCGATTACA
66 CAGGCTACTATAGGTACCAGATAACTTCGATTACA
* * **
65965455 TGTGTAGTACTAAGTGCTGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACGTGTGTAGTACTAAGT
65965520 GCAGGCTACTAT-GCGTACCAGATA
65 GCAGGCTACTATAG-GTACCAGATA
65965544 GCCTTGTCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 36 0.47
101 41 0.53
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTATAGGTACCAGATAACTTCGATTACA
Found at i:65969157 original size:19 final size:19
Alignment explanation
Indices: 65969133--65969171 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
65969123 CGGGTTACTT
65969133 AGAAAATATCTTCTCAAAA
1 AGAAAATATCTTCTCAAAA
*
65969152 AGAAAATATCTTCTTAAAA
1 AGAAAATATCTTCTCAAAA
65969171 A
1 A
65969172 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (19 bp):
AGAAAATATCTTCTCAAAA
Found at i:65982870 original size:85 final size:85
Alignment explanation
Indices: 65982726--65982899 Score: 312
Period size: 85 Copynumber: 2.0 Consensus size: 85
65982716 TCGAGAGGTC
* * *
65982726 AAACAACTAAGAAATAAAAATGTCGCTCTCGTCAAAGTATTGTGGCAAAAGCACGGGGTAGAAGA
1 AAACAACTAAGAAATAAAAATGTCGCTCTCGTAAAAGTACTGTGGCAAAAGCACAGGGTAGAAGA
65982791 GACTACATGGGAACCTGAGG
66 GACTACATGGGAACCTGAGG
65982811 AAACAACTAAGAAATAAAAATGTCGCTCTCGTAAAAGTACTGTGGCAAAAGCACAGGGTAGAAGA
1 AAACAACTAAGAAATAAAAATGTCGCTCTCGTAAAAGTACTGTGGCAAAAGCACAGGGTAGAAGA
*
65982876 GACTACATGGGAACCTTAGG
66 GACTACATGGGAACCTGAGG
65982896 AAAC
1 AAAC
65982900 TATGAGAAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (85 bp):
AAACAACTAAGAAATAAAAATGTCGCTCTCGTAAAAGTACTGTGGCAAAAGCACAGGGTAGAAGA
GACTACATGGGAACCTGAGG
Found at i:65987806 original size:20 final size:20
Alignment explanation
Indices: 65987783--65987845 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
65987773 GACCTTGTCA
65987783 TAACATGTAAAATCCCTGAT
1 TAACATGTAAAATCCCTGAT
*** * *
65987803 TAAC-TGTTCGA-CCTTGTT
1 TAACATGTAAAATCCCTGAT
65987821 ATAACATGTAAAATCCCTGAT
1 -TAACATGTAAAATCCCTGAT
65987842 TAAC
1 TAAC
65987846 CATGCATATC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 5 0.17
19 8 0.27
20 12 0.40
21 5 0.17
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
TAACATGTAAAATCCCTGAT
Found at i:65987816 original size:39 final size:39
Alignment explanation
Indices: 65987768--65987845 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
65987758 CTACAACAAA
*
65987768 TGTTTGACCTTGTCATAACATGTAAAATCCCTGATTAAC
1 TGTTCGACCTTGTCATAACATGTAAAATCCCTGATTAAC
*
65987807 TGTTCGACCTTGTTATAACATGTAAAATCCCTGATTAAC
1 TGTTCGACCTTGTCATAACATGTAAAATCCCTGATTAAC
65987846 CATGCATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (39 bp):
TGTTCGACCTTGTCATAACATGTAAAATCCCTGATTAAC
Found at i:65994645 original size:71 final size:71
Alignment explanation
Indices: 65994529--65994665 Score: 256
Period size: 71 Copynumber: 1.9 Consensus size: 71
65994519 ATTCAGCAGC
*
65994529 TAAATCTGAAGCAAGGGCTCCAGCTAGAACTTATGCTATAAAGGCACGTGAAGATGCTTCATCAC
1 TAAATCTGAAGCAAGGGCTCAAGCTAGAACTTATGCTATAAAGGCACGTGAAGATGCTTCATCAC
65994594 CTGATT
66 CTGATT
*
65994600 TAAATCTGAAGCAAGGGCTCAAGCTAGAACTTATGCTATAAAGGCACGTGAAGATTCTTCATCAC
1 TAAATCTGAAGCAAGGGCTCAAGCTAGAACTTATGCTATAAAGGCACGTGAAGATGCTTCATCAC
65994665 C
66 C
65994666 CGATGTGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (71 bp):
TAAATCTGAAGCAAGGGCTCAAGCTAGAACTTATGCTATAAAGGCACGTGAAGATGCTTCATCAC
CTGATT
Found at i:66006324 original size:28 final size:29
Alignment explanation
Indices: 66006284--66006338 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
66006274 CATGGGCGAT
*
66006284 GACACGGGCGTGT-CTAGGCTGTGTGAGG
1 GACACGGGCGTGTGCTAGGCCGTGTGAGG
* *
66006312 GACATGGGCGTGTGCTTGGCCGTGTGA
1 GACACGGGCGTGTGCTAGGCCGTGTGA
66006339 AAACCCTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (29 bp):
GACACGGGCGTGTGCTAGGCCGTGTGAGG
Found at i:66008858 original size:4 final size:4
Alignment explanation
Indices: 66008849--66008880 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
66008839 TATTTTTATT
66008849 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
66008881 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:66013548 original size:30 final size:30
Alignment explanation
Indices: 66013453--66013549 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
66013443 AGCTCACTCC
* *
66013453 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
66013483 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
66013513 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
66013543 TAGCTCA
1 TAGCTCA
66013550 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:66013795 original size:30 final size:30
Alignment explanation
Indices: 66013761--66013848 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
66013751 CTAACTCATA
66013761 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
66013791 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
** *
66013821 TTTGGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
66013849 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:66013856 original size:299 final size:298
Alignment explanation
Indices: 66013285--66013883 Score: 975
Period size: 299 Copynumber: 2.0 Consensus size: 298
66013275 TGAGGTTAAC
* * *
66013285 TTTGATAGAGCACACCCCGCAAACTTTATCGAGCAAGTCTTTCAAGCCGAGCAATGACATGTTGG
1 TTTGATAGAGCACACCCCGCAAACTTCATCGAACAAGTCTGTCAAGCCGAGCAATGACATGTTGG
*
66013350 CAAGCTAATCCCATATCGTTTCCAGCTCCACGAGCTCCGTCCAGCTCAAATCCAGCTTATTAGAG
66 CAAGCTAATCCCAGATCGTTTCCAGCTCCACGAGCTCCGTCCAGCTCAAATCCAGCTTATTAGAG
* *
66013415 CTCAATCCATCTTGCCTGAGCTAAACCGAGCTCACTCCTAGCTCACTTTCAACTCACGAGCTAAA
131 CTCAATCCAACTTGCCTGAGCTAAACCGAGCTCACTCCTAACTCACTTTCAACTCACGAGCTAAA
66013480 CCTTAGCTCAACTTCAGCTTAGGAGTTTAGCCTCAGCTCAACTTTAGCTCACAAGCTAAAGCTTA
196 CCTTAGCTCAACTTCAGCTTAGGAGTTTAGCCTCAGCTCAACTTTAGCTCACAAGCTAAAGCTTA
* *
66013545 GCTCATTTTAGTTTAAACTCAGTTTTTTCTTTAATGCA
261 GCTCATTTTAGTTTAAACTCAGTTTTGTCTTTAATACA
* * * *
66013583 TTTGATACGAGCACGCCTCGCGAACTTCATCGAACAAGTCTGTCAAGCCGAGCATTGACATGTTG
1 TTTGATA-GAGCACACCCCGCAAACTTCATCGAACAAGTCTGTCAAGCCGAGCAATGACATGTTG
* * * * *
66013648 GCAAGCTGATCCCAGCTCGTTTCTAGCTCCACGAGCTTCGTCCAGCTCAAATCCAGCTTATTCGA
65 GCAAGCTAATCCCAGATCGTTTCCAGCTCCACGAGCTCCGTCCAGCTCAAATCCAGCTTATTAGA
* *
66013713 GCTCAATCCAACTTGCCTGAGCTAAACTGAGCTCACTCCTAACTCA-TATTCAGCTCACGAGCTA
130 GCTCAATCCAACTTGCCTGAGCTAAACCGAGCTCACTCCTAACTCACT-TTCAACTCACGAGCTA
* *
66013777 AACCTTAGCTCAACTTCAGCTTAGGAGTTTAGCCTCAGCTCAACTTTGGCTCACGAGCTAAAGCT
194 AACCTTAGCTCAACTTCAGCTTAGGAGTTTAGCCTCAGCTCAACTTTAGCTCACAAGCTAAAGCT
*
66013842 TAGCTCATTTTAGTTTAAACTCGGTTTTGTCTTTAATACA
259 TAGCTCATTTTAGTTTAAACTCAGTTTTGTCTTTAATACA
66013882 TT
1 TT
66013884 AAATAAAAAT
Statistics
Matches: 277, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
298 8 0.03
299 269 0.97
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (298 bp):
TTTGATAGAGCACACCCCGCAAACTTCATCGAACAAGTCTGTCAAGCCGAGCAATGACATGTTGG
CAAGCTAATCCCAGATCGTTTCCAGCTCCACGAGCTCCGTCCAGCTCAAATCCAGCTTATTAGAG
CTCAATCCAACTTGCCTGAGCTAAACCGAGCTCACTCCTAACTCACTTTCAACTCACGAGCTAAA
CCTTAGCTCAACTTCAGCTTAGGAGTTTAGCCTCAGCTCAACTTTAGCTCACAAGCTAAAGCTTA
GCTCATTTTAGTTTAAACTCAGTTTTGTCTTTAATACA
Found at i:66015537 original size:13 final size:12
Alignment explanation
Indices: 66015493--66015526 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
66015483 ATACAAGTCA
66015493 AAAAAAAATTTC
1 AAAAAAAATTTC
66015505 AAAAAAAATTTC
1 AAAAAAAATTTC
66015517 AAAAAAAATT
1 AAAAAAAATT
66015527 CGAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTTC
Found at i:66016476 original size:9 final size:10
Alignment explanation
Indices: 66016469--66016525 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
66016459 AAGAGAAAAC
66016469 AAAGAAAAGA
1 AAAGAAAAGA
66016479 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
66016491 AAAGAAGA-A
1 AAAGAAAAGA
66016500 AAAGAAAATGA
1 AAAGAAAA-GA
66016511 AATA-AAAAGA
1 AA-AGAAAAGA
66016521 AAAGA
1 AAAGA
66016526 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:66016492 original size:21 final size:20
Alignment explanation
Indices: 66016458--66016525 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
66016448 ACATTCTTGT
66016458 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
66016479 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
66016500 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
66016521 AAAGA
1 AAAGA
66016526 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:66016493 original size:6 final size:5
Alignment explanation
Indices: 66016469--66016525 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
66016459 AAGAGAAAAC
*
66016469 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
66016516 AAAGA AAAGA
1 AAAGA AAAGA
66016526 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:66016500 original size:15 final size:14
Alignment explanation
Indices: 66016469--66016525 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
66016459 AAGAGAAAAC
66016469 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
66016485 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
66016500 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
66016516 AAAGAAAAGA
1 AAAGAAAAGA
66016526 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:66016605 original size:11 final size:12
Alignment explanation
Indices: 66016573--66016603 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66016563 TTGAGAGAAC
66016573 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66016585 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66016597 TTGAAAA
1 TTGAAAA
66016604 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:66016614 original size:12 final size:12
Alignment explanation
Indices: 66016606--66016630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66016596 TTTGAAAAGC
66016606 AAAAAGAAAATG
1 AAAAAGAAAATG
66016618 AAAAAGAAAATG
1 AAAAAGAAAATG
66016630 A
1 A
66016631 GATTAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:66018918 original size:30 final size:30
Alignment explanation
Indices: 66018884--66018980 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
66018874 AGCTCACTCC
66018884 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
66018914 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * **
66018944 CAGCTCAACTTTAGCTCACGAGCTAAAGAT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
66018974 TAGCTCA
1 TAGCTCA
66018981 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:66024678 original size:17 final size:17
Alignment explanation
Indices: 66024656--66024690 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66024646 TATTTCGCAG
* *
66024656 TTGGCGAGTTTCTTATT
1 TTGGCGAGATCCTTATT
66024673 TTGGCGAGATCCTTATT
1 TTGGCGAGATCCTTATT
66024690 T
1 T
66024691 GACGGACTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (17 bp):
TTGGCGAGATCCTTATT
Found at i:66025038 original size:559 final size:562
Alignment explanation
Indices: 66024009--66025038 Score: 1391
Period size: 559 Copynumber: 1.8 Consensus size: 562
66023999 CTAAGTCGTG
* * * * * *
66024009 AGACTTAGATTGGTTAGCATTGACAAATTTCCTGGCAAAGTGTTTCACTAAGCTTCGCCAGGTTT
1 AGACTTAGACTGGTTAACATTGACAAATTTCCTAGCAAAGTATTTCACTAAGCTTCACCAAGTTT
* * * * * * *
66024074 TCAAGTTCTTGTTTCGCGGTTGGTGAGTTCTTTGTTTCGATGAGACGCTTATTTGGAGGACTTTT
66 ACAAGTTCTTATTTCGCAGTTGGCGAGTTCTTTGTTTCGACGAGACGCTTATTTGGAGGACTCTC
*
66024139 CCACTAATAAGTCTTCCACTCATGTTTTGTGTTACTGTAAATGTAATTGTGTATTAGAAATAGTG
131 CCACTAATAAGTCTTCCACTCATGTTTTGTGTTACTATAAATGTAATTGTGTATTAGAAATAGTG
* * * *
66024204 GTTAGTGGGACAGATTTAAGTAATCCAGCATCCTAGTGGATGTAGCATATCAATAACTAAGACAC
196 GTTAGTGGGACACATTTAAGTAATCCAGCATCCTAGTAGAGGTAACATATCAATAACTAAGACAC
* *
66024269 CTTGAGAGAGTCTTGTAGGATGTGATTAATTTGTGGAAGCCAATATGCATGATTACTAATTAGAG
261 CTTGAGAGAGCCTTGTAGGATGTGATTAATTAGTGGAAGCC-ATATGCATGATTACTAATTAGAG
* ** * *
66024334 ATTTACTTGAGCGGGATTTGGACTAGAGTTCTCTATAAATAGGAGAACTTGGTAGTGGAGAGAAG
325 ATTTACTTGAGCGGGATTTCGACTAGAGTTAGCTATAAATAGGAAAACTTGGTAGTAGAGAGAAG
** * *
66024399 ATTTTTATTTCATCTACTCTAATCACATTTGTTCTCATCGAAGAAAACCTAAAAGTGCTCTTCAT
390 ATTTTTATTTCATCTACTCTAATCACATTCATTATCATCGAAGAAAACCCAAAAGTGCTCTTCAT
66024464 CGTTAACGAAGGAACTAATAGCGAATTTTAGTTCCAGTTCTGTCACACCCTCGTTTAGTGAATCG
455 CGTTAACGAAGGAACTAATAGCGAATTTTAGTTCCAGTTCTGTCACACCCTCGTTTAGTGAATCG
66024529 TTATGTATTGAAAGGTTGAATTGGTGAGTCCACCTAAGTCACT
520 TTATGTATTGAAAGGTTGAATTGGTGAGTCCACCTAAGTCACT
** * *
66024572 AGACTTAGACTGGTTAATGTTGGCAAATTTCCTAGCGAAGTATTTCACTAAGCTTCACCAAGTTT
1 AGACTTAGACTGGTTAACATTGACAAATTTCCTAGCAAAGTATTTCACTAAGCTTCACCAAGTTT
*
66024637 ACATA-TTCTTATTTCGCAGTTGGCGAGTTTCTTAT-TTT-GGCGAGATC-CTTATTT-GACGGA
66 ACA-AGTTCTTATTTCGCAGTTGGCGAG-TTCTT-TGTTTCGACGAGA-CGCTTATTTGGA-GGA
** *
66024697 CTCTCCCACTAATAAGT-TTGCCACTCATGTTTTGTGTTGTTATAGATGTAA-TGTGTATTAGAA
126 CTCTCCCACTAATAAGTCTT-CCACTCATGTTTTGTGTTACTATAAATGTAATTGTGTATTAGAA
* *** * *
66024760 ATAGTGGTTAGTGGGACACATTTAAGTCATTTGGCATCCTAGTAGAGGTAACGTGTCAATAACTA
190 ATAGTGGTTAGTGGGACACATTTAAGTAATCCAGCATCCTAGTAGAGGTAACATATCAATAACTA
* * *
66024825 GGACACC-T-AGAGAGCCTTGTAGGATGTGATTAATTAGTGGAAGCC-TATGGCATGGTTACTGA
255 AGACACCTTGAGAGAGCCTTGTAGGATGTGATTAATTAGTGGAAGCCATAT-GCATGATTACTAA
* *
66024887 TTAGATATTTACTTGA-CTGGGATTTCGACTAGAGTTAGCTATAAATAGGACAAAC-TGTTAGTA
319 TTAGAGATTTACTTGAGC-GGGATTTCGACTAGAGTTAGCTATAAATAGGA-AAACTTGGTAGTA
* ** *
66024950 GAGAGAAGATTTTTATTTCATCTTCTCTGCTCACCTTCATTATCATCGAAGAAAACCCAAAAGTG
382 GAGAGAAGATTTTTATTTCATCTACTCTAATCACATTCATTATCATCGAAGAAAACCCAAAAGTG
* * *
66025015 TTCTTCATCGTTAATGGAGGAACT
447 CTCTTCATCGTTAACGAAGGAACT
66025039 CTTAAATCCT
Statistics
Matches: 403, Mismatches: 55, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
558 4 0.01
559 139 0.34
560 38 0.09
561 1 0.00
562 77 0.19
563 133 0.33
564 10 0.02
565 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (562 bp):
AGACTTAGACTGGTTAACATTGACAAATTTCCTAGCAAAGTATTTCACTAAGCTTCACCAAGTTT
ACAAGTTCTTATTTCGCAGTTGGCGAGTTCTTTGTTTCGACGAGACGCTTATTTGGAGGACTCTC
CCACTAATAAGTCTTCCACTCATGTTTTGTGTTACTATAAATGTAATTGTGTATTAGAAATAGTG
GTTAGTGGGACACATTTAAGTAATCCAGCATCCTAGTAGAGGTAACATATCAATAACTAAGACAC
CTTGAGAGAGCCTTGTAGGATGTGATTAATTAGTGGAAGCCATATGCATGATTACTAATTAGAGA
TTTACTTGAGCGGGATTTCGACTAGAGTTAGCTATAAATAGGAAAACTTGGTAGTAGAGAGAAGA
TTTTTATTTCATCTACTCTAATCACATTCATTATCATCGAAGAAAACCCAAAAGTGCTCTTCATC
GTTAACGAAGGAACTAATAGCGAATTTTAGTTCCAGTTCTGTCACACCCTCGTTTAGTGAATCGT
TATGTATTGAAAGGTTGAATTGGTGAGTCCACCTAAGTCACT
Found at i:66030869 original size:15 final size:15
Alignment explanation
Indices: 66030845--66030874 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66030835 AGATCAGAAG
66030845 GTCATCAATGAACAC
1 GTCATCAATGAACAC
*
66030860 GTCATTAATGAACAC
1 GTCATCAATGAACAC
66030875 AACTATAAAT
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:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
GTCATCAATGAACAC
Found at i:66032063 original size:68 final size:68
Alignment explanation
Indices: 66031990--66032125 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
66031980 GATTGTGTGA
66031990 AAATTTCATTTAGAAATTTTATCGATAGAGGGTCCAATTTGATATTTAAG-ACTATATTGCAAAA
1 AAATTTCATTTAGAAATTTTATCGATAGAGGGTCCAATTTGATATTT-AGTACTATATTGCAAAA
66032054 GTTG
65 GTTG
*
66032058 AAATTTCGTTTAGAAATTTTATCGATAGAGGGTCCAATTTGATATTTAGTACTATATTGCAAAAG
1 AAATTTCATTTAGAAATTTTATCGATAGAGGGTCCAATTTGATATTTAGTACTATATTGCAAAAG
66032123 TTG
66 TTG
66032126 TAAAATGTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 2 0.03
68 64 0.97
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (68 bp):
AAATTTCATTTAGAAATTTTATCGATAGAGGGTCCAATTTGATATTTAGTACTATATTGCAAAAG
TTG
Found at i:66032999 original size:66 final size:65
Alignment explanation
Indices: 66032917--66033050 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 65
66032907 CCGGGGAAAG
*
66032917 AAAAAGATAGTGGACTAAATCGATATAGTTGATCGTATTTTGTTTCGAGGTAAGTTTGCTGTAAA
1 AAAAAGATAGTGGACTAAATCGATATAGTTGATCGTATTTTGTTTCGAGGT-AGTTTGCGGTAAA
66032982 T
65 T
*
66032983 AAAAAGATAGTGGACTAAATCGATATAGTTGATCGTATTTTGTTTCGTGGTAGTTTGCGGTAAAT
1 AAAAAGATAGTGGACTAAATCGATATAGTTGATCGTATTTTGTTTCGAGGTAGTTTGCGGTAAAT
66033048 AAA
1 AAA
66033051 TGCAATATTC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 16 0.24
66 50 0.76
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (65 bp):
AAAAAGATAGTGGACTAAATCGATATAGTTGATCGTATTTTGTTTCGAGGTAGTTTGCGGTAAAT
Found at i:66033396 original size:53 final size:53
Alignment explanation
Indices: 66033213--66033466 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
66033203 ATTAGGGTTT
* *
66033213 AAGGATACCATGTAAGACCATGCCAA-AGCATGGAAATTGGTACGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGG-CATTGGTA-AG-TTCATAAGGC
* * ** *
66033268 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
66033323 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
66033376 AAGGATACCCTATAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * *
66033425 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAA
66033467 AGTACCCACG
Statistics
Matches: 166, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 8 0.05
53 42 0.25
54 7 0.04
55 65 0.39
56 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:66033419 original size:108 final size:109
Alignment explanation
Indices: 66033220--66033420 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 109
66033210 TTTAAGGATA
* *
66033220 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTACGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAC-GTTTCTAAGGCAAGGAAACCATATAAGA
* *
66033285 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
65 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
66033330 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCCTATAAG
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGT-ACGTTTC-TAAGGCAAGGAAACCATATAAG
*
66033392 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
66033421 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 6 0.08
110 26 0.32
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAAGCATGGAAATTGGTACGTTTCTAAGGCAAGGAAACCATATAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:66055620 original size:55 final size:55
Alignment explanation
Indices: 66055555--66055664 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
66055545 GCACTTTAGG
66055555 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTTTAATTCTAT
1 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTTTAATTCTAT
* *
66055610 AGCTTGAATACATGCACTTTTGTTATGTTTTAGTTAAGTTTTTTTTTAATTCTAT
1 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTTTAATTCTAT
66055665 CTAAATTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.53
Consensus pattern (55 bp):
AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTTTAATTCTAT
Found at i:66060240 original size:54 final size:54
Alignment explanation
Indices: 66060182--66060365 Score: 237
Period size: 54 Copynumber: 3.4 Consensus size: 54
66060172 TTGGTAAGAT
* *
66060182 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATAAGTTCTGTAAGGC
1 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * *
66060236 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
66060291 AAAGG-TCTCATGTAAGACCATGCCAAGGCATTGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
*
66060344 AAGGATACCATGTAAGACCATG
1 AAGGATATCATGTAAGACCATG
66060366 TCAAAACATG
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.04
53 22 0.20
54 41 0.37
55 41 0.37
56 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:66061968 original size:40 final size:39
Alignment explanation
Indices: 66061910--66062145 Score: 303
Period size: 40 Copynumber: 5.9 Consensus size: 39
66061900 AGCCCGGATG
* * *
66061910 TAACAACCAGCACAAATGCCTTCGAGACTTAACCCAGAAT
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC-GAAA
* *
66061950 TAGCAACCAGCACGAATGCCTTCGGGACATAACCCGAAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCG-AAA
* *
66061990 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCC-GAAA
** *
66062030 TTTCGACCAGCACGAATGCCTTCAGGG-CTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTC-GGGACTTAACCC-GAAA
*
66062070 TAACAACCAGCACGAATGCCTTCGGGACATAACCCGAAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCG-AAA
*
66062110 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCG
66062146 GATATAATCC
Statistics
Matches: 171, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.03
40 162 0.95
41 4 0.02
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.17
Consensus pattern (39 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGAAA
Found at i:66062115 original size:120 final size:120
Alignment explanation
Indices: 66061915--66062150 Score: 411
Period size: 120 Copynumber: 2.0 Consensus size: 120
66061905 GGATGTAACA
* *
66061915 ACCAGCACAAATGCCTTCGAGACTTAACCCAGAATTAGCAACCAGCACGAATGCCTTCGGGACAT
1 ACCAGCACAAATGCCTTCGAGACTTAACCCAGAAATAACAACCAGCACGAATGCCTTCGGGACAT
66061980 AACCCGAAAATAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATTTCG
66 AACCCGAAAATAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATTTCG
* * *
66062035 ACCAGCACGAATGCCTTC-AGGGCTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGGGACA
1 ACCAGCACAAATGCCTTCGA-GACTTAACCCAGAAATAACAACCAGCACGAATGCCTTCGGGACA
66062099 TAACCCGAAAATAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATAT
65 TAACCCGAAAATAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATAT
66062151 AATCCTCAAT
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 1 0.01
120 109 0.99
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.17
Consensus pattern (120 bp):
ACCAGCACAAATGCCTTCGAGACTTAACCCAGAAATAACAACCAGCACGAATGCCTTCGGGACAT
AACCCGAAAATAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATTTCG
Found at i:66063082 original size:84 final size:84
Alignment explanation
Indices: 66062941--66063107 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 84
66062931 TATGCCGAAC
66062941 CTTTAGGAAATCAAGCACCTAATTTATCCATTTCAAAACACCTAATCGGCATTTGTTCAAGACAT
1 CTTTAGGAAATCAAGCACCTAATTTATCCATTTCAAAACACCTAATCGGCATTTGTTCAAGACAT
66063006 TAAGCAAAGTCTACGTTCG
66 TAAGCAAAGTCTACGTTCG
66063025 CTTTAGGAAATCAAGCACCTAATTTATCCATTTCAAAACACCTAATCGGCATTTGTTCAAGACAT
1 CTTTAGGAAATCAAGCACCTAATTTATCCATTTCAAAACACCTAATCGGCATTTGTTCAAGACAT
*
66063090 TAAGCAAAGTCTATGTTC
66 TAAGCAAAGTCTACGTTC
66063108 AGCTATTACA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (84 bp):
CTTTAGGAAATCAAGCACCTAATTTATCCATTTCAAAACACCTAATCGGCATTTGTTCAAGACAT
TAAGCAAAGTCTACGTTCG
Found at i:66077326 original size:40 final size:40
Alignment explanation
Indices: 66077282--66077506 Score: 333
Period size: 40 Copynumber: 5.6 Consensus size: 40
66077272 AACCCAATTA
* * ** **
66077282 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
* *
66077322 CCTTCGGGACTTAACCCGAAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
66077362 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
* *
66077402 CCTTCGGGACTTAATCCGGGAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
66077442 CCTTCGGGACTTAACCCAGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
*
66077482 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
66077507 TCCGCAATTG
Statistics
Matches: 166, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 166 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
Found at i:66086686 original size:18 final size:18
Alignment explanation
Indices: 66086653--66086695 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
66086643 TTACACATGC
*
66086653 AGGCCCATTGGCCCATCG
1 AGGCCCATTAGCCCATCG
66086671 -GGCCCATTCAGCCCATCG
1 AGGCCCATT-AGCCCATCG
66086689 AGGCCCA
1 AGGCCCA
66086696 AGTCCACGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.14
Consensus pattern (18 bp):
AGGCCCATTAGCCCATCG
Found at i:66103200 original size:68 final size:68
Alignment explanation
Indices: 66103116--66103258 Score: 189
Period size: 68 Copynumber: 2.1 Consensus size: 68
66103106 CTTAAAATTA
* * * * *
66103116 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTAA
66103180 ATGT
65 ATGT
* * * *
66103184 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
66103249 TGT
66 TGT
66103252 AGCTGTC
1 AGCTGTC
66103259 TGGATCTGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
68 64 0.98
69 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
TGT
Found at i:66106035 original size:43 final size:43
Alignment explanation
Indices: 66105987--66106105 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
66105977 GCATGAAACT
*
66105987 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
66106030 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
66106073 CAGTGATGTGTATTCGGGTCATCGTGCCTAGCA
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
66106106 TAATGCCGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:66106336 original size:29 final size:29
Alignment explanation
Indices: 66106304--66106458 Score: 104
Period size: 29 Copynumber: 5.4 Consensus size: 29
66106294 CTTTAACCGA
*
66106304 GCACTATGTATGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
* ** **
66106333 GCACTGTGTGTGCGA-ATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAATTGAG
*
66106362 GCACTATTTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
* * * * **
66106391 GCACTGTGTGTGCAAGTTC-TTCAACCGA-
1 GCACTATGTGTGCGAGATCGGT-AATTGAG
* *
66106419 GCACTATGTGTGCGAGATCGGTCAGTG-G
1 GCACTATGTGTGCGAGATCGGTAATTGAG
*
66106447 GCACTAAGTGTG
1 GCACTATGTGTG
66106459 TGAAATGAGA
Statistics
Matches: 92, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
28 37 0.40
29 48 0.52
30 7 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAATTGAG
Found at i:66106345 original size:58 final size:58
Alignment explanation
Indices: 66106272--66106440 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
66106262 CGAATGATTA
*
66106272 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTATGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
66106330 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATTTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
66106388 GAGGCACTGTGTGTGCAAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
66106441 CAGTGGGCAC
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 30 0.29
58 74 0.71
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:66112403 original size:35 final size:35
Alignment explanation
Indices: 66112364--66112457 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
66112354 ATAACAAAAA
* *
66112364 AGGTTCGCATAACATCATGGGTTCCCATATAGCAT
1 AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
* * *
66112399 AGGTTCACATAACAACATAAGTTCGCATATAGCAT
1 AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
*
66112434 AGGTTTGCATAACAACATGAGTTC
1 AGGTTCGCATAACAACATGAGTTC
66112458 ACACAATCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (35 bp):
AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
Found at i:66112409 original size:17 final size:17
Alignment explanation
Indices: 66112383--66112438 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
66112373 TAACATCATG
*
66112383 GGTTCCCATATAGCATA
1 GGTTCACATATAGCATA
* *
66112400 GGTTCACATAACAACATA
1 GGTTCACAT-ATAGCATA
* *
66112418 AGTTCGCATATAGCATA
1 GGTTCACATATAGCATA
66112435 GGTT
1 GGTT
66112439 TGCATAACAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (17 bp):
GGTTCACATATAGCATA
Found at i:66112422 original size:18 final size:18
Alignment explanation
Indices: 66112396--66112460 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 18
66112386 TCCCATATAG
*
66112396 CATAGGTTCACATAACAA
1 CATAAGTTCACATAACAA
* * *
66112414 CATAAGTTCGCAT-ATAG
1 CATAAGTTCACATAACAA
* **
66112431 CATAGGTTTGCATAACAA
1 CATAAGTTCACATAACAA
*
66112449 CATGAGTTCACA
1 CATAAGTTCACA
66112461 CAATCATTGT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (18 bp):
CATAAGTTCACATAACAA
Found at i:66112443 original size:17 final size:17
Alignment explanation
Indices: 66112326--66112444 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 17
66112316 TTTAAGCATG
66112326 GCATA-GTTCGCATATA
1 GCATAGGTTCGCATATA
* *
66112342 GCATATGTTCGCATAACA
1 GCATAGGTTCGCAT-ATA
** * *
66112360 AAAAAGGTTCGCATAACA
1 GCATAGGTTCGCAT-ATA
* * *
66112378 TCATGGGTTCCCATATA
1 GCATAGGTTCGCATATA
* *
66112395 GCATAGGTTCACATAACA
1 GCATAGGTTCGCAT-ATA
* *
66112413 ACATAAGTTCGCATATA
1 GCATAGGTTCGCATATA
*
66112430 GCATAGGTTTGCATA
1 GCATAGGTTCGCATA
66112445 ACAACATGAG
Statistics
Matches: 78, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
16 5 0.06
17 35 0.45
18 38 0.49
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (17 bp):
GCATAGGTTCGCATATA
Found at i:66114935 original size:18 final size:18
Alignment explanation
Indices: 66114912--66114950 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
66114902 TTTAGTTAAA
66114912 TGGGCTCACACG-CCCATG
1 TGGGCTCACACGTCCC-TG
*
66114930 TGGGCTTACACGTCCCTG
1 TGGGCTCACACGTCCCTG
66114948 TGG
1 TGG
66114951 TCCATACGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (18 bp):
TGGGCTCACACGTCCCTG
Found at i:66118594 original size:37 final size:37
Alignment explanation
Indices: 66118544--66118622 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
66118534 TTATTACGAA
* * *
66118544 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
66118581 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
66118618 GTCTT
1 GTCTT
66118623 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:66118955 original size:177 final size:177
Alignment explanation
Indices: 66118659--66119011 Score: 688
Period size: 177 Copynumber: 2.0 Consensus size: 177
66118649 AAGCTTACTG
66118659 ACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGAC
1 ACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGAC
66118724 ACAAATGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
66 ACAAATGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
*
66118789 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCT
131 CTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCT
66118836 ACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGAC
1 ACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGAC
66118901 ACAAATGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
66 ACAAATGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
*
66118966 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66119012 CTTATCACAT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (177 bp):
ACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGATATAGTACTGAC
ACAAATGCCCTTCGGGACTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
CTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCT
Found at i:66118987 original size:47 final size:47
Alignment explanation
Indices: 66118918--66119026 Score: 164
Period size: 47 Copynumber: 2.3 Consensus size: 47
66118908 CCCTTCGGGA
* * * *
66118918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGC
* *
66118965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGC
66119012 CTTATCACATATATA
1 CTTATCACATATATA
66119027 TACACTCACA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGC
Found at i:66121782 original size:39 final size:39
Alignment explanation
Indices: 66121728--66121807 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
66121718 CCAAAAACTC
66121728 TTTCCCAAGTACAGGGTGTATCAGAAAAGTCTTGAGCTT
1 TTTCCCAAGTACAGGGTGTATCAGAAAAGTCTTGAGCTT
*
66121767 TTTCCCAAGTTCAGGGTGTATCAGAAAAGTCTTGAGCTT
1 TTTCCCAAGTACAGGGTGTATCAGAAAAGTCTTGAGCTT
66121806 TT
1 TT
66121808 CGAAGCTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (39 bp):
TTTCCCAAGTACAGGGTGTATCAGAAAAGTCTTGAGCTT
Found at i:66140364 original size:40 final size:40
Alignment explanation
Indices: 66140320--66140551 Score: 351
Period size: 40 Copynumber: 5.8 Consensus size: 40
66140310 ATAACCACAA
66140320 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
66140360 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
66140400 GCACAATTGCCTTCGGGTCTTATCCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66140440 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
66140480 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
66140520 GCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66140552 CATTCAAATG
Statistics
Matches: 174, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 4 0.02
40 162 0.93
41 8 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:66140517 original size:120 final size:120
Alignment explanation
Indices: 66140320--66140551 Score: 446
Period size: 120 Copynumber: 1.9 Consensus size: 120
66140310 ATAACCACAA
66140320 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
66140385 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGATATAGCAACTC
66 CGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATATAGCAACTC
66140440 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
66140505 CGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
66 CGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
66140552 CATTCAAATG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATATAGCAACTC
Found at i:66144471 original size:17 final size:17
Alignment explanation
Indices: 66144449--66144484 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
66144439 CTTATTTCGT
*
66144449 ACCAAAATACAGTTCAC
1 ACCAAAATACAGCTCAC
66144466 ACCAAAATACAGCTCAC
1 ACCAAAATACAGCTCAC
66144483 AC
1 AC
66144485 GGAAACAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.33, G:0.06, T:0.14
Consensus pattern (17 bp):
ACCAAAATACAGCTCAC
Found at i:66144981 original size:16 final size:17
Alignment explanation
Indices: 66144960--66145117 Score: 65
Period size: 18 Copynumber: 9.1 Consensus size: 17
66144950 CAATTTGTAC
66144960 ATAGCATA-GTTCGCAT
1 ATAGCATATGTTCGCAT
66144976 ATAGCATATGTTCGCAT
1 ATAGCATATGTTCGCAT
* * *
66144993 AACAACATAAGTTCGCAT
1 -ATAGCATATGTTCGCAT
66145011 A-A-CATCATGGTTTCGCAT
1 ATAGCAT-AT-G-TTCGCAT
* * *
66145029 GTAGCATAGGTTCACAT
1 ATAGCATATGTTCGCAT
* * * *
66145046 AACAACATAGGTTGGCAT
1 -ATAGCATATGTTCGCAT
* *
66145064 A-AGAATATAAGTTCCCAT
1 ATAGCATAT--GTTCGCAT
* *
66145082 ATAACATAGGTTCGCAT
1 ATAGCATATGTTCGCAT
*
66145099 A-AGAACATAGGTTCGCAT
1 ATAG--CATATGTTCGCAT
66145117 A
1 A
66145118 ACATCATGAG
Statistics
Matches: 107, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
15 3 0.03
16 15 0.14
17 25 0.23
18 55 0.51
19 6 0.06
20 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (17 bp):
ATAGCATATGTTCGCAT
Found at i:66145006 original size:18 final size:18
Alignment explanation
Indices: 66144980--66145154 Score: 133
Period size: 18 Copynumber: 9.8 Consensus size: 18
66144970 TCGCATATAG
*
66144980 CATATGTTCGCATAACAA
1 CATAGGTTCGCATAACAA
* *
66144998 CATAAGTTCGCATAACAT
1 CATAGGTTCGCATAACAA
** *
66145016 CAT-GGTTTCGCAT-GTAG
1 CATAGG-TTCGCATAACAA
*
66145033 CATAGGTTCACATAACAA
1 CATAGGTTCGCATAACAA
* *
66145051 CATAGGTTGGCATAAGAA
1 CATAGGTTCGCATAACAA
* * * *
66145069 TATAAGTTCCCAT-ATAA
1 CATAGGTTCGCATAACAA
*
66145086 CATAGGTTCGCATAAGAA
1 CATAGGTTCGCATAACAA
*
66145104 CATAGGTTCGCATAACAT
1 CATAGGTTCGCATAACAA
* *
66145122 CAT-GAGTTCTCAAAACAA
1 CATAG-GTTCGCATAACAA
* *
66145140 CATGGGTTCACATAA
1 CATAGGTTCGCATAA
66145155 TGACATGAGT
Statistics
Matches: 122, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
17 25 0.20
18 96 0.79
19 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (18 bp):
CATAGGTTCGCATAACAA
Found at i:66145006 original size:35 final size:35
Alignment explanation
Indices: 66144967--66145117 Score: 130
Period size: 35 Copynumber: 4.3 Consensus size: 35
66144957 TACATAGCAT
* * *
66144967 AGTTCGCATATAGCATATGTTCGCATAACAACATA
1 AGTTCGCATATAACATAGGTTCGCATAAGAACATA
*
66145002 AGTTCGC--ATAACATCATGGTTTCGCAT--GTAGCATA
1 AGTTCGCATATAACAT-A-GG-TTCGCATAAG-AACATA
* * * * *
66145037 GGTTCACATAACAACATAGGTTGGCATAAGAATATA
1 AGTTCGCAT-ATAACATAGGTTCGCATAAGAACATA
*
66145073 AGTTCCCATATAACATAGGTTCGCATAAGAACATA
1 AGTTCGCATATAACATAGGTTCGCATAAGAACATA
*
66145108 GGTTCGCATA
1 AGTTCGCATA
66145118 ACATCATGAG
Statistics
Matches: 90, Mismatches: 17, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
33 6 0.07
34 1 0.01
35 55 0.61
36 20 0.22
37 2 0.02
38 6 0.07
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (35 bp):
AGTTCGCATATAACATAGGTTCGCATAAGAACATA
Found at i:66145049 original size:53 final size:52
Alignment explanation
Indices: 66144968--66145130 Score: 193
Period size: 53 Copynumber: 3.1 Consensus size: 52
66144958 ACATAGCATA
* *
66144968 GTTCGCATATAGCATATGTTCGCATAACAACATAAGTTCGCATAACATCATG
1 GTTCGCATATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATG
* * * * *
66145020 GTTTCGCATGTAGCATAGGTTCACATAACAACATAGGTTGGCATAAGAAT-ATAA
1 G-TTCGCATATAGCATAGGTTCGCATAACAACATAGGTTCGCATAA-CATCAT-G
* * *
66145074 GTTCCCATATAACATAGGTTCGCATAAGAACATAGGTTCGCATAACATCATG
1 GTTCGCATATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATG
66145126 AGTTC
1 -GTTC
66145131 TCAAAACAAC
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
52 3 0.03
53 85 0.93
54 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
GTTCGCATATAGCATAGGTTCGCATAACAACATAGGTTCGCATAACATCATG
Found at i:66147467 original size:46 final size:46
Alignment explanation
Indices: 66147366--66147454 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
66147356 TGTAACCCGC
* * *
66147366 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTCACAT
* * *
66147412 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTCA
66147455 ACCATCCTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGCTCACAT
Found at i:66152496 original size:44 final size:44
Alignment explanation
Indices: 66152433--66152521 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
66152423 AATCTCGAGT
66152433 TCCCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACA
1 TCCCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACA
66152477 TCCCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACA
1 TCCCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACA
66152521 T
1 T
66152522 TTTGCTTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (44 bp):
TCCCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACA
Found at i:66157453 original size:3 final size:3
Alignment explanation
Indices: 66157447--66157488 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
66157437 ACACTACTAT
* * *
66157447 ATA ATA ATA ATA ATA GTG ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66157489 TAGAAATACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:66157602 original size:3 final size:3
Alignment explanation
Indices: 66157588--66157715 Score: 54
Period size: 3 Copynumber: 43.0 Consensus size: 3
66157578 AAATATACAC
* * *
66157588 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA TAT TAA -AA GCTAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA
* ** *
66157635 TAA TAC TATA TAA T-A TAA T-A TATA TATA TAA GCA TCA -AA TAA -AA
1 TAA TAA TA-A TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA
* * * *
66157679 TAA TAA TAA T-A GAA CAC TAA TAA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
66157716 CAGTAATAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 24
0.69 0.14 0.18
Matches are distributed among these distances:
2 12 0.13
3 69 0.73
4 12 0.13
5 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:66157656 original size:12 final size:13
Alignment explanation
Indices: 66157588--66157715 Score: 64
Period size: 12 Copynumber: 10.2 Consensus size: 13
66157578 AAATATACAC
66157588 TAATATATAATAA
1 TAATATATAATAA
66157601 TAATAGTAATAATAA
1 TAATA-T-ATAATAA
66157616 TAATAT-TAA-AA
1 TAATATATAATAA
**
66157627 -GCTAT-TAATAA
1 TAATATATAATAA
*
66157638 TACTATATAAT-A
1 TAATATATAATAA
66157650 TAATATAT-ATATA
1 TAATATATAATA-A
*
66157663 TAAGCATCA-AATAA
1 TAA-TAT-ATAATAA
66157677 -AATA-ATAATAA
1 TAATATATAATAA
*
66157688 TAGA-ACACTAATAA
1 TA-ATATA-TAATAA
66157702 -AA-ATATAATAA
1 TAATATATAATAA
66157713 TAA
1 TAA
66157716 CAGTAATAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 33
0.70 0.05 0.25
Matches are distributed among these distances:
10 7 0.08
11 17 0.18
12 23 0.25
13 18 0.20
14 11 0.12
15 16 0.17
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:66157717 original size:23 final size:25
Alignment explanation
Indices: 66157675--66157725 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
66157665 AGCATCAAAT
66157675 AAAATAATAATAATAGAACACTAATA
1 AAAATAATAATAATA-AACACTAATA
*
66157701 AAAAT-ATAATAAT-AACAGTAATA
1 AAAATAATAATAATAAACACTAATA
66157724 AA
1 AA
66157726 TGTAATAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATAATAATAAACACTAATA
Found at i:66158198 original size:16 final size:17
Alignment explanation
Indices: 66158179--66158216 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
66158169 AAAAATTTTA
*
66158179 TTTTCCTTTTTTTAT-T
1 TTTTACTTTTTTTATGT
*
66158195 TTTTATTTTTTTTATGT
1 TTTTACTTTTTTTATGT
66158212 TTTTA
1 TTTTA
66158217 ATATATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTACTTTTTTTATGT
Done.