Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 25
Found at i:492714 original size:28 final size:28
Alignment explanation
Indices: 492682--492749 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
492672 CACCATCGGA
* *
492682 GATACTCCAACCCCGTTATTTTCGAGGG
1 GATACTCTAACCCCATTATTTTCGAGGG
* *
492710 GATACTTTAACCCTATTATTTTCGAGGG
1 GATACTCTAACCCCATTATTTTCGAGGG
492738 GATACTCTAACC
1 GATACTCTAACC
492750 TCAGTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
GATACTCTAACCCCATTATTTTCGAGGG
Found at i:492792 original size:79 final size:79
Alignment explanation
Indices: 492707--493036 Score: 362
Period size: 79 Copynumber: 4.2 Consensus size: 79
492697 TTATTTTCGA
* * *
492707 GGGGATACTTTAACCCTATTATTTTCGAGGGGATACTCTAACCTCAGTTTTATTTCTAAAACACT
1 GGGGATACTTCAACCCTATTATTTTCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
492772 GATTTTTCACCATC
66 GATTTTTCACCATC
* * * *** *
492786 GGGGATACTTCAAGCGTGTTATTTTCAAAAAGATACTCCAACC-CCGATTTTATTTCTAAAACA-
1 GGGGATACTTCAACCCTATTATTTTCAAGGGGATACTCCAACCTCAG-TTTTATTTCTAAAACAC
*
492849 TCGATTTTTTACCATC
65 T-GATTTTTCACCATC
* * * * * * *
492865 GAGGATACTTCAATCCTATTATTTCCGAGGGGATACTCCAAGCTTAGTTTT-TTT-TAAAAGACT
1 GGGGATACTTCAACCCTATTATTTTCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
*
492928 GATTTTCCACCATC
66 GATTTTTCACCATC
* * * * * *
492942 GGGGATACTCCAACCCTATTGTTTTCAAGGGGATACTCCAACCTCAATTTTATTTCCAAAATACA
1 GGGGATACTTCAACCCTATTATTTTCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
* *
493007 GACTTTTCACTATC
66 GATTTTTCACCATC
*
493021 GGGGATACTCCAACCC
1 GGGGATACTTCAACCC
493037 CATTTTTATT
Statistics
Matches: 204, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
77 60 0.29
78 10 0.05
79 133 0.65
80 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTTCAACCCTATTATTTTCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
GATTTTTCACCATC
Found at i:492811 original size:107 final size:107
Alignment explanation
Indices: 492599--492794 Score: 295
Period size: 107 Copynumber: 1.8 Consensus size: 107
492589 TTTCCACCAT
* *
492599 AGGGGATACTCCAACCCTGTTATTTCCGAGGAGGCACTCTAACCTCGGTTTTATTTCTAAAACAC
1 AGGGGATACTCCAACCCTATTATTTCCGAGGAGGCACTCTAACCTCAGTTTTATTTCTAAAACAC
492664 CAATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCG
66 CAATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCG
** * *
492706 AGGGGATACTTTAACCCTATTATTTTCGAGG-GGATACTCTAACCTCAGTTTTATTTCTAAAACA
1 AGGGGATACTCCAACCCTATTATTTCCGAGGAGG-CACTCTAACCTCAGTTTTATTTCTAAAACA
** *
492770 CTGATTTTTCACCATCGGGGATACT
65 CCAATTTTTCACCATCGGAGATACT
492795 TCAAGCGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 2 0.03
107 77 0.97
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (107 bp):
AGGGGATACTCCAACCCTATTATTTCCGAGGAGGCACTCTAACCTCAGTTTTATTTCTAAAACAC
CAATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCG
Found at i:492829 original size:107 final size:107
Alignment explanation
Indices: 492603--492829 Score: 285
Period size: 107 Copynumber: 2.1 Consensus size: 107
492593 CACCATAGGG
* *
492603 GATACTCCAACCCTGTTATTTCCGAGGAGGCACTCTAACCTCGGTTTTATTTCTAAAACACCAAT
1 GATACTCCAACCCTATTATTTCCGAGGAGGCACTCTAACCTCAGTTTTATTTCTAAAACACCAAT
* ***
492668 TTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCGAGGG
66 TTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCAAAAA
** * * **
492710 GATACTTTAACCCTATTATTTTCGAGG-GGATACTCTAACCTCAGTTTTATTTCTAAAACACTGA
1 GATACTCCAACCCTATTATTTCCGAGGAGG-CACTCTAACCTCAGTTTTATTTCTAAAACACCAA
* * * **
492774 TTTTTCACCATCGGGGATACTTCAAGCGTGTTATTTTCAAAAA
65 TTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCAAAAA
492817 GATACTCCAACCC
1 GATACTCCAACCC
492830 CGATTTTATT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
106 2 0.02
107 98 0.98
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (107 bp):
GATACTCCAACCCTATTATTTCCGAGGAGGCACTCTAACCTCAGTTTTATTTCTAAAACACCAAT
TTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCAAAAA
Found at i:493026 original size:51 final size:51
Alignment explanation
Indices: 492970--493089 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
492960 TTGTTTTCAA
* * *
492970 GGGGATACTCCAACCTCAATTTTATTTCCAAAATA-CAGACTTTTCACTATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAATATCA-AATTTTCACCATC
*
493021 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAAATTTTCACCATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAATATCAAATTTTCACCATC
* *
493072 AGAGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
493090 TTGTTTTCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
51 60 0.97
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAATATCAAATTTTCACCATC
Found at i:493027 original size:156 final size:158
Alignment explanation
Indices: 492707--493036 Score: 405
Period size: 156 Copynumber: 2.1 Consensus size: 158
492697 TTATTTTCGA
* * *
492707 GGGGATACTTTAACCCTATTATTTTCGAGGGGATACTCTAACCTCAGTTTTATTTCTAAAACACT
1 GGGGATACTTCAACCCTATTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
* * * * * *
492772 GATTTTTCACCATCGGGGATACTTCAAGCGTGTTATTTTCAAAAAGATACTCCAACCCCGATTTT
66 GATTTTCCACCATCGGGGATACTCCAACCCTATTATTTTCAAAAAGATACTCCAACCCCAATTTT
* * *
492837 ATTTCTAAAACATCGATTTTTTACCATC
131 ATTTCCAAAACATCGACTTTTCACCATC
* * * * *
492865 GAGGATACTTCAATCCTATTATTTCCGAGGGGATACTCCAAGCTTAGTTTT-TTT-TAAAAGACT
1 GGGGATACTTCAACCCTATTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
* *** *
492928 GATTTTCCACCATCGGGGATACTCCAACCCTATTGTTTTCAAGGGGATACTCCAACCTCAATTTT
66 GATTTTCCACCATCGGGGATACTCCAACCCTATTATTTTCAAAAAGATACTCCAACCCCAATTTT
* *
492993 ATTTCCAAAATA-CAGACTTTTCACTATC
131 ATTTCCAAAACATC-GACTTTTCACCATC
*
493021 GGGGATACTCCAACCC
1 GGGGATACTTCAACCC
493037 CATTTTTATT
Statistics
Matches: 144, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
155 1 0.01
156 96 0.67
157 3 0.02
158 44 0.31
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (158 bp):
GGGGATACTTCAACCCTATTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACACT
GATTTTCCACCATCGGGGATACTCCAACCCTATTATTTTCAAAAAGATACTCCAACCCCAATTTT
ATTTCCAAAACATCGACTTTTCACCATC
Found at i:494125 original size:29 final size:29
Alignment explanation
Indices: 494092--494193 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
494082 CGTAGGCACT
494092 AAATGGGTCTATAGAAACAAACTTGATGA
1 AAATGGGTCTATAGAAACAAACTTGATGA
* * * *
494121 AAATGGAATAATAATTAGAAATAAGGA-TTGTAGGCA
1 AAATGG-GT-CT-A-TAGAAACAA--ACTTG-ATG-A
494157 CTAAATGGGTCTATAGAAACAAACTTGATGA
1 --AAATGGGTCTATAGAAACAAACTTGATGA
494188 AAATGG
1 AAATGG
494194 AACAATAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 22
0.64 0.10 0.26
Matches are distributed among these distances:
29 12 0.22
30 1 0.02
31 2 0.04
32 4 0.07
33 11 0.20
34 11 0.20
35 4 0.07
36 2 0.04
37 1 0.02
38 6 0.11
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.25
Consensus pattern (29 bp):
AAATGGGTCTATAGAAACAAACTTGATGA
Found at i:494141 original size:33 final size:33
Alignment explanation
Indices: 494103--494208 Score: 78
Period size: 33 Copynumber: 3.2 Consensus size: 33
494093 AATGGGTCTA
494103 TAGAAACAAACTTGATGAAAATGGAATAATAAT
1 TAGAAACAAACTTGATGAAAATGGAATAATAAT
* * * *
494136 TAGAAATAAGGA-TTGTAGGCACTAAATGG-GT-CT-A-
1 TAGAAACAA--ACTTG-ATG-A--AAATGGAATAATAAT
*
494170 TAGAAACAAACTTGATGAAAATGGAACAATAAT
1 TAGAAACAAACTTGATGAAAATGGAATAATAAT
494203 TAGAAA
1 TAGAAA
494209 TAAGGCTAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 22
0.63 0.11 0.26
Matches are distributed among these distances:
29 6 0.11
31 2 0.04
32 4 0.08
33 17 0.32
34 11 0.21
35 4 0.08
36 2 0.04
37 1 0.02
38 6 0.11
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.24
Consensus pattern (33 bp):
TAGAAACAAACTTGATGAAAATGGAATAATAAT
Found at i:494191 original size:67 final size:67
Alignment explanation
Indices: 494083--494213 Score: 253
Period size: 67 Copynumber: 2.0 Consensus size: 67
494073 ATGTTGCAAC
*
494083 GTAGGCACTAAATGGGTCTATAGAAACAAACTTGATGAAAATGGAATAATAATTAGAAATAAGGA
1 GTAGGCACTAAATGGGTCTATAGAAACAAACTTGATGAAAATGGAACAATAATTAGAAATAAGGA
494148 TT
66 TT
494150 GTAGGCACTAAATGGGTCTATAGAAACAAACTTGATGAAAATGGAACAATAATTAGAAATAAGG
1 GTAGGCACTAAATGGGTCTATAGAAACAAACTTGATGAAAATGGAACAATAATTAGAAATAAGG
494214 CTAGGTTAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (67 bp):
GTAGGCACTAAATGGGTCTATAGAAACAAACTTGATGAAAATGGAACAATAATTAGAAATAAGGA
TT
Found at i:497439 original size:21 final size:21
Alignment explanation
Indices: 497374--497445 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
497364 CTCTCATTTC
*
497374 TATCGATACA-CATG-AAAATG
1 TATCGATACATCATGTGAAA-G
* *
497394 TATTGATACAT-AT-TGCAATG
1 TATCGATACATCATGTG-AAAG
497414 TATCGATACATCATGTGAAAG
1 TATCGATACATCATGTGAAAG
497435 TATCGATACAT
1 TATCGATACAT
497446 TTCATTGGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 22 0.52
21 18 0.43
22 2 0.05
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (21 bp):
TATCGATACATCATGTGAAAG
Found at i:505393 original size:32 final size:31
Alignment explanation
Indices: 505294--506077 Score: 334
Period size: 28 Copynumber: 26.2 Consensus size: 31
505284 AAAGTGGTAA
* * *
505294 TTTGAAAAGGGTTGACATCGACTTGCGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* * * * * *
505326 TTTTAAAAAAAGGTGCCACTAACTTATATGGGC
1 -TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
*
505359 TTTGAAAAGAGTTTCCATCGACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* *
505391 TTT-AAAAG-GGTGCCACTGAC-T-TGTAGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
505419 TTTGAAAAAAGAGTTGCCACCGACTTGTGTGGGC
1 TTTG--AAAAGAGTTGCCA-CGACTTGTGTGGGC
*
505453 TTTG-AAAG-GATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* * * *
505481 TTTGAAAAG-GATGCCACTAATT-TGTAGGC
1 TTTGAAAAGAGTTGCCACGACTTGTGTGGGC
* *
505510 TTTTG-AAAG-GATGCCACTAAC-T-TGTGGGC
1 -TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* *
505539 TTTGAAAAGA--AGCCACTA-TCT-TGTGGGC
1 TTTGAAAAGAGTTGCCACGACT-TGTGTGGGC
*
505567 TTTGAAAAG-G-TACCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* *
505595 TTTG-AAAGGGTATGCCACTGAC-T-TGTGGGT
1 TTTGAAAAGAGT-TGCCAC-GACTTGTGTGGGC
* * * * *
505625 TTTG-AAAG-GGTACCACTAATT-TGTAGGC
1 TTTGAAAAGAGTTGCCACGACTTGTGTGGGC
*
505653 TTT-AAAAG-GGTGCCACGGACTT-T-TGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* *
505681 TTTG-AAAG-GATGCCACTGAC-T-TGTGAGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
*
505709 TTTGAAATAG-GTTGCTACCGACTTGTGTGGGC
1 TTTGAAA-AGAGTTGCCA-CGACTTGTGTGGGC
* * * *
505741 TTTGAAATGGGTTGTCACCAACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* * * * *
505773 TTTCAAATGAATTACCACCGACTTGTGTGCGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* *
505805 TTTGAAATGAGTTACCACCGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* *
505835 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* * * *
505867 TTTGAAATGGGTTGCCACCAACTTGTGTGGGA
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* * *
505899 TTTCAAATGAGTTGCCACCGACTTGTGTAGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
*
505931 TTTG-AATGAGTTGCCATCGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
* *
505960 TTTGAAATGA--TGCCACAAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* *
505988 TTTGAAATG-G-TGCCACTGAC-T-TATGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
* * *
506016 TTTGAAATGA--TGCCATGGAC-T-TATGGGC
1 TTTGAAAAGAGTTGCCA-CGACTTGTGTGGGC
*
506044 TTTG-AAAGA-ATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCAC-GACTTGTGTGGGC
506072 TTTGAA
1 TTTGAA
506078 CTAATGCCAC
Statistics
Matches: 620, Mismatches: 85, Indels: 96
0.77 0.11 0.12
Matches are distributed among these distances:
27 13 0.02
28 205 0.33
29 65 0.10
30 88 0.14
31 35 0.06
32 180 0.29
33 24 0.04
34 10 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAAAAGAGTTGCCACGACTTGTGTGGGC
Found at i:505443 original size:62 final size:60
Alignment explanation
Indices: 505294--506150 Score: 508
Period size: 56 Copynumber: 14.4 Consensus size: 60
505284 AAAGTGGTAA
* * * * * * *
505294 TTTGAAAAGGGTTGACATCGACTTGCGTGGGCTTTTAAAAAAAGGTGCCACTAACTTATATGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC-TTT--AAAAGGGTGCCACTGAC-T-TGTGGGC
* * *
505359 TTTGAAAAGAGTTTCCATCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTAGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* *
505419 TTTGAAAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTG--AAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* * * * * * *
505481 TTTGAAAAG-GATGCCA-CTAATT-TGTAGGCTTTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC-TTTAAAAGGGTGCCACTGACTTGTGGGC
* * *
505539 TTTGAAAAGA--AGCCA-CTA-TCT-TGTGGGCTTTGAAAA-GGTACCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACT-TGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGC
* * * * * * * *
505595 TTTG-AAAGGGTATGCCACTGAC-T-TGTGGGTTTTGAAAGGGTACCACTAATTTGTAGGC
1 TTTGAAAAGAGT-TGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* * * * *
505653 TTT-AAAAG-GGTGCCACGGACTT-T-TGGGCTTTGAAAGGATGCCACTGACTTGTGAGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* * * **
505709 TTTGAAATAG-GTTGCTACCGACTTGTGTGGGCTTTGAAATGGGTTGTCACCAACTTGTGTGGGC
1 TTTGAAA-AGAGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGG-TGCCACTGAC-T-TGTGGGC
* * * * * * * * *
505773 TTTCAAATGAATTACCACCGACTTGTGTGCGCTTTGAAATGAGTTACCACCGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTT-AAAAG-GGTGCCACTGACTTGTGGGC
* * * ** *
505835 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGA
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGG-TGCCACTGAC-T-TGTGGGC
* * * * * *
505899 TTTCAAATGAGTTGCCACCGACTTGTGTAGGCTTTGAATGAGTTGCCA-TCGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAG-GGTGCCACT-GACTTGTGGGC
* ** * * *
505960 TTTGAAATGA--TGCCACAAAC-T-TGTGGGCTTTGAAATGGTGCCACTGACTTATGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* ** * * **
506016 TTTGAAATGA--TGCCATGGAC-T-TATGGGCTTTGAAAGAATGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
* * * *
506072 TTTGAACTA-A--TGCCACGGAC-T-TGTGGACTTT-AAAGGGTGCCA-TGGACTTGTGGAC
1 TTTGAA-AAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACT-GACTTGTGGGC
* *
506127 -TTGAAAAG-G-TGCCACGGAGTTGTG
1 TTTGAAAAGAGTTGCCACCGACTTGTG
506151 GACTTAAATA
Statistics
Matches: 651, Mismatches: 105, Indels: 81
0.78 0.13 0.10
Matches are distributed among these distances:
53 1 0.00
54 15 0.02
55 24 0.04
56 154 0.24
57 45 0.07
58 92 0.14
59 16 0.02
60 22 0.03
61 21 0.03
62 129 0.20
63 15 0.02
64 88 0.14
65 29 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (60 bp):
TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
Found at i:505486 original size:28 final size:28
Alignment explanation
Indices: 505384--506151 Score: 501
Period size: 28 Copynumber: 26.2 Consensus size: 28
505374 CATCGACTTG
* *
505384 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
505412 TGTAGGCTTTGAAAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG---AAAG-GATGCCACTGAC-T
505445 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* *
505474 TGTGGGCTTTGAAAAGGATGCCACTAATT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
505503 TGTAGGCTTTTGAAAGGATGCCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
505532 TGTGGGCTTTGAAAAGAAGCCACT-ATCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
505560 TGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
505588 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * * * *
505618 TGTGGGTTTTGAAAGGGTACCACTAATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
505646 TGTAGGCTTTAAAAGGGTGCCACGGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
505674 TTTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
505702 TGTGAGCTTTGAAATAGGTTGCTACCGACTT
1 TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* * **
505733 GTGTGGGCTTTGAAATGGGTTGTCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * * *
505765 GTGTGGGCTTTCAAATGAATTACCACCGACT
1 -TGTGGGCTTTGAAA-GGA-TGCCACTGACT
* * *
505796 TGTGTGCGCTTTGAAATGAGTTACCACCGACT
1 TGTG-G-GCTTTGAAA-G-GATGCCACTGACT
* *
505828 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* **
505859 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * * *
505891 GTGTGGGATTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACT
* *
505922 TGTGTAGGCTTTGAATGAGTTGCCA-TCGACT
1 TGTG--GGCTTTGAAAG-GATGCCACT-GACT
* **
505953 TGTGGGCTTTGAAATGATGCCACAAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
505981 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
506009 TATGGGCTTTGAAATGATGCCA-TGGACT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* *
506037 TATGGGCTTTGAAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*** *
506065 TGTGGGCTTTGAACTAATGCCACGGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
506093 TGTGGACTTT-AAAGGGTGCCA-TGGACT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * *
506120 TGTGGAC-TTGAAAAGG-TGCCACGGAGT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
506147 TGTGG
1 TGTGG
506152 ACTTAAATAG
Statistics
Matches: 611, Mismatches: 89, Indels: 81
0.78 0.11 0.10
Matches are distributed among these distances:
26 2 0.00
27 37 0.06
28 245 0.40
29 64 0.10
30 77 0.13
31 36 0.06
32 139 0.23
33 1 0.00
34 10 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:505562 original size:86 final size:85
Alignment explanation
Indices: 505384--505715 Score: 341
Period size: 86 Copynumber: 3.8 Consensus size: 85
505374 CATCGACTTG
* * *
505384 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAAAGAGTTGCCACCGACTTGTGT
1 TGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGCTTTG---AAAG-GATGCCACTGAC-T-TGT
* *
505449 GGGCTTTGAAAGGATGCCACTGA-CT
60 GGGCTTTGAAAGGAAGCCACTAATCT
* * *
505474 TGTGGGCTTTGAAAAGGATGCCACTAATTTGTAGGCTTTTGAAAGGATGCCACTAACTTGTGGGC
1 TGTGGGCTTT-AAAAGGGTGCCACTAACTTGTAGGC-TTTGAAAGGATGCCACTGACTTGTGGGC
*
505539 TTTGAAAAGAAGCCACT-ATCT
64 TTTGAAAGGAAGCCACTAATCT
* * *
505560 TGTGGGCTTTGAAAA-GGTACCACTGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGG
1 TGTGGGCTTT-AAAAGGGTGCCACTAACTTGTAGGCTTTGAAA-GG-ATGCCACTGACTTGTGGG
* *
505624 TTTTGAAAGGGTA-CCACTAAT-T
63 CTTTGAAA-GGAAGCCACTAATCT
* ** * * *
505646 TGTAGGCTTTAAAAGGGTGCCACGGACTTTTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTT
1 TGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
505711 TGAAA
66 TGAAA
505716 TAGGTTGCTA
Statistics
Matches: 211, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
84 31 0.15
85 24 0.11
86 102 0.48
87 5 0.02
88 9 0.04
89 4 0.02
90 10 0.05
91 22 0.10
92 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTAAAAGGGTGCCACTAACTTGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAAGGAAGCCACTAATCT
Found at i:505601 original size:114 final size:114
Alignment explanation
Indices: 505446--506077 Score: 372
Period size: 114 Copynumber: 5.4 Consensus size: 114
505436 CACCGACTTG
*
505446 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-ATGCCACTAATTTGTAGGC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTATGCCACTAACTTGT-GGC
* * *
505510 TTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GAAGCCAC-TATCT
65 TTTTGAAAGGATACCACTAACTTGTAGGCTTT-AAAAGGAAGCCACGGA-CT
* * * *
505560 TGTGGGCTTTGAAAAGG-TACCACTGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGG
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTATGCCACTAACTTGTGGC
* * **
505624 TTTTGAAAGGGTACCACTAATTTGTAGGCTTTAAAAGGGTGCCACGGACT
65 TTTTGAAAGGATACCACTAACTTGTAGGCTTTAAAAGGAAGCCACGGACT
* * * **
505674 TTTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTGAAATAGGT-TGCTACCGACTTGTGTG
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-AGGTATGCCACTAAC-T-TGT-
* ** * * * * * *
505738 GGC-TTTGAAATGGGTTGTCACCAACTTGTGTGGGCTTTCAAATGAATTACCACCGACT
62 GGCTTTTGAAA--GGATACCACTAAC-T-TGTAGGCTTTAAAAGGAA--GCCACGGACT
* * * * **
505796 TGTGTGCGCTTTGAAATGAGTTACCACCGACTTGTGGGCTTTGAAATGGGT-TGCCACCGACTTG
1 TGTG-G-GCTTTGAAA-G-GATGCCACTGACTTGTGGGCTTTGAAA-AGGTATGCCACTAAC-T-
* * * * * * ** *
505860 TGTGGGC-TTTGAAATGGGTTGCCACCAACTTGTGTGGGATTTCAAATGAGTTGCCACCGACT
59 TGT-GGCTTTTGAAA--GGATACCACTAAC-T-TGTAGGCTTT-AAAAG-GAAGCCACGGACT
* * * *
505922 TGTGTAGGCTTTGAATGAGTTGCCA-TCGACTTGTGGGCTTTG-AAATG-ATGCCACAAACTTGT
1 TGTG--GGCTTTGAAAG-GATGCCACT-GACTTGTGGGCTTTGAAAAGGTATGCCACTAACTTGT
* * * * * * * *
505984 GGGC-TTTGAAATGG-TGCCACTGACTTATGGGCTTTGAAATGATGCCATGGACT
62 -GGCTTTTGAAA-GGATACCACTAACTTGTAGGCTTTAAAAGGAAGCCACGGACT
* *
506037 TATGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTGAA
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
506078 CTAATGCCAC
Statistics
Matches: 423, Mismatches: 69, Indels: 53
0.78 0.13 0.10
Matches are distributed among these distances:
112 20 0.05
113 21 0.05
114 116 0.27
115 36 0.09
116 12 0.03
117 10 0.02
118 9 0.02
119 9 0.02
120 15 0.04
121 14 0.03
122 12 0.03
123 10 0.02
124 11 0.03
125 24 0.06
126 100 0.24
127 3 0.01
128 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (114 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTATGCCACTAACTTGTGGCT
TTTGAAAGGATACCACTAACTTGTAGGCTTTAAAAGGAAGCCACGGACT
Found at i:506120 original size:27 final size:27
Alignment explanation
Indices: 506082--506980 Score: 759
Period size: 27 Copynumber: 32.8 Consensus size: 27
506072 TTTGAACTAA
*
506082 TGCCACGGACTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * * *
506109 TGCCATGGACTTGTGGACTTGAAAAGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
*
506136 TGCCACGGAGTTGTGGAC-TTAAATAGG
1 TGCCACGGAGTTGTGGACTTTAAA-GGG
* * * *
506163 TGCCACAGAGTTATGGACCTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506190 TGCCACGAAGTGGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506218 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
*
506245 TGCCACGGAGTTGTGGAC-TTAAATAGG
1 TGCCACGGAGTTGTGGACTTTAAA-GGG
* * * *
506272 TGCCATGGGGTTAG-GGACTTAAAAAGG
1 TGCCACGGAGTT-GTGGACTTTAAAGGG
** * *
506299 TGCCATAGAGTGGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506327 TGCCACGGAGTTGTGGACCTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506354 TGCCACAGAGTGGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* *
506381 TGCCACAGAGTTGTAGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506408 TGCCACGGAGTTGTGGGCTTAAAAAGTTG
1 TGCCACGGAGTTGTGGACTT-TAAAG-GG
* * *
506437 TGCCACTGACTTGT-GAGCTTTGGAAGGG
1 TGCCACGGAGTTGTGGA-CTTT-AAAGGG
** * * * * *
506465 TGCCATTGACTTGTGGGCTTAAAAAAGA
1 TGCCACGGAGTTGTGGACTT-TAAAGGG
* * * *
506493 TGCCACGAAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506520 TGCCACGTAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506547 TGCCGCGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAGGG
*
506574 TGCCATGGAGTTGTGGACTTTAAAAGGGTG
1 TGCCACGGAGTTGTGGACTTT-AAA-GG-G
* *
506604 CTGCCACGGAGTTGTGGACTTAAAAGGA
1 -TGCCACGGAGTTGTGGACTTTAAAGGG
* *
506632 TGCCACGGAGTTGTGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506659 TGCCATGGAGTTGTAGAC-TTAAATAGG
1 TGCCACGGAGTTGTGGACTTTAAA-GGG
* *
506686 TGCCACAGG-GTTGTGGACCTAAAAGGG
1 TGCCAC-GGAGTTGTGGACTTTAAAGGG
* ** * *
506713 TGCTATAGAGTGGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506741 TGCCATGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506768 TGCCACGGAATTCTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* *
506795 TGTCACGAAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506823 TGCTACGAAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * * *
506850 TGCCATGAATTTGTGGA-TTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
506877 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506905 TGCCATGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTT-AAAGGG
* *
506933 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAGGG
* * *
506960 TGCCATGGGGTTATGGACTTT
1 TGCCACGGAGTTGTGGACTTT
506981 GAAAAGAAAT
Statistics
Matches: 718, Mismatches: 128, Indels: 52
0.80 0.14 0.06
Matches are distributed among these distances:
26 17 0.02
27 454 0.63
28 201 0.28
29 24 0.03
30 3 0.00
31 19 0.03
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTTAAAGGG
Found at i:506237 original size:109 final size:109
Alignment explanation
Indices: 506082--506987 Score: 856
Period size: 109 Copynumber: 8.2 Consensus size: 109
506072 TTTGAACTAA
* * * * *
506082 TGCCACGGACTTGTGGACTTT-AAAGGGTGCCATGGACTTGTGGACTTGAAAA-GGTGCCACGGA
1 TGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGA
* *
506145 GTTGTGGACTTAAATA-GGTGCCACAGAGTTATGGACCTAAAAGGG
65 GTTGTGGACTTAAA-AGGGTGCCACAGAGTTGTGGACTTAAAAGGG
* *
506190 TGCCACGAAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAG
1 TGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
** * *
506255 TTGTGGACTTAAATA-GGTGCCATGGGGTTAG-GGACTTAAAAAGG
66 TTGTGGACTTAAA-AGGGTGCCACAGAGTT-GTGGACTTAAAAGGG
* * * *
506299 TGCCA-TAGAGTGGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACCTAAAAGGGTGCCACAGA
1 TGCCACGA-AGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* * *
506363 GTGGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTTAAAGGG
65 GTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
* * * * * * ** **
506408 TGCCACGGAGTTGTGGGCTTAAAAAGTTGTGCCACTGACTTGT-GAGCTTTGGAAGGGTGCCATT
1 TGCCACGAAGTTGTGGACTTTAAAAG-AGTGCCACGGAGTTGTGGA-C-TTAAAAGGGTGCCACG
* * * * * *
506472 GACTTGTGGGCTTAAAAAAGATGCCAC-GAAGTTGTGGACTTAAAAAGA
63 GAGTTGTGGACTT-AAAAGGGTGCCACAG-AGTTGTGGACTTAAAAGGG
* * * *
506520 TGCCACGTAGTTGTGGAC-TTAAAAG-GATGCCGCGGAGTTGTGGACTTAAAAGGATGCCATGGA
1 TGCCACGAAGTTGTGGACTTTAAAAGAG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* *
506583 GTTGTGGACTTTAAAAGGGTGCTGCCACGGAGTTGTGGACTTAAAAGGA
65 GTTGTGGAC-TTAAAA-GG-G-TGCCACAGAGTTGTGGACTTAAAAGGG
* * *
506632 TGCCACGGAGTTGTGGAC-TTAAAAGAGTGCCATGGAGTTGTAGACTTAAATA-GGTGCCACAGG
1 TGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCAC-GG
* * * * *
506695 -GTTGTGGACCTAAAAGGGTGCTATAGAGTGGTGGACTTTAAAAGAG
64 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGG
* * * * * * *
506741 TGCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAATTCTGGACTTAAAAGGGTGTCACGAAG
1 TGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
506805 TTGTGGACTTTAAAAGGGTGCTAC-GAAGTTGTGGACTTTAAAGGG
66 TTGTGGAC-TTAAAAGGGTGCCACAG-AGTTGTGGACTTAAAAGGG
* * *
506850 TGCCATGAATTTGTGGA-TTTAAAAG-GATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATGG
1 TGCCACGAAGTTGTGGACTTTAAAAGAG-TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* * *
506913 AGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
64 AGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
* ** *
506960 TGCCATGGGGTTATGGACTTTGAAAAGA
1 TGCCACGAAGTTGTGGACTTT-AAAAGA
506988 AATGCTACTA
Statistics
Matches: 662, Mismatches: 102, Indels: 63
0.80 0.12 0.08
Matches are distributed among these distances:
108 42 0.06
109 325 0.49
110 121 0.18
111 39 0.06
112 130 0.20
113 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (109 bp):
TGCCACGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
TTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:506249 original size:82 final size:80
Alignment explanation
Indices: 506082--506979 Score: 824
Period size: 82 Copynumber: 10.9 Consensus size: 80
506072 TTTGAACTAA
* * * * *
506082 TGCCACGGACTTGTGGACTTTAAAGGGTGCCATGGACTTGTGGACTTGAAAAGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT-AAAAGGTGCCACGGAGT
506147 TGTGGACTTAAATA-GG
65 TGTGGACTTAAA-AGGG
* * * *
506163 TGCCACAGAGTTATGGACCTAAAAGGGTGCCACGAAGTGGTGGACTTTAAAAGAGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAG-GTGCCACGGAG
*
506228 TTATGGACTTAAAAGGG
64 TTGTGGACTTAAAAGGG
* ** **
506245 TGCCACGGAGTTGTGGACTTAAATA-GGTGCCATGGGGTTAG-GGACTTAAAAAGGTGCCATAGA
1 TGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACGAAGTT-GTGGACTT-AAAAGGTGCCACGGA
* *
506308 GTGGTGGACTTTAAAAGAG
63 GTTGTGGAC-TTAAAAGGG
* * *
506327 TGCCACGGAGTTGTGGACCTAAAAGGGTGCCAC-AGAGTGGTGGACTTAAAAGGGTGCCACAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAA-GGTGCCACGGAG
* *
506391 TTGTAGACTTTAAAGGG
64 TTGTGGACTTAAAAGGG
* * * * * *
506408 TGCCACGGAGTTGTGGGCTTAAAAAGTTGTGCCACTG-ACTTGT-GAGCTTTGGAAGGGTGCCAT
1 TGCCACGGAGTTGTGGACTT-AAAAG-GGTGCCAC-GAAGTTGTGGA-C-TT-AAAAGGTGCCAC
* * * * *
506471 TGACTTGTGGGCTTAAAAAAGA
60 GGAGTTGTGGACTT-AAAAGGG
* * * * *
506493 TGCCACGAAGTTGTGGACTTAAAAAGATGCCACGTAGTTGTGGACTTAAAAGGATGCCGCGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG-TGCCACGGAGT
*
506558 TGTGGACTTAAAAGGA
65 TGTGGACTTAAAAGGG
* *
506574 TGCCATGGAGTTGTGGACTTTAAAAGGGTGCTGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 TGCCACGGAGTTGTGGAC-TTAAAA-GG-G-TGCCACGAAGTTGTGGACTTAAAAGG-TGCCACG
*
506639 GAGTTGTGGACTTAAAAGAG
61 GAGTTGTGGACTTAAAAGGG
* * * * * **
506659 TGCCATGGAGTTGTAGACTTAAATA-GGTGCCAC-AGGGTTGTGGACCTAAAAGGGTGCTATAGA
1 TGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACGA-AGTTGTGGACTTAAAA-GGTGCCACGGA
* *
506722 GTGGTGGACTTTAAAAGAG
63 GTTGTGGAC-TTAAAAGGG
* * * *
506741 TGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAA-TTCTGGACTTAAAAGGGTGTCACGAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTGTGGACTTAAAA-GGTGCCACGGAG
506805 TTGTGGACTTTAAAAGGG
64 TTGTGGAC-TTAAAAGGG
* * * * * *
506823 TGCTACGAAGTTGTGGACTTTAAAGGGTGCCATGAATTTGTGGATTTAAAAGGATGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG-TGCCACGGAGT
506888 TGTGGACTTTAAAAGGG
65 TGTGGAC-TTAAAAGGG
* * * * *
506905 TGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG-TGCCACGGAG
*
506970 TTATGGACTT
64 TTGTGGACTT
506980 TGAAAAGAAA
Statistics
Matches: 672, Mismatches: 109, Indels: 71
0.79 0.13 0.08
Matches are distributed among these distances:
81 156 0.23
82 320 0.48
83 73 0.11
84 31 0.05
85 92 0.14
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (80 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGTGCCACGGAGTT
GTGGACTTAAAAGGG
Found at i:507715 original size:12 final size:12
Alignment explanation
Indices: 507698--507725 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
507688 AACCATTGTA
507698 TGAGGCAGAAAG
1 TGAGGCAGAAAG
507710 TGAGGCAGAAAG
1 TGAGGCAGAAAG
507722 TGAG
1 TGAG
507726 CAAGGTGGTA
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:0.39, C:0.07, G:0.43, T:0.11
Consensus pattern (12 bp):
TGAGGCAGAAAG
Found at i:512136 original size:38 final size:38
Alignment explanation
Indices: 512085--512163 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
512075 TTCATTGCAT
** *
512085 GATGAGATGATCCTTACATCCATAACAAAATAAAAAGG
1 GATGAGACAATCCTTACATCCATAACAAAATAAAAAAG
512123 GATGAGACAATCCTTACATCCATAACAAAATAAAAAAG
1 GATGAGACAATCCTTACATCCATAACAAAATAAAAAAG
512161 GAT
1 GAT
512164 CATGACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (38 bp):
GATGAGACAATCCTTACATCCATAACAAAATAAAAAAG
Found at i:526001 original size:15 final size:15
Alignment explanation
Indices: 525983--526052 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
525973 TTTCATTTTT
525983 TTTCTTTCTTTCTTC
1 TTTCTTTCTTTCTTC
525998 TTTCATTCAGTCTTTCTT-
1 TTTC-TT---TCTTTCTTC
526016 TTTCTTT-TTT-TTC
1 TTTCTTTCTTTCTTC
526029 TACTTCTTTCTTTCTTC
1 T--TTCTTTCTTTCTTC
*
526046 CTTCTTT
1 TTTCTTT
526053 GATTTTTTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 18
0.70 0.02 0.28
Matches are distributed among these distances:
12 2 0.04
13 4 0.09
14 1 0.02
15 16 0.36
16 5 0.11
17 5 0.11
18 4 0.09
19 8 0.18
ACGTcount: A:0.04, C:0.24, G:0.01, T:0.70
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:526027 original size:10 final size:10
Alignment explanation
Indices: 525958--526044 Score: 63
Period size: 10 Copynumber: 8.4 Consensus size: 10
525948 ACCCCTTTTC
*
525958 TCTTTTTTTT
1 TCTTTTTCTT
525968 TCATTTTTCATT
1 TC-TTTTTC-TT
525980 T-TTTTTCTT
1 TCTTTTTCTT
525989 TCTTTCTTCTT
1 TCTTT-TTCTT
**
526000 TCATTCAGTCTT
1 TC-TT-TTTCTT
526012 TCTTTTTCTT
1 TCTTTTTCTT
526022 T-TTTTTC-T
1 TCTTTTTCTT
*
526030 ACTTCTTTCTT
1 TCTT-TTTCTT
526041 TCTT
1 TCTT
526045 CCTTCTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 1 0.02
9 11 0.18
10 20 0.33
11 18 0.30
12 11 0.18
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.74
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:526243 original size:21 final size:21
Alignment explanation
Indices: 526225--526265 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
526215 AATTTTTTTT
526225 TAAATCTTTCTAGATTTTTCC
1 TAAATCTTTCTAGATTTTTCC
526246 TAAATCTTTCTAGATTTTTC
1 TAAATCTTTCTAGATTTTTC
526266 TAGATCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.54
Consensus pattern (21 bp):
TAAATCTTTCTAGATTTTTCC
Found at i:526267 original size:10 final size:10
Alignment explanation
Indices: 526231--526270 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
526221 TTTTTAAATC
526231 TTTCTAGATT
1 TTTCTAGATT
* *
526241 TTTCCTAAATC
1 TTT-CTAGATT
526252 TTTCTAGATT
1 TTTCTAGATT
526262 TTTCTAGAT
1 TTTCTAGAT
526271 CTGAAAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (10 bp):
TTTCTAGATT
Found at i:536542 original size:68 final size:68
Alignment explanation
Indices: 536350--536545 Score: 193
Period size: 68 Copynumber: 2.9 Consensus size: 68
536340 TTGAGGGTGA
* * * * * *
536350 GGTAGGTAGGTGCCACCAGCTTGTAT-GGATTTTGAGATAAGTAAATG-TCTTACTCTTTAAGGA
1 GGTAGGTAGGTGTCACCAGCTTATGTGGGCTTTAG-GATTAGTAAATGTTC-TACTCTTTAAGGA
536413 CAGAG
64 CAGAG
* * * * * * * *
536418 GGTAAGTAGGTATCACCAGCTTATGTGGACTTTAGGATGT-GTAAGTGTTTTGCTCTTTGAGGGC
1 GGTAGGTAGGTGTCACCAGCTTATGTGGGCTTTAGGAT-TAGTAAATGTTCTACTCTTTAAGGAC
536482 TA-AG
65 -AGAG
*
536486 GGTAGGTAGGTGTCACCAGCTTATGTGGGCTTTAGGATTAGTAAACGTTCTACTCTTTAA
1 GGTAGGTAGGTGTCACCAGCTTATGTGGGCTTTAGGATTAGTAAATGTTCTACTCTTTAA
536546 AGAACCAGCT
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
67 1 0.01
68 93 0.92
69 7 0.07
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (68 bp):
GGTAGGTAGGTGTCACCAGCTTATGTGGGCTTTAGGATTAGTAAATGTTCTACTCTTTAAGGACA
GAG
Found at i:536659 original size:67 final size:66
Alignment explanation
Indices: 536549--537077 Score: 514
Period size: 67 Copynumber: 7.9 Consensus size: 66
536539 TCTTTAAAGA
* *
536549 ACCAGCTTATGTGGGCATTAAGATGGGTAAGCATCCT-CTTCTTTAAGGATTGAGGTAGGTAGGT
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTAC-TCTTTAAGGACTGAGGTAGGTAGGT
536613 GCC
64 GCC
* * * * * *
536616 ACCAGCTTGTGTGGGCATAGAGATCGGTAAGCATCTTGCTCTTTAA-GAATAGAGGTAAGTAGGT
1 ACCAGCTTGTGTGGGCTTA-AGATGGGTAAGCATCCTACTCTTTAAGGACT-GAGGTAGGTAGGT
536680 GCC
64 GCC
** * * * * * *
536683 ATGAGCATGTGTGAGCTTTAAGATGGTTAAGCATCCTACTATTTAAGGATTGAGGTAAGTTA-GT
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTTAAGGACTGAGGT-AGGTAGGT
536747 GCC
64 GCC
* * * * *
536750 ACCAGCTTGTATGAGCTTTGAGATGGGTAAGCATCATACTCTTTGAA-GACTGAGGCAGGTAGGT
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTT-AAGGACTGAGGTAGGTAGGT
536814 GCC
64 GCC
* * * *
536817 ACCATCTTATGTTGGCTTTAAGATGGGTAAGCATCCTACTCTTTGAA-GACTGAGGTAGGTAAGT
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTT-AAGGACTGAGGTAGGTAGGT
536881 GCC
64 GCC
*
536884 ACCAGCTTGTGTAGGCTTTAAGATGGGTAAGCATCCTACTCTTTGAA-GACTGAGGTAGGTAGGT
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTT-AAGGACTGAGGTAGGTAGGT
536948 GCC
64 GCC
* * * * * * *
536951 ACCAGCTTGTGTGGGCTTTGACATGGGTAAACGTCTTGCTC-TTAGAGGACTGAGGGTAGGTAAG
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTTA-AGGACTGA-GGTAGGTAGG
537015 TGCC
63 TGCC
* * ** * *
537019 ACTAGCTTGTGTGGGCTTTGAGATGGGTAAGCATCCTGTTCTTTGAGGATTGAGGTAGG
1 ACCAGCTTGTGTGGGC-TTAAGATGGGTAAGCATCCTACTCTTTAAGGACTGAGGTAGG
537078 GTTTAGATAC
Statistics
Matches: 391, Mismatches: 59, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
65 1 0.00
66 12 0.03
67 310 0.79
68 66 0.17
69 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (66 bp):
ACCAGCTTGTGTGGGCTTAAGATGGGTAAGCATCCTACTCTTTAAGGACTGAGGTAGGTAGGTGC
C
Found at i:536878 original size:32 final size:32
Alignment explanation
Indices: 536842--536944 Score: 77
Period size: 32 Copynumber: 3.1 Consensus size: 32
536832 CTTTAAGATG
536842 GGTAAGCATCCTACTCTTTGAAGACTGAGGTA
1 GGTAAGCATCCTACTCTTTGAAGACTGAGGTA
* * * * * *
536874 GGTAAGTGCCA-CC-AGCT-TGTGTAGGCTTTAAGATG
1 GGTAA--G-CATCCTA-CTCTTTGAAGAC--TGAGGTA
536909 GGTAAGCATCCTACTCTTTGAAGACTGAGGTA
1 GGTAAGCATCCTACTCTTTGAAGACTGAGGTA
536941 GGTA
1 GGTA
536945 GGTGCCACCA
Statistics
Matches: 50, Mismatches: 12, Indels: 18
0.62 0.15 0.22
Matches are distributed among these distances:
32 15 0.30
33 12 0.24
34 12 0.24
35 11 0.22
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (32 bp):
GGTAAGCATCCTACTCTTTGAAGACTGAGGTA
Found at i:536904 original size:201 final size:200
Alignment explanation
Indices: 536569--537077 Score: 580
Period size: 201 Copynumber: 2.5 Consensus size: 200
536559 GTGGGCATTA
* *
536569 AGATGGGTAAGCATCCTCTTCTTT-AAGGATTGAGGTAGGTAGGTGCCACCAGCTTGTGTGGGC-
1 AGATGGGTAAGCATCATC-TCTTTGAA-GACTGAGGTAGGTAGGTGCCACCAGCTTGTGTGGGCT
* * * * * **
536632 ATAGAGATCGGTAAGCATCTTGCTCTTT-AAGAATAGAGGTAAGTAGGTGCCATGAGCATGTGTG
64 TTA-AGATGGGTAAGCATCCTGCTCTTTGAAGAAT-GAGGTAGGTAAGTGCCACCAGCATGTGTG
* * *
536696 AGCTTTAAGATGGTTAAGCATCCTACTATTT-AAGGATTGAGGTAAGTTA-GTGCCACCAGCTTG
127 AGCTTTAAGATGGGTAAGCATCCTACTATTTGAA-GACTGAGGT-AGGTAGGTGCCACCAGCTTG
536759 TATGAGCTTTG
190 TATGAGCTTTG
* * * *
536770 AGATGGGTAAGCATCATACTCTTTGAAGACTGAGGCAGGTAGGTGCCACCATCTTATGTTGGCTT
1 AGATGGGTAAGCATCAT-CTCTTTGAAGACTGAGGTAGGTAGGTGCCACCAGCTTGTGTGGGCTT
* * *
536835 TAAGATGGGTAAGCATCCTACTCTTTGAAGACTGAGGTAGGTAAGTGCCACCAGCTTGTGT-AGG
65 TAAGATGGGTAAGCATCCTGCTCTTTGAAGAATGAGGTAGGTAAGTGCCACCAGCATGTGTGA-G
* *
536899 CTTTAAGATGGGTAAGCATCCTACTCTTTGAAGACTGAGGTAGGTAGGTGCCACCAGCTTGTGTG
129 CTTTAAGATGGGTAAGCATCCTACTATTTGAAGACTGAGGTAGGTAGGTGCCACCAGCTTGTATG
*
536964 GGCTTTG
194 AGCTTTG
* * * * * * * *
536971 ACATGGGTAAACGTCTTGCTCTTAGAGGACTGAGGGTAGGTAAGTGCCACTAGCTTGTGTGGGCT
1 AGATGGGTAAGCATCAT-CTCTTTGAAGACTGA-GGTAGGTAGGTGCCACCAGCTTGTGTGGGCT
* * * *
537036 TTGAGATGGGTAAGCATCCTGTTCTTTGAGGATTGAGGTAGG
64 TTAAGATGGGTAAGCATCCTGCTCTTTGAAGAATGAGGTAGG
537078 GTTTAGATAC
Statistics
Matches: 260, Mismatches: 40, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
200 5 0.02
201 181 0.70
202 74 0.28
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (200 bp):
AGATGGGTAAGCATCATCTCTTTGAAGACTGAGGTAGGTAGGTGCCACCAGCTTGTGTGGGCTTT
AAGATGGGTAAGCATCCTGCTCTTTGAAGAATGAGGTAGGTAAGTGCCACCAGCATGTGTGAGCT
TTAAGATGGGTAAGCATCCTACTATTTGAAGACTGAGGTAGGTAGGTGCCACCAGCTTGTATGAG
CTTTG
Found at i:549693 original size:28 final size:28
Alignment explanation
Indices: 549653--549720 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
549643 ATAAAGCCGG
** **
549653 GGTTGGAGTATCCCCTCGGAGGTAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
*
549681 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGAGGAAATAACGA
549709 GGTTGGAGTATC
1 GGTTGGAGTATC
549721 ATCGATTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACGA
Found at i:549858 original size:51 final size:51
Alignment explanation
Indices: 549709--550096 Score: 232
Period size: 52 Copynumber: 7.4 Consensus size: 51
549699 GAAATAACGA
* * * * *
549709 GGTTGGAGTATCATCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * *
549761 AGTTGGAGTATCCTTGATTAAAGGAAAATTGGTGTTTT-GAAGATAAAACCGG
1 GGTTGGAGTATCCTCGATT-ATGGAAAATTAGTGTTTTGGAA-ATAAAACCGG
* * *
549813 GGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGA
1 GGTTGGAGTATCCTCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * * *
549864 GGTTGGAGTGTCCTCGATTAT-GAGAAATCAATATTTTGGGAATAAAGCCAG
1 GGTTGGAGTATCCTCGATTATGGA-AAATTAGTGTTTTGGAAATAAAACCGG
* * ** * * * *
549915 GGTTGGAGTATCCCCTCAGAGGTAACGG--GGTTGAAGTATCCTCGATGAAAT--AA-CGA
1 GGTTGGAGTAT--CCTC-GA--TTATGGAAAATT--AGTGT-TTTG--GAAATAAAACCGG
* * * * *
549971 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTATGGAAAATTAGT-GTTTTGGAAATAAAACCGG
* * * * * *
550023 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCTCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCGG
*
550075 GGTTGGAGTATCCCCGATTATG
1 GGTTGGAGTATCCTCGATTATG
550097 AACAATTGAG
Statistics
Matches: 258, Mismatches: 56, Indels: 45
0.72 0.16 0.13
Matches are distributed among these distances:
49 5 0.02
50 2 0.01
51 85 0.33
52 104 0.40
53 29 0.11
54 7 0.03
56 18 0.07
57 4 0.02
59 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:550078 original size:262 final size:262
Alignment explanation
Indices: 549602--550093 Score: 840
Period size: 262 Copynumber: 1.9 Consensus size: 262
549592 AAAATGACGG
* *
549602 GGTTGGAGTATCCCCAATTATGAGAAGTCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGGTTGGAGTATCCC
* *
549667 CTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCATCGATTGTGA
66 CTCAGAGGTAACGAGGTTGAAGTATCCCCGATGAAATAACGAGGTTGGAGTATCATCGATTGTGA
* **
549732 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCTTGATTAAAGGAAAATTGGTGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
* *
549797 TTGAAGATAAAACCGGGGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
196 TTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
549862 GA
261 GA
* * *
549864 GGTTGGAGTGTCCTCGATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGGTTGGAGTATCCC
* * *
549929 CTCAGAGGTAACGGGGTTGAAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCAGAGGTAACGAGGTTGAAGTATCCCCGATGAAATAACGAGGTTGGAGTATCATCGATTGTGA
549994 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
131 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
*
550059 TTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
196 TTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
550094 ATGAACAATT
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
262 214 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (262 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGGTTGGAGTATCCC
CTCAGAGGTAACGAGGTTGAAGTATCCCCGATGAAATAACGAGGTTGGAGTATCATCGATTGTGA
AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
TTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
GA
Found at i:552492 original size:21 final size:21
Alignment explanation
Indices: 552468--552509 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
552458 GTATCAATAC
552468 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
552489 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
552510 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:552558 original size:19 final size:20
Alignment explanation
Indices: 552534--552582 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
552524 AGCGATACAT
552534 TGTATCGATACCAA-ACTTA
1 TGTATCGATACCAACACTTA
552553 TGTATCGATA-CAACACTTA
1 TGTATCGATACCAACACTTA
552572 TGTATCGATAC
1 TGTATCGATAC
552583 ATTTACGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (20 bp):
TGTATCGATACCAACACTTA
Found at i:553494 original size:61 final size:60
Alignment explanation
Indices: 553407--554249 Score: 936
Period size: 61 Copynumber: 14.3 Consensus size: 60
553397 AAGTGCATCA
** **
553407 TGCTCTTTGAGGA-TTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGACGTCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG-CGTCC
* ** * *
553468 TGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGATAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGA-AAGCGTCC
* ** * *
553529 TGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-GAAAGCGTCC
* * *
553590 TACTTTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTG-AAA-G---GCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
* *
553645 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTTGGCTTTG---A--AAAGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
* *
553700 TGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG-CGTCC
* ** * * * *
553761 TGCTCTTTGAGGATTGGAAGGTGCCATCAACTTGTATGGGCTTTGCAAAGAGAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG-GAAAGCGTCC
*
553822 TGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-G---GCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
* *
553877 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTG-AAA-G---GTGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
* *
553932 TGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTGTGAAAAGGAAAGACGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG-CGTCC
* * *
553993 TACTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAAGGAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAA-GCGTCC
** * * *
554054 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTATGTGGGCTTTGCAAAGGAGAAGGCGACC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGA-AA-GCGTCC
* ** *
554115 TGCTCTTTGAGGACT-GAAAGTGCCACCGGCTTGTGTGGGCTTT-AAAA-G---GCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
* * *
554169 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGG-AAA-GCGTCC
554230 TGCTCTTTGAGGACT-GAAAA
1 TGCTCTTTGAGGACTGGAAAA
554250 GTGGAAGAAG
Statistics
Matches: 681, Mismatches: 73, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.00
54 19 0.03
55 223 0.33
56 4 0.01
57 1 0.00
58 3 0.00
59 1 0.00
60 48 0.07
61 368 0.54
62 13 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (60 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGCGTCC
Found at i:553819 original size:232 final size:232
Alignment explanation
Indices: 553407--554242 Score: 1090
Period size: 232 Copynumber: 3.6 Consensus size: 232
553397 AAGTGCATCA
** **
553407 TGCTCTTTGAGGA-TTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGACGTCCTGC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTGGTGTGGGCTTTG---A--AAAG-CGTCCTGC
* ** * * * * *
553471 TTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGATAGGCGTCCTGCTCTT
59 TCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTT
*
553536 TGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTACTTTTTGAG
124 TGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTTTTTGAG
*
553601 GACTGGAAAATGCCACCAATTTGTGTGGGCTTTGAAAGGCGTCC
189 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
*
553645 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTTGGCTTTGAAAAGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAAGCGTCCTGCTCTTTGA
553710 GGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTTTGAGGAT
66 GGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTTTGAGGAT
* *
553775 TGGAAGGTGCCATCAACTTGTATGGGCTTTGCAAAGAGAAAGCATCCTGCTTTTTGAGGACTGGA
131 TGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTTTTTGAGGACTGGA
553840 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
196 AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
553877 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAAGCGTCCTGCTCTTTGA
* * * * *
553942 GGACTGGAAAATGCCACCAACTCGTGTGGGCTGTGAAAAGGAAAGACGTCCTACTCCTTGAGGAC
66 GGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTTTGAGGAT
** * * * *
554007 TGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAAG-GAAAGGCGTCCTGCTCTTTGAGGACT-G
131 TGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCATCCTGCTTTTTGAGGACTGG
** * *
554070 AAGGTGCCACCAACTTATGTGGGCTTTGCAAAGGAGAAGGCGACC
195 AAAATGCCACCAACTTGTGTGGGCTTT------GA-AAGGCGTCC
* ** * *
554115 TGCTCTTTGAGGACT-GAAAGTGCCACCGGCTTGTGTGGGCTTT-AAAAGGCATCCTGCTCTTTG
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAA-GCGTCCTGCTCTTTG
* * * *
554178 AGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAGG
65 AGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGG-AAAGACATCCTGCTCTTTGAGG
554242 A
129 A
554243 CTGAAAAGTG
Statistics
Matches: 535, Mismatches: 52, Indels: 23
0.88 0.09 0.04
Matches are distributed among these distances:
231 29 0.05
232 341 0.64
233 4 0.01
235 1 0.00
236 9 0.02
237 89 0.17
238 57 0.11
239 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (232 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAAGCGTCCTGCTCTTTGA
GGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTTTGAGGAT
TGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTTTTTGAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:554005 original size:293 final size:287
Alignment explanation
Indices: 553423--554249 Score: 1124
Period size: 293 Copynumber: 2.8 Consensus size: 287
553413 TTGAGGATTA
* *
553423 AAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGACGTCCTGCTTTTTGAGGACTGGAAG
1 AAAA-TGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACGTCCTGCTCTTTGAGGACTGGAAG
* * *
553488 GTGCCACCAACTTGTGTGGGCTTTGCAAAG-GATAGGCGTCCTGCTCTTTGAGGATTGGAAGGTG
65 GTGCCACCAACTTGTGTGGGCTTTGCAAAGAGA-AGGCATCCTGCTCTTTGAGGACTGGAAAGTG
* *
553552 CCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTACTTTTTGAGGACTGGAAAATGCCAC
129 CCACCAACTTGTGTGGGCTTTG--AA-AG---GCATCCTGCTCTTTGAGGACTGGAAAATGCCAC
* *
553617 CAATTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGT
188 CAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGT
* * * *
553682 TGGCTTTGAAAAGCGTCCTGCTCTTTGAGGACTGG
253 GGGCTGTGAAAAGCGTCCTACTCCTTGAGGACTGG
* *
553717 AAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACATCCTGCTCTTTGAGGATTGGAAGG
1 AAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACGTCCTGCTCTTTGAGGACTGGAAGG
* * * * *
553782 TGCCATCAACTTGTATGGGCTTTGCAAAGAGAAAGCATCCTGCTTTTTGAGGACTGGAAAATGCC
66 TGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCC
* *
553847 ACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGT
131 ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
*
553912 GTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTGTG
196 GTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTGTG
553977 AAAAGGAAAGACGTCCTACTCCTTGAGGACTGG
261 ---A--AAAG-CGTCCTACTCCTTGAGGACTGG
* * *
554010 AAAATGCCACCAACTTGTGTGGGCTTCGAAAAGGAAAGGCGTCCTGCTCTTTGAGGACT-GAAGG
1 AAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACGTCCTGCTCTTTGAGGACTGGAAGG
*
554074 TGCCACCAACTTATGTGGGCTTTGCAAAGGAGAAGGCGA-CCTGCTCTTTGAGGACT-GAAAGTG
66 TGCCACCAACTTGTGTGGGCTTTGCAAA-GAGAAGGC-ATCCTGCTCTTTGAGGACTGGAAAGTG
** * * *
554137 CCACCGGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTT
129 CCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT
*
554202 GTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-GAAAA
194 GTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
554250 GTGGAAGAAG
Statistics
Matches: 475, Mismatches: 43, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
287 97 0.20
290 3 0.01
291 2 0.00
292 109 0.23
293 228 0.48
294 7 0.01
297 6 0.01
298 23 0.05
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (287 bp):
AAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGACGTCCTGCTCTTTGAGGACTGGAAGG
TGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCC
ACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
GTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTGTG
AAAAGCGTCCTACTCCTTGAGGACTGG
Found at i:556333 original size:80 final size:79
Alignment explanation
Indices: 556146--556335 Score: 195
Period size: 79 Copynumber: 2.4 Consensus size: 79
556136 TCGATGATTA
* * *** *
556146 GAAAAAAAATCAGGA-TTTGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGA
1 GAAATAAAATC-GGAGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGA
556210 GAAAACAATATTTTG
65 GAAAACAATATTTTG
* ** * * *
556225 GGAATAAAGCCGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTGTGA-
1 GAAATAAAATCGGAGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAG
*** *
556289 AAAATTGGTGTTTTTG
66 AAAA-CAAT-ATTTTG
556305 GAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 GAAATAAAATCGGAGTTGGAGTATCCCCGAT
556336 TAAAGGAAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
78 6 0.07
79 50 0.57
80 32 0.36
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (79 bp):
GAAATAAAATCGGAGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAG
AAAACAATATTTTG
Found at i:556425 original size:51 final size:51
Alignment explanation
Indices: 556266--556434 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 51
556256 GAAATAACGA
* * *
556266 GGTTGGAGTAT-CCTCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCT-GATTGTGGAAAATTGGTG-TTTTGGAAATAAAACCGG
* * ** * * *
556318 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-AATAATAAAGCCGA
1 GGTTGGAGTATCCCTGATT-GTGGAAAATTGGTGTTTTGGA-AATAAAACCGG
* *
556370 GGTTGGAGTATCCCTGATTGTGGAAAATCGAT-TATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCCTGATTGTGGAAAATTGGTGT-TTTGGAAATAAAACCGG
556421 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
556435 CTCGGAGATA
Statistics
Matches: 93, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
50 1 0.01
51 36 0.39
52 43 0.46
53 13 0.14
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:556518 original size:80 final size:76
Alignment explanation
Indices: 556408--556591 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 76
556398 CGATTATTTG
* * *
556408 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATTATGAG
1 GAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCG---ATGAA
556473 AAATTAATATTTTA
63 AAATTAATATTTTA
556487 GAAA-AAAAGCCGGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAA
1 GAAATAAAA-CC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAA
* *
556551 AATTGATGTTTTA
64 AATTAATATTTTA
* *
556564 GAAATAAAATCGGAGTTGGAGTATCCCC
1 GAAATAAAACCGGGGTTGGAGTATCCCC
556592 GATTATAGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
76 16 0.17
77 21 0.22
78 8 0.08
79 6 0.06
80 44 0.46
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (76 bp):
GAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAA
TTAATATTTTA
Found at i:556620 original size:51 final size:49
Alignment explanation
Indices: 556530--556647 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 49
556520 AAATAACGGG
556530 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
*
556578 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAG-AAATAAAATCGGA
556629 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
556648 TGGAGAATTG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
48 16 0.26
49 1 0.02
50 4 0.06
51 41 0.66
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:559027 original size:19 final size:18
Alignment explanation
Indices: 559000--559093 Score: 66
Period size: 13 Copynumber: 5.7 Consensus size: 18
558990 AGATGCATTA
*
559000 TATCAATACAAAACTTATG
1 TATCGATAC-AAACTTATG
559019 TATCGATAC---C-T-TG
1 TATCGATACAAACTTATG
559032 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
559051 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
*
559064 TATCGATAC-AACATTAAG
1 TATCGATACAAAC-TTATG
559082 TATCGATACAAA
1 TATCGATACAAA
559094 TCGCTGAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 24
0.70 0.02 0.28
Matches are distributed among these distances:
13 22 0.36
14 3 0.05
15 1 0.02
16 1 0.02
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:559042 original size:32 final size:32
Alignment explanation
Indices: 558995--559091 Score: 142
Period size: 32 Copynumber: 3.1 Consensus size: 32
558985 TTCCTAGATG
* * *
558995 CATTATATCAATACAAAACTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
*
559027 CCTTGTATCGATACAACACTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
*
559059 CATTGTATCGATACAACA-TTAAGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
559090 CA
1 CA
559092 AATCGCTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 14 0.24
32 45 0.76
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
CATTGTATCGATACAACACTTATGTATCGATA
Found at i:559972 original size:28 final size:28
Alignment explanation
Indices: 559941--560027 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
559931 TGAGGACTAA
559941 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
559969 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
559995 AAAAGTGCCACCAACTTGTGTGGGCTTTG
1 -AAAGTGCCACCAACTCGTGTGGGCTTTG
560024 AAAG
1 AAAG
560028 GCGTCCTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 5 0.12
27 14 0.34
28 17 0.41
29 5 0.12
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:560005 original size:55 final size:55
Alignment explanation
Indices: 559921--560607 Score: 729
Period size: 61 Copynumber: 11.9 Consensus size: 55
559911 ATAAAGTGTA
* *
559921 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
559976 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
560031 TCCTGCTCTTTGAGGA-TTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * * *
560086 TCCTGCTCATTGGGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
560147 TCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
*
560208 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
*
560269 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * *
560329 TCATGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTAGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
560384 TCCTGCTCTTTGACGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
560439 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-G-----GCG
*
560500 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
560561 TCTTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
560608 AAGAGGAACA
Statistics
Matches: 561, Mismatches: 39, Indels: 58
0.85 0.06 0.09
Matches are distributed among these distances:
54 11 0.02
55 234 0.42
56 12 0.02
60 49 0.09
61 236 0.42
62 13 0.02
65 6 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:560376 original size:353 final size:348
Alignment explanation
Indices: 559920--560645 Score: 1088
Period size: 353 Copynumber: 2.1 Consensus size: 348
559910 AATAAAGTGT
*
559920 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCATGCTCT
* *
559985 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA-T-
66 TTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGACGACTG
* *
560048 TAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCATTGGGGACTGAAAAGTG
131 GAAAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGGGTCCTGCTCATTGGGGACTGAAAAGTG
* *
560112 CCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCATCCTTCTCTTTGAGGACT-GAAAGGTGCCA
193 CCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAA-ATGCCA
560176 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAA-ATGCCACCA
257 CCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAAAGATGCCACCA
560240 ACTTGTGTGGGCTTTGAA-AAGAAAAAGC
321 ACTTGTGTGGGCTTT-AAGAAGAAAAAGC
* * *
560268 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCGTCAT
1 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCAT
*
560333 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTAGGCTTTGAAAGGTGTCCTGCTCTTTGA
61 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGA
* *
560397 CGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGGGGACTGAAAG
125 CGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCATTGGGGACTGAAAA
* * *
560462 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGC
190 GTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGC
* * *
560527 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCTTGCTCTTTGGGGACTGAAAGGTGCCACC
255 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGATGCCACC
* * *
560592 AACTTGTGTGGGCTTTAAGAGGAACAGGC
320 AACTTGTGTGGGCTTTAAGAAGAAAAAGC
*
560621 ATCCTACTCTTTGAGGACTAAAAAG
1 ATCCTGCTCTTTGAGGACTAAAAAG
560646 CGGAAGGAGA
Statistics
Matches: 341, Mismatches: 25, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
348 45 0.13
352 7 0.02
353 273 0.80
354 12 0.04
355 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (348 bp):
ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCATGCTCT
TTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGACGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCATTGGGGACTGAAAAGTGCCA
CCAACTCGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAA
CTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTG
TGTGGGCTTTAAGAAGAAAAAGC
Found at i:560491 original size:29 final size:29
Alignment explanation
Indices: 560408--560491 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 29
560398 GACTGGAAAA
560408 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
* ** *
560437 GGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
560463 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
560492 AAAAAGCATC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 11 0.28
27 6 0.15
28 6 0.15
29 11 0.28
30 3 0.08
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.27
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:574084 original size:79 final size:78
Alignment explanation
Indices: 573984--574168 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 78
573974 GTCCCTTTGA
* * * * * *
573984 AAATAACGGGGCTGCAGTATCCCCGGTTGTGAGAAATCGATGA-TTA-GAAAAAAGAATCGAGAT
1 AAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGGAAAAAAG--TCGAGAT
574047 TGGAGTATCCCCTCGG
63 TGGAGTATCCCCTCGG
* * * * * *
574063 AAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGTTGGGGTTG
1 AAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAGGAAAAAAGTCGAGATTG
574128 GAGTATCCCCTCGG
65 GAGTATCCCCTCGG
** *
574142 AGGTAACGGGGTTGGAGTATCCCCGAT
1 AAATAACAGGGTTGGAGTATCCCCGAT
574169 GAAATAACGA
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
78 1 0.01
79 75 0.87
80 3 0.03
81 7 0.08
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (78 bp):
AAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAAAAAGTCGAGATTGG
AGTATCCCCTCGG
Found at i:574176 original size:28 final size:28
Alignment explanation
Indices: 574121--574191 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
574111 GAATAAAGTT
** **
574121 GGGGTTGGAGTATCCCCTCGGAGGTAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
*
574149 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
*
574177 GAGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
574192 TCAATTGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:574269 original size:52 final size:50
Alignment explanation
Indices: 574213--574348 Score: 164
Period size: 51 Copynumber: 2.6 Consensus size: 50
574203 AAATTGATAT
* * *
574213 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
1 TTTTGGAAATAAAACCGG-GTTGGAGTATCCCCGATT-AAGGAAAATCGATG
* * **
574265 TTTTGAAAATAAAGCCAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATG
1 TTTTGGAAATAAAACC-GGGTTGGAGTATCCCCGATTAAGGAAAATCGATG
*
574316 ATTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTGGAAATAAAACC-GGGTTGGAGTATCCCC
574349 TCGGAGATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
51 39 0.54
52 31 0.43
53 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (50 bp):
TTTTGGAAATAAAACCGGGTTGGAGTATCCCCGATTAAGGAAAATCGATG
Found at i:574337 original size:51 final size:51
Alignment explanation
Indices: 574179--574348 Score: 189
Period size: 52 Copynumber: 3.3 Consensus size: 51
574169 GAAATAACGA
* * * *
574179 GGTTGGAGTATCCTCAATTGTGAAAAATTGAT-ATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATGA--TTTGGAAATAAAACCGG
* ** * * * * *
574231 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAGCCAG
1 GGTTGGAGTATCCCCGATT-GTGGAAAATTGATGATTTGGAAATAAAACCGG
*
574283 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGATGATTTGGAAATAAAACCGG
574334 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
574349 TCGGAGATAA
Statistics
Matches: 95, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 39 0.41
52 47 0.49
53 9 0.09
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGATGATTTGGAAATAAAACCGG
Found at i:574376 original size:79 final size:80
Alignment explanation
Indices: 574282--574459 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 80
574272 AATAAAGCCA
* * *
574282 GGGTTGGAGTATCCCCGATTGTG-GAAAATCGATGA-TTTGGAAATAAAACC-GGGGTTGGAGTA
1 GGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAGTA
* *
574344 TCCCCTCGGAGATAACG
64 TCCCCTCGAAAATAACG
* * *
574361 GGGTTGGAGTATCCCCGGTTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTATC
574426 CCCTCGAAAATAACG
66 CCCTCGAAAATAACG
574441 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
574460 GATTAACGGG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 40 0.46
80 46 0.53
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (80 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTATC
CCCTCGAAAATAACG
Found at i:574474 original size:27 final size:27
Alignment explanation
Indices: 574412--574489 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
574402 AATAAAGCCG
*
574412 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
*
574440 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
574467 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
574490 AAATTGATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 30 0.65
28 13 0.28
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:574559 original size:51 final size:49
Alignment explanation
Indices: 574470--574587 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 49
574460 GATTAACGGG
574470 GTTGGAGTATCCCCGA-TGAAAAATTGATGTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAAAAATAAAATCGGA
* *
574518 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-GA-AAAATTGA-TGTTTTAAAAATAAAATCGGA
574569 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
574588 CAGAGAATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
48 16 0.26
49 1 0.02
50 3 0.05
51 42 0.68
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTAAAAATAAAATCGGA
Found at i:576981 original size:32 final size:32
Alignment explanation
Indices: 576934--577094 Score: 243
Period size: 32 Copynumber: 5.1 Consensus size: 32
576924 TTCCTAGATG
* * *
576934 CATTATATCAATACAAAACTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
*
576966 CCTTGTATCGATACAACACTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
*
576998 CATTGTATCGATACAACATTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
*
577030 CA-AGTATCGATACAACACTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
* *
577061 CATTATATCGATACAACATTTATGTATCGATA
1 CATTGTATCGATACAACACTTATGTATCGATA
577093 CA
1 CA
577095 AATCGCTGAA
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 29 0.25
32 88 0.75
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CATTGTATCGATACAACACTTATGTATCGATA
Found at i:577012 original size:13 final size:13
Alignment explanation
Indices: 576956--577012 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
576946 ACAAAACTTA
*
576956 TGTATCGATACCT
1 TGTATCGATACAT
576969 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
576987 ATGTATCGATACAT
1 -TGTATCGATACAT
577001 TGTATCGATACA
1 TGTATCGATACA
577013 ACATTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.24
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:577052 original size:63 final size:63
Alignment explanation
Indices: 576934--577095 Score: 261
Period size: 63 Copynumber: 2.6 Consensus size: 63
576924 TTCCTAGATG
* * * **
576934 CATTATATCAATACAAAACTTATGTATCGATACCTTGTATCGATACAACACTTATGTATCGATA
1 CATTATATCGATACAACATTTATGTATCGATA-CAAGTATCGATACAACACTTATGTATCGATA
*
576998 CATTGTATCGATACAACATTTATGTATCGATACAAGTATCGATACAACACTTATGTATCGATA
1 CATTATATCGATACAACATTTATGTATCGATACAAGTATCGATACAACACTTATGTATCGATA
577061 CATTATATCGATACAACATTTATGTATCGATACAA
1 CATTATATCGATACAACATTTATGTATCGATACAA
577096 ATCGCTGAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 63 0.69
64 28 0.31
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (63 bp):
CATTATATCGATACAACATTTATGTATCGATACAAGTATCGATACAACACTTATGTATCGATA
Found at i:577505 original size:1 final size:1
Alignment explanation
Indices: 577499--577546 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
577489 CAGATTCTTC
* * * * *
577499 TTTTTTTTCTTTTTTTTTTGTTTTTTTGTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
577547 GAAAAAAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:577514 original size:10 final size:10
Alignment explanation
Indices: 577499--577545 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
577489 CAGATTCTTC
*
577499 TTTTTTTTCT
1 TTTTTTTTGT
577509 TTTTTTTT-T
1 TTTTTTTTGT
*
577518 GTTTTTTTGT
1 TTTTTTTTGT
*
577528 TGTTTTTTGT
1 TTTTTTTTGT
577538 TTTTTTTT
1 TTTTTTTT
577546 TGAAAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:577515 original size:11 final size:11
Alignment explanation
Indices: 577493--577546 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
577483 CTTAAGCAGA
577493 TTCTTCTTTTTT
1 TTCTT-TTTTTT
577505 TTCTTTTTTTT
1 TTCTTTTTTTT
* *
577516 TTGTTTTTTTG
1 TTCTTTTTTTT
*
577527 TTGTTTTTTGTT
1 TTCTTTTTT-TT
577539 TT-TTTTTT
1 TTCTTTTTT
577547 GAAAAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:577524 original size:18 final size:17
Alignment explanation
Indices: 577501--577546 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
577491 GATTCTTCTT
577501 TTTTTTCTTTTTTTTTTG
1 TTTTTT-TTTTTTTTTTG
*
577519 TTTTTTTGTTGTTTTTTG
1 TTTTTTT-TTTTTTTTTG
577537 TTTTTTTTTT
1 TTTTTTTTTT
577547 GAAAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:577547 original size:11 final size:11
Alignment explanation
Indices: 577499--577546 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
577489 CAGATTCTTC
*
577499 TTTTTTTTCTT
1 TTTTTTTTGTT
577510 TTTTTTTTGTT
1 TTTTTTTTGTT
*
577521 TTTTTGTTGTT
1 TTTTTTTTGTT
577532 TTTTGTTTT-TT
1 TTTT-TTTTGTT
577543 TTTT
1 TTTT
577547 GAAAAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 30 0.91
12 3 0.09
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:589158 original size:28 final size:28
Alignment explanation
Indices: 589103--589173 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
589093 GAATAAAGCT
** **
589103 GGGGTTGGAGTATCCCCTCGGAGGTAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
*
589131 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
* *
589159 GAGGTTAGAGTATCC
1 GGGGTTGGAGTATCC
589174 TCAATTGTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:589225 original size:52 final size:51
Alignment explanation
Indices: 589161--589329 Score: 189
Period size: 52 Copynumber: 3.3 Consensus size: 51
589151 GAAATAACGA
* * * **
589161 GGTTAGAGTATCCTCAATTGTCAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * *
589213 AGTTGGAGTATCCCCGATTAAG-GGAAAATTGGTGTTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATT--GTGGAAAATTGGTGTTTTGGAAATAAAATCGG
* * * *
589265 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTGG-AATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
589315 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
589330 TCGGAGATAA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
50 25 0.25
51 14 0.14
52 49 0.49
53 10 0.10
54 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:589360 original size:78 final size:79
Alignment explanation
Indices: 589262--589450 Score: 240
Period size: 80 Copynumber: 2.4 Consensus size: 79
589252 AAAATAAAGT
* * *
589262 CGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGA-TTT-GGAATAAAACC-GGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAATCAAT-ATTTTAGAAATAAAACCGGGGGTTGGAGT
* *
589324 ATCCCCTCGGAGATAA
64 ATCCCCTCGAAAATAA
* *
589340 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGA-AAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTA
**
589405 TCCGTTCGAAAATAA
65 TCCCCTCGAAAATAA
589420 CGGGGTTGGAGTATCCCCGATTATAGAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAT
589451 TAGTGTTTTG
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 32 0.33
79 9 0.09
80 51 0.53
81 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATCAATATTTTAGAAATAAAACCGGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:589422 original size:80 final size:78
Alignment explanation
Indices: 589262--589488 Score: 237
Period size: 80 Copynumber: 2.9 Consensus size: 78
589252 AAAATAAAGT
* * *
589262 CGGGGTTGGAGTATCCCCGATTGTG-GAAAATCGATGATTTGGAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATGATTTGAAATAAAACCGGGGTTGGAGTAT
* *
589326 CCCCTCGGAGATAA
65 CCCCTCGAAAATAA
* *
589340 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-ATTTTAGAAATAAAGCCGGGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATGA-TTT-GAAATAAAACC-GGGGTTGGAGT
**
589404 ATCCGTTCGAAAATAA
63 ATCCCCTCGAAAATAA
* * * * *
589420 CGGGGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGG-GAT
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAATGATTTG-AAATAAAACCGGGGTTGGAG-T
589483 ATCCCC
63 ATCCCC
589489 GATTGCAGAG
Statistics
Matches: 125, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 34 0.27
79 25 0.20
80 65 0.52
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATGATTTGAAATAAAACCGGGGTTGGAGTATC
CCCTCGAAAATAA
Found at i:594774 original size:20 final size:20
Alignment explanation
Indices: 594745--594819 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
594735 AAAAAGACAT
594745 AATGTATCGATACATT-ATA
1 AATGTATCGATACATTCATA
*
594764 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
594785 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
594805 AATGTATCGATACAT
1 AATGTATCGATACAT
594820 CAAGGTATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:594813 original size:40 final size:39
Alignment explanation
Indices: 594742--594819 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
594732 GGTAAAAAGA
*
594742 CATAATGTATCGATACATTATAGAATATATCGATACATT
1 CATAATGTATCGATACATTATAAAATATATCGATACATT
* *
594781 CATACATGTATCGATATATTGA-AAAATGTATCGATACAT
1 CATA-ATGTATCGATACATT-ATAAAATATATCGATACAT
594820 CAAGGTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 29 0.85
41 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTATAAAATATATCGATACATT
Found at i:595531 original size:28 final size:29
Alignment explanation
Indices: 595384--596277 Score: 1017
Period size: 28 Copynumber: 31.0 Consensus size: 29
595374 AAAAGAAAAT
**
595384 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAA
1 GTGCCACTGA-CTTGTG--GGCTTTGAAAGGA
* *
595415 GTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTGAAAGGA
** *
595447 GTGTTACTGACTTGCGTGGGCTTTAAAAGG-
1 GTGCCACTGACTT--GTGGGCTTTGAAAGGA
595477 GTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGGA
*
595508 -TGCCACTGACTCGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
595535 GCGCCACTGACTTGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
595563 GTACCACTGACTTGTGGGC-TTGAAAGG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
595590 GTTCCACTGACTTGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
595618 GTGCCACTGACTCGGGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
595646 GTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGGA
*
595677 GTGCCACTAACTTGTGTGGGCTTTGAAAGG-
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGGA
* *
595707 GTGCTATTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
595736 -TGCCACTGACTCGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
595763 GTGCCACTGACTTGTGGGCTTTGAAA-G-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
595790 GTGCCACTAACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
595818 GTACCACTGACTCGTGGGC-TTGAAAGG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
595845 GTGCCACTGACTTGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
595873 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
595901 GTGCCATTAACTTGCGTGGGCTTTAAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGGA
*
595932 GTACCACTGACTTGTGTAGGCTTTGAAAGG-
1 GTGCCACTGACTTGTG--GGCTTTGAAAGGA
* *
595962 GAGCCACTAACTTGTGGGCTTTGAAA-GA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
595990 GTGCCACTGACTTGTGGGCTTCGCAAGG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
596018 GTGCCACTGACTTGTGGGCTTCGAAAGG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
596046 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
596075 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
**
596104 GTGCCACTGACTTGTGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
596133 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
596162 GTGCCACTGACTTATGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
* **
596191 GTGCCACT-AGTTTGTGGGCTTTGAAAATA
1 GTGCCACTGA-CTTGTGGGCTTTGAAAGGA
596220 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA
596249 GTGCCACTGACTTTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-TTGTGGGCTTTGAAAGG
596278 GATGAACATT
Statistics
Matches: 758, Mismatches: 71, Indels: 69
0.84 0.08 0.08
Matches are distributed among these distances:
27 80 0.11
28 302 0.40
29 179 0.24
30 103 0.14
31 66 0.09
32 21 0.03
33 1 0.00
34 5 0.01
35 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:595548 original size:58 final size:56
Alignment explanation
Indices: 595385--596276 Score: 978
Period size: 58 Copynumber: 15.5 Consensus size: 56
595375 AAAGAAAATG
* * *
595385 TGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 TGCCACTGA-CTTGTG--GGCTTTG-AAAGAG-TGCCACTG--ACTTGTGGGCTTTGAAAGGA
** * *
595447 GTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 -TGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGA
* *
595508 TGCCACTGACTCGTGGGCTTTGAAAGAGCGCCACTGACTTGTGGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
595564 TACCACTGACTTGTGGGC-TTGAAAGGGTTCCACTGACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
595618 GTGCCACTGACTCGGGGGCTTTGAAA-AGGTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTTTGAAAGGA
* * * *
595677 GTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCTATTGACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
595736 TGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
595791 TGCCACTAACTCGTGGGCTTTGAAA-AGGTACCACTGACTCGTGGGC-TTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
595846 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGA
* * * *
595902 TGCCATTAACTTGCGTGGGCTTTAAAAGGAGTACCACTGACTTGTGTAGGCTTTGAAAGGGA
1 TGCCACTGACTT--GTGGGCTTTGAAA-GAGTGCCACTGACTTGTG--GGCTTTGAAA-GGA
* * * *
595964 -GCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTCGCAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
596019 TGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
**
596075 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAATA
1 -TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
596133 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTAAAAAGA
1 -TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
596191 GTGCCACT-AGTTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGA-CTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
596249 GTGCCACTGACTTTGTGGGCTTTGAAAG
1 -TGCCACTGAC-TTGTGGGCTTTGAAAG
596277 GGATGAACAT
Statistics
Matches: 724, Mismatches: 71, Indels: 73
0.83 0.08 0.08
Matches are distributed among these distances:
53 1 0.00
54 12 0.02
55 127 0.18
56 154 0.21
57 33 0.05
58 225 0.31
59 72 0.10
60 13 0.02
61 65 0.09
62 4 0.01
63 14 0.02
64 1 0.00
65 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:595843 original size:255 final size:256
Alignment explanation
Indices: 595430--596277 Score: 1185
Period size: 255 Copynumber: 3.3 Consensus size: 256
595420 CACTGACACA
** *
595430 TGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGG-GTGCCACTGACTTGCGT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGAGTGCCACTGACTT-CGT
* *
595494 GGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGAGCGCCACTGACTTGTGGGCTTTGA
63 GGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGACTTGTGGGCTTTGA
*
595559 AAAGGTACCACTGACTTGTGGGCTTGAAAGGGTTCCACTGACTTGTGGGCTTTGAAAGAGTGCCA
126 AAAGGTACCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCA
* *
595624 CTGACTCGGGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTGAAAGGAGTGCCACTAACT
191 CTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACT-ACT
595689 TG
255 TG
* * *
595691 TGTGGGCTTTG-AAAGGGTGCTATTGACTTGTGGGCTTTGAAAGGA-TGCCACTGAC-TCGTGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTCGTGGG
* *
595753 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTAACTCGTGGGCTTTGAAAAG
66 CTTTGAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG
*
595818 GTACCACTGACTCGTGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA
130 GTACCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA
* * *
595883 CTCGTGGGCTTTGAAAAGGTGCCATTAACTTGCGTGGGCTTTAAAAGGAGTACCACTGACTTG
195 CTCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACT-ACTTG
* * * *
595946 TGTAGGCTTTG-AAAGGGAGCCACTAACTTGTGGGCTTTGAAA-GAGTGCCACTGACTT-GTGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTCGTGGG
* * *
596008 CTTCGCAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
66 CTTTG-AAAGGTGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACTGACTTGTGGGCTTTGAAAA
* * *
596073 GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAATAGTGCC
129 G-GTACCACTGACTTGTGGGC-TTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCC
* * * * *
596138 ACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--ATGGGCTTTAAAAAGAGTGCCACTAG
190 ACTGACTCGTGGGCTTTGAAAAG-GTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTAC
596201 TT-
254 TTG
* *
596203 TGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTTGTGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTCGTGGG
596268 CTTTGAAAGG
66 CTTTGAAAGG
596278 GATGAACATT
Statistics
Matches: 528, Mismatches: 45, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
254 2 0.00
255 226 0.43
256 71 0.13
257 29 0.05
258 57 0.11
259 67 0.13
260 54 0.10
261 22 0.04
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (256 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTCGTGGG
CTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
TACCACTGACTTGTGGGCTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAC
TCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTACTTG
Found at i:597512 original size:1 final size:1
Alignment explanation
Indices: 597508--597576 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
597498 TTTTTTGCTA
* * * * * * * *
597508 TTTTTTCTTTTTTTTGTTTTGTTTTTTTTGTTTTGTTTTTTTTGTTTTGTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
597573 TTTT
1 TTTT
597577 GGGTGTAAAG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.01, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:597527 original size:5 final size:5
Alignment explanation
Indices: 597510--597577 Score: 79
Period size: 5 Copynumber: 14.0 Consensus size: 5
597500 TTTTGCTATT
*
597510 TTTTC TTTT- TTTTG TTTTG TTTT- TTTTG TTTTG TTTT- TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
* *
597557 TTTTTT TTTTG TTTTT TTTTG
1 -TTTTG TTTTG TTTTG TTTTG
597578 GGTGTAAAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 12 0.22
5 39 0.71
6 4 0.07
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (5 bp):
TTTTG
Found at i:597532 original size:14 final size:14
Alignment explanation
Indices: 597510--597577 Score: 104
Period size: 14 Copynumber: 5.0 Consensus size: 14
597500 TTTTGCTATT
*
597510 TTTTCTTTTTTTTG
1 TTTTGTTTTTTTTG
597524 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
597538 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
597552 TTTTGTTTTTTTT-
1 TTTTGTTTTTTTTG
*
597565 TTGT-TTTTTTTTG
1 TTTTGTTTTTTTTG
597578 GGTGTAAAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
12 8 0.16
13 3 0.06
14 40 0.78
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:610625 original size:22 final size:22
Alignment explanation
Indices: 610578--610634 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
610568 CTGCACATGT
610578 TAAAAAAA--CATGAAACATAA
1 TAAAAAAATGCATGAAACATAA
610598 TAAAAAAAATGCATGAAACATAA
1 T-AAAAAAATGCATGAAACATAA
610621 TAAAAAAATGCATG
1 TAAAAAAATGCATG
610635 GTCAAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.03
21 7 0.21
22 13 0.38
23 13 0.38
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAAAAAATGCATGAAACATAA
Found at i:611590 original size:20 final size:20
Alignment explanation
Indices: 611543--611617 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
611533 AAAAAGACAT
*
611543 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
611562 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
611583 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
611603 AATGTATCGATACAT
1 AATGTATCGATACAT
611618 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:611611 original size:40 final size:39
Alignment explanation
Indices: 611540--611617 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
611530 GGTAAAAAGA
* *
611540 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
611579 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
611618 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:612200 original size:34 final size:33
Alignment explanation
Indices: 612156--612222 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
612146 AACTTCCTAG
* *
612156 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTAGCGATACAAAGAA-AAATGTATCGATACA
*
612190 ATGTAGCGATACACAGAAAAATGTATCGATACA
1 ATGTAGCGATACAAAGAAAAATGTATCGATACA
612223 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (33 bp):
ATGTAGCGATACAAAGAAAAATGTATCGATACA
Found at i:612287 original size:32 final size:32
Alignment explanation
Indices: 612246--612316 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
612236 AGCTTCCTAG
*
612246 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
* *
612278 CGATACATTGTATCAATACGAGACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
612310 CGATACA
1 CGATACA
612317 AATCGCTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCAATACAACACTTATGTAT
Found at i:612427 original size:21 final size:21
Alignment explanation
Indices: 612354--612430 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
612344 GTTGGGACCC
* *
612354 TGTATCGATACATTAGTA-GAA
1 TGTATCGATACATT-CTACAAA
* * *
612375 TATATCGATAAATTCCACAAA
1 TGTATCGATACATTCTACAAA
612396 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
612417 TGTATCGATACATT
1 TGTATCGATACATT
612431 TGGATAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:614071 original size:27 final size:23
Alignment explanation
Indices: 614025--614094 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 23
614015 AGTTTAAAAA
*
614025 AATGGGGTTGAAGTAACCCCTCGGAAG
1 AATGGGGTTGAA-TATCCCC-C--AAG
614052 AATGGGGTTAGAATAT-CCCCAAG
1 AATGGGGTT-GAATATCCCCCAAG
*
614075 AATGGGGTTGGACTATCCCC
1 AATGGGGTT-GAATATCCCC
614095 GTGAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 17 0.45
24 3 0.08
25 1 0.03
26 3 0.08
27 11 0.29
28 3 0.08
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (23 bp):
AATGGGGTTGAATATCCCCCAAG
Found at i:614100 original size:23 final size:23
Alignment explanation
Indices: 614049--614094 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
614039 AACCCCTCGG
614049 AAGAATGGGGTTAGAATATCCCC
1 AAGAATGGGGTTAGAATATCCCC
* *
614072 AAGAATGGGGTTGGACTATCCCC
1 AAGAATGGGGTTAGAATATCCCC
614095 GTGAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (23 bp):
AAGAATGGGGTTAGAATATCCCC
Found at i:615584 original size:13 final size:13
Alignment explanation
Indices: 615566--615597 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
615556 CCGTTAGGAT
615566 AATGTATCGATAC
1 AATGTATCGATAC
615579 AATGTATCGATAC
1 AATGTATCGATAC
615592 AATGTA
1 AATGTA
615598 CCATATATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:622548 original size:21 final size:21
Alignment explanation
Indices: 622515--622559 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
622505 TTGCAAGATG
*
622515 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
622537 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
622557 AAA
1 AAA
622560 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:624381 original size:15 final size:15
Alignment explanation
Indices: 624361--624391 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
624351 TAAAAATGTC
*
624361 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
624376 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
624391 C
1 C
624392 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:626487 original size:13 final size:13
Alignment explanation
Indices: 626469--626494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
626459 ACATTTTTCT
626469 TTGTATCGATACA
1 TTGTATCGATACA
626482 TTGTATCGATACA
1 TTGTATCGATACA
626495 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:626625 original size:19 final size:22
Alignment explanation
Indices: 626601--626641 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
626591 CTTCAAAATT
626601 CTTCAAA-T-CTT-GTTTTTCA
1 CTTCAAATTACTTCGTTTTTCA
626620 CTTCAAATTACTTCGTTTTTCA
1 CTTCAAATTACTTCGTTTTTCA
626642 TCAAAACCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 3 0.16
22 8 0.42
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (22 bp):
CTTCAAATTACTTCGTTTTTCA
Found at i:629062 original size:32 final size:33
Alignment explanation
Indices: 629021--629082 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
629011 GCCAAACTTG
* **
629021 TATCGATACACCAAGTA-TGTATCGATACAATA
1 TATCGATACACAAAAAATTGTATCGATACAATA
629053 TATCGATACACAAAAAATTGTATCGATACA
1 TATCGATACACAAAAAATTGTATCGATACA
629083 TTGGCTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (33 bp):
TATCGATACACAAAAAATTGTATCGATACAATA
Found at i:634778 original size:52 final size:51
Alignment explanation
Indices: 634711--634842 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 51
634701 TGCCTGCATT
* *
634711 TATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATG
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGT-AAAAACCAAGAATG
* * * *
634763 TATCAATACAATGAAGAATGTGTCAATACATTTGGGTTAAAACCAAGAATG
1 TATCGATACAATGAAGAATGTATCGATACATTTGGGTAAAAACCAAGAATG
* *
634814 TATCGATATAATGAAAAATGTATCGATAC
1 TATCGATACAATGAAGAATGTATCGATAC
634843 GTTTTCATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 36 0.52
52 33 0.48
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (51 bp):
TATCGATACAATGAAGAATGTATCGATACATTTGGGTAAAAACCAAGAATG
Found at i:635034 original size:21 final size:21
Alignment explanation
Indices: 634993--635034 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
634983 GTCGGGACCT
*
634993 TGTATCGATACATTTAAGAAA
1 TGTATCGATACATGTAAGAAA
*
635014 TGTATCGATACATGTAGGAAA
1 TGTATCGATACATGTAAGAAA
635035 AATTGTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATGTAAGAAA
Found at i:637094 original size:237 final size:237
Alignment explanation
Indices: 636679--637130 Score: 868
Period size: 237 Copynumber: 1.9 Consensus size: 237
636669 GATGGGAAAC
*
636679 ATAGAGATATAAAATGCTCTCTAGATTTCGCTTTGAAAACTGGATATTCCGTGTCCAGCACTGGA
1 ATAGAGATATAAAATGATCTCTAGATTTCGCTTTGAAAACTGGATATTCCGTGTCCAGCACTGGA
*
636744 GAGATACCGACACGGAACATTGCCTTATGGTTTTTGTAAACCTATTTTAAAACATGAATGCCATC
66 GAGATACCGACACGGAACATTGCCTTATGGTTTTTGTAAACCAATTTTAAAACATGAATGCCATC
636809 AAGATTAATAAGGAGGAAGCATGCTGACAAGGCAATAGAAGCATATGATATTTCATGTAAATGAA
131 AAGATTAATAAGGAGGAAGCATGCTGACAAGGCAATAGAAGCATATGATATTTCATGTAAATGAA
636874 TTATCGAGGTCAAACAAGGAAGATATTCCGTGTAAATGAATT
196 TTATCGAGGTCAAACAAGGAAGATATTCCGTGTAAATGAATT
636916 ATAGAGATATAAAATGATCTCTAGATTTCGCTTTGAAAACTGGATATTCCGTGTCCAGCACTGGA
1 ATAGAGATATAAAATGATCTCTAGATTTCGCTTTGAAAACTGGATATTCCGTGTCCAGCACTGGA
*
636981 GAGATACCGACACGGAACATTGCCTTATGGTTTTTGTAAACCAATTTTAAGACATGAATGCCATC
66 GAGATACCGACACGGAACATTGCCTTATGGTTTTTGTAAACCAATTTTAAAACATGAATGCCATC
637046 AAGATTAATAAGGAGGAAGCATGCTGACAAGGCAATAGAAGCATATGATATTTCATGTAAATGAA
131 AAGATTAATAAGGAGGAAGCATGCTGACAAGGCAATAGAAGCATATGATATTTCATGTAAATGAA
*
637111 TTATTGAGGTCAAACAAGGA
196 TTATCGAGGTCAAACAAGGA
637131 TGAAGAAAGA
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
237 211 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (237 bp):
ATAGAGATATAAAATGATCTCTAGATTTCGCTTTGAAAACTGGATATTCCGTGTCCAGCACTGGA
GAGATACCGACACGGAACATTGCCTTATGGTTTTTGTAAACCAATTTTAAAACATGAATGCCATC
AAGATTAATAAGGAGGAAGCATGCTGACAAGGCAATAGAAGCATATGATATTTCATGTAAATGAA
TTATCGAGGTCAAACAAGGAAGATATTCCGTGTAAATGAATT
Found at i:639544 original size:52 final size:52
Alignment explanation
Indices: 639464--639592 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 52
639454 CGAAATATAT
* * *
639464 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTAGTC
1 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* ** * *
639516 AAATTTG-TCTGTATGTATCGATGGATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCT-TGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
639568 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCTTGCATGTATCGATACA
639593 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 63 0.98
53 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:639675 original size:13 final size:13
Alignment explanation
Indices: 639657--639740 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
639647 AGCTTCATAG
639657 CGATACATTGTAT
1 CGATACATTGTAT
639670 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
639689 CGATACATTGTAT
1 CGATACATTGTAT
639702 CGATACAAAACTTATGTAT
1 CGATAC---A--T-TGTAT
639721 CGATACATTGTAT
1 CGATACATTGTAT
639734 CGATACA
1 CGATACA
639741 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 2 0.03
16 4 0.07
17 2 0.03
18 1 0.02
19 21 0.36
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:639689 original size:19 final size:19
Alignment explanation
Indices: 639665--639761 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
639655 AGCGATACAT
639665 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
639684 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
639697 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
639716 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
639729 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
639748 TGTATCAATACAAA
1 TGTATCGATACAAA
639762 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 34 0.53
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:639698 original size:32 final size:32
Alignment explanation
Indices: 639657--639759 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
639647 AGCTTCATAG
639657 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
639689 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
639721 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
639753 CAATACA
1 CGATACA
639760 AATCGTTGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:640668 original size:101 final size:100
Alignment explanation
Indices: 640540--641629 Score: 1330
Period size: 101 Copynumber: 11.1 Consensus size: 100
640530 CTTAGGAATG
* * *
640540 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTGAAAGATGACGAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTT-AAAGATGACAAAGG
*
640605 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
640641 TTAAAGGTGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
*
640706 TGCCAATATGCTGATTCAAGGTCAGCGATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
640742 TTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
*
640807 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
640843 TTAAACATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
* *
640908 CGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * **
640944 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTTAAACTTAAAAGATGACAAA
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA-TT-GGCTT-AAAGATGACAAA
*
641009 GGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
63 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
641047 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---A
1 TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAA
* * *
641109 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGAAC
62 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
641148 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATAGATGA-AA
1 TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAA
* * *
641212 AAGTCGCCAATATACTGATTCAAGGCCAGTGATATTGGAC
62 AGGT-GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
641252 TTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
641314 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
641350 TT--A-A--AA-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AA-A-GACTAAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
*
641406 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
641442 TT----A--AAGGTGCTAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGATG---AAGG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTTAAAGATGACAAAGG
* *
641498 TGTCAATATGCTGATTCAAGGCTAGCGATATTGGA-
65 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
641533 TT-TA-A--AA-GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAA-A-GAC-AAGAT
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATGACAAAGGT
*
641590 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGC
66 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
641625 TTAAA
1 TTAAA
641630 AGAAGATGCC
Statistics
Matches: 897, Mismatches: 70, Indels: 52
0.88 0.07 0.05
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 44 0.05
92 192 0.21
93 8 0.01
94 1 0.00
95 2 0.00
96 1 0.00
98 37 0.04
99 7 0.01
100 1 0.00
101 454 0.51
102 7 0.01
103 62 0.07
104 45 0.05
105 5 0.01
106 29 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (100 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTAAAGATGACAAAGGT
GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:640672 original size:49 final size:49
Alignment explanation
Indices: 640540--641629 Score: 1205
Period size: 49 Copynumber: 22.1 Consensus size: 49
640530 CTTAGGAATG
* * * *
640540 TTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-T
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
640588 TTGAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGAT---GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
640641 TTAAAGGTGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
640690 TTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGAC
1 TTAAAGAT---GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
640742 TTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
640791 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
640843 TTAAACATGAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
640892 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * **
640944 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTTAAAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA-TTGGAC
*
640994 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
641047 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
641099 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGAAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
641148 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
641200 TTATAGATGAAAAAGTCGCCAATATACTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG--AAGGT-GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
641252 TTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
** *
641301 TTAAAGACAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
641350 TT--A-A--AA-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
641393 TTAAAGACT-AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 TTAAAGA-TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
641442 TT----A--AAGGTGCTAATGTGCTGATTAAAGGCCAGCGACATTGGTC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
641485 TTAAAGATGAAGGTGTCAATATGCTGATTCAAGGCTAGCGATATTGGA-
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * **
641533 TT-TA-A--AA-GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTT
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
641577 TTAAAGA-CAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
641625 TTAAA
1 TTAAA
641630 AGAAGATGCC
Statistics
Matches: 888, Mismatches: 114, Indels: 80
0.82 0.11 0.07
Matches are distributed among these distances:
43 101 0.11
44 6 0.01
45 3 0.00
46 4 0.00
47 5 0.01
48 42 0.05
49 353 0.40
50 10 0.01
51 11 0.01
52 316 0.36
53 8 0.01
54 29 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:641395 original size:92 final size:92
Alignment explanation
Indices: 641165--641631 Score: 632
Period size: 92 Copynumber: 5.0 Consensus size: 92
641155 TGACAAAGGC
* * * *
641165 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATAGATGA-AAAAGTCGCCAATATACTG
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-A-A-GACAAAAGT-GCCAATATGCTG
*
641229 ATTCAAGGCCAGTGATATTGGACTTAAAAATGAAGGT
62 ATTCAAGGCCAGCGATATTGGACTT---AA--AA-GT
641266 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
641331 AAGGCCAGCGATATTGGACTTAAAAGT
66 AAGGCCAGCGATATTGGACTTAAAAGT
* * *
641358 GCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACTAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
* *
641423 AAGGCTAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAAGT
* * ** * *
641450 GCTAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
* *
641515 AAGGCTAGCGATATTGGATTTAAAAGT
66 AAGGCCAGCGATATTGGACTTAAAAGT
* * *
641542 GCCAATGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACAAGA-TGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
*
641606 AAGGCCAGCGATATTGGGCTTAAAAG
66 AAGGCCAGCGATATTGGACTTAAAAG
641632 AAGATGCCAC
Statistics
Matches: 335, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
91 39 0.12
92 212 0.63
93 2 0.01
95 2 0.01
98 37 0.11
99 7 0.02
100 1 0.00
101 35 0.10
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAAGT
Found at i:641510 original size:141 final size:140
Alignment explanation
Indices: 641165--641628 Score: 457
Period size: 141 Copynumber: 3.3 Consensus size: 140
641155 TGACAAAGGC
*
641165 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTATAGATGAAAAAGTCGCCAATATACTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AGATG---AAGT-GCCAATATGCTGA
** * *
641230 TTCAAGGCCAGTGATATTGGACTTAAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
61 TTCAAGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
*
641295 TTGGTCTTAAAGACAAAAGT
126 TTGGACTTAAAG-----AGT
*
641315 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-A--AAGTGCCAATGTGCTGATTCAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATATGCTGATTCAA
* * * *
641376 GGCCAACGACATTGGTCTTAAAGACT-AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGG
66 GGCCAACGACATTGGACTTAAA-AATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
641440 ACTTAAAG-GT
130 ACTTAAAGAGT
* * * * * *
641450 GCTAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAA-GTGCCAATATGCTGATTC
* * * * * *
641515 AAGGCTAGCGATATTGGA-TT--TAA--AA-GTGCCAATGTGCTGATTCAAGGCCAGCAACATTG
64 AAGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
**
641574 GTTTTAAAGACAAGAT
129 GACTTAAAG---AG-T
*
641590 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
641629 AAGAAGATGC
Statistics
Matches: 267, Mismatches: 35, Indels: 35
0.79 0.10 0.10
Matches are distributed among these distances:
135 71 0.27
136 2 0.01
137 2 0.01
138 1 0.00
139 3 0.01
140 37 0.14
141 106 0.40
142 6 0.02
147 1 0.00
148 1 0.00
150 37 0.14
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (140 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGTGCCAATATGCTGATTCAA
GGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGA
CTTAAAGAGT
Found at i:641824 original size:31 final size:30
Alignment explanation
Indices: 641697--641934 Score: 175
Period size: 31 Copynumber: 7.9 Consensus size: 30
641687 TGAAAAGGAG
641697 AAGATGCCACGGAGTTGTGGAC-TT--AAA
1 AAGATGCCACGGAGTTGTGGACTTTGAAAA
* * *
641724 AGGGTGCCACGAAGTTGTGGAC-TT--AAA
1 AAGATGCCACGGAGTTGTGGACTTTGAAAA
* * *
641751 AGGATGCCATGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGATGCCACGGAGTTGTGGACTTTG---A-AAA
* *
641785 AAGGTGCCACGGAGTTGTGGGCTTTGAAGAA
1 AAGATGCCACGGAGTTGTGGACTTTGAA-AA
* *
641816 AAGATGCCACTGAGTCGTGGACTTTGAAAA
1 AAGATGCCACGGAGTTGTGGACTTTGAAAA
* * *
641846 GAGATTGCCACTGAGTCGTGGACTTTGAAAA
1 AAGA-TGCCACGGAGTTGTGGACTTTGAAAA
* * *
641877 GAGATTGCCACTGAGTCGTGGACTTTGGAGAAA
1 AAGA-TGCCACGGAGTTGTGGACTTT-GA-AAA
** *
641910 AA-ATGCCACTTAGTCGTGGACTTTG
1 AAGATGCCACGGAGTTGTGGACTTTG
641935 GGACAAAATG
Statistics
Matches: 183, Mismatches: 17, Indels: 19
0.84 0.08 0.09
Matches are distributed among these distances:
27 42 0.23
28 2 0.01
30 7 0.04
31 99 0.54
32 3 0.02
33 4 0.02
34 26 0.14
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAGATGCCACGGAGTTGTGGACTTTGAAAA
Found at i:641846 original size:65 final size:61
Alignment explanation
Indices: 641697--642023 Score: 205
Period size: 62 Copynumber: 5.4 Consensus size: 61
641687 TGAAAAGGAG
* * * * *
641697 AAGATGCCACGGAGTTGTGGAC-TT-AAAAG--GGTGCCACGAAGTTGTGGAC-TT--AAA
1 AAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAA
* * * * *
641751 AGGATGCCA-TGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAGATGCCACT-GAGTCGTGGACTTTGAAAAG--AAA-GTGCCACGGAGTCGTGGACTTTGAA-A
641815 A
61 A
* * *
641816 AAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTCGTGGACTTTGAAAA
1 AAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAA
* ** * *
641877 GAGATTGCCACTGAGTCGTGGACTTTGGAGAAA-AAA-TGCCACTTAGTCGTGGACTTTGGGACA
1 AAGA-TGCCACTGAGTCGTGGACTTT-GA-AAAGAAAGTGCCACGGAGTCGTGGACTTT-GAAAA
* * * * * * * * *
641940 AA-ATGCCACTGAGTCATGGGCTTTGGGACA-AAA-TGCCACTGAGTCATGGGCTTTGGGAGA
1 AAGATGCCACTGAGTCGTGGACTTT-GAAAAGAAAGTGCCACGGAGTCGTGGACTTT-GAAAA
*
642000 AA-ATGCCCCTGAGTCGTGGACTTT
1 AAGATGCCACTGAGTCGTGGACTTT
642024 AAGAAGGTAT
Statistics
Matches: 225, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
54 18 0.08
55 2 0.01
56 5 0.02
60 49 0.22
61 43 0.19
62 65 0.29
63 10 0.04
64 4 0.02
65 28 0.12
66 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (61 bp):
AAGATGCCACTGAGTCGTGGACTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAA
Found at i:641945 original size:30 final size:30
Alignment explanation
Indices: 641789--642023 Score: 244
Period size: 31 Copynumber: 7.7 Consensus size: 30
641779 AAGAAAAAGG
* * * * *
641789 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-GGAAAAAA
641820 TGCCACTGAGTCGTGGACTTT--GAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAAA-A-A
641850 TTGCCACTGAGTCGTGGACTTT--GAAAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGGGAAAA-A-A
641881 TTGCCACTGAGTCGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTTGG-GAAAAAA
* *
641913 TGCCACTTAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAAA
* * *
641943 TGCCACTGAGTCATGGGCTTTGGGACAAAA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAAA
* * *
641973 TGCCACTGAGTCATGGGCTTTGGGAGAAAA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAAA
*
642003 TGCCCCTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
642024 AAGAAGGTAT
Statistics
Matches: 185, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.03
30 81 0.44
31 92 0.50
32 1 0.01
33 1 0.01
34 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGGGAAAAAA
Found at i:641996 original size:60 final size:61
Alignment explanation
Indices: 641819--642023 Score: 231
Period size: 60 Copynumber: 3.4 Consensus size: 61
641809 TGAAGAAAAG
* * *
641819 ATGCCACTGAGTCGTGGACTTT-GA-AAAGAGATTGCCACTGAGTCGTGGACTTT--GAAAAGA
1 ATGCCACTGAGTCGTGGACTTTGGAGAAA-A-AATGCCACTGAGTCATGGACTTTGGGACAA-A
* *
641879 GATTGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTTAGTCGTGGACTTTGGGACAAA
1 -A-TGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTGGGACAAA
* * * * *
641942 ATGCCACTGAGTCATGGGCTTTGG-GACAAAATGCCACTGAGTCATGGGCTTTGGGAGAAA
1 ATGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTGGGACAAA
*
642002 ATGCCCCTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTT
642024 AAGAAGGTAT
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
60 50 0.40
61 22 0.17
62 43 0.34
63 4 0.03
64 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (61 bp):
ATGCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTGGGACAAA
Found at i:643321 original size:13 final size:13
Alignment explanation
Indices: 643303--643344 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
643293 GCCTTCGCAC
643303 TTTTTTTGTGTGT
1 TTTTTTTGTGTGT
643316 TTTTTTT-TGTGACT
1 TTTTTTTGTGTG--T
*
643330 TTTGTTTGTGTGT
1 TTTTTTTGTGTGT
643343 TT
1 TT
643345 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 7 0.28
15 4 0.16
ACGTcount: A:0.02, C:0.02, G:0.21, T:0.74
Consensus pattern (13 bp):
TTTTTTTGTGTGT
Found at i:643339 original size:25 final size:26
Alignment explanation
Indices: 643301--643357 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
643291 TTGCCTTCGC
* **
643301 ACTTTTTTTGTGTGT-TTTTTTTTGTG
1 ACTTTTGTTGTGTGTGTTTACTTT-TG
643327 ACTTTTGTT-TGTGTGTTTACTTTTG
1 ACTTTTGTTGTGTGTGTTTACTTTTG
643352 ACTTTT
1 ACTTTT
643358 TCATCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.07, C:0.07, G:0.18, T:0.68
Consensus pattern (26 bp):
ACTTTTGTTGTGTGTGTTTACTTTTG
Found at i:643350 original size:27 final size:26
Alignment explanation
Indices: 643301--643358 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
643291 TTGCCTTCGC
**
643301 ACTTTTTTTGTGTGTTTTTTTTTGTG
1 ACTTTTTTTGTGTGTTTACTTTTGTG
643327 ACTTTTGTTTGTGTGTTTAC-TTT-TG
1 ACTTTT-TTTGTGTGTTTACTTTTGTG
643352 ACTTTTT
1 ACTTTTT
643359 CATCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 1 0.03
25 8 0.28
26 9 0.31
27 11 0.38
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (26 bp):
ACTTTTTTTGTGTGTTTACTTTTGTG
Found at i:650431 original size:52 final size:52
Alignment explanation
Indices: 650233--650413 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
650223 TGAAATATGA
* *
650233 AAATTTGTCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
650285 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACCTCTGGGC
1 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
650337 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATATATCTAGGC
1 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
650389 AAATTTGCCTGTATGTATTGATACA
1 AAATTTGCCTGTATGTATCGATACA
650414 AAGATCAGTG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:650440 original size:13 final size:13
Alignment explanation
Indices: 650422--650446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
650412 CAAAGATCAG
650422 TGTATCGATACAA
1 TGTATCGATACAA
650435 TGTATCGATACA
1 TGTATCGATACA
650447 TTTAAGCAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:650509 original size:13 final size:13
Alignment explanation
Indices: 650491--650542 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
650481 AGCTTCGTAG
650491 CGATACATTGTAT
1 CGATACATTGTAT
650504 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
650523 CGATACATTGTAT
1 CGATACATTGTAT
650536 CGATACA
1 CGATACA
650543 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:650523 original size:19 final size:19
Alignment explanation
Indices: 650499--650563 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
650489 AGCGATACAT
650499 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
650518 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
650531 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
650550 TGTATCGATACAAA
1 TGTATCGATACAAA
650564 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:650532 original size:32 final size:32
Alignment explanation
Indices: 650491--650561 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
650481 AGCTTCGTAG
650491 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
650523 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
650555 CGATACA
1 CGATACA
650562 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:652593 original size:48 final size:48
Alignment explanation
Indices: 652524--652620 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
652514 TGCAATTGTT
*
652524 AAAAAATAGCTCGAACTAGGCAAAAATGCCTTGGAGTATCGATACATA
1 AAAAAATAGCTCAAACTAGGCAAAAATGCCTTGGAGTATCGATACATA
* *
652572 AAAAAATGGCTCAAACTAGGCAAAAATGCCTTGGTGTATCGATACATA
1 AAAAAATAGCTCAAACTAGGCAAAAATGCCTTGGAGTATCGATACATA
652620 A
1 A
652621 CATTATGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (48 bp):
AAAAAATAGCTCAAACTAGGCAAAAATGCCTTGGAGTATCGATACATA
Found at i:653652 original size:67 final size:67
Alignment explanation
Indices: 653564--653960 Score: 402
Period size: 67 Copynumber: 5.9 Consensus size: 67
653554 TGGATGGGTA
* * * *
653564 CCACCAACTTGCGTGGGCTTTGAGGTAGGTAAGCATCCTACTCTTTGAGGACTGAGGTAAGTAGG
1 CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGAGGTAGGTAGG
653629 TG
66 TG
* * * *
653631 CCACCAGCTTGTGTGGACTTTGAGATAGGTAAGCGTTCTACTCTTTGAGGACTGAGGGTAAGTAG
1 CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGA-GGTAGGTAG
653696 GTG
65 GTG
* * * *
653699 CCA-CAGCTTGTGTGGGCTTTGAGATGGGTAAGCATTCTACTCTTTGAGGACAGATGGTAGGTAA
1 CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGA-GGTAGGTAG
653763 GTG
65 GTG
** * * * * * * *
653766 CCATAAGCTTATTTGGGCTTTGAAATGGGTAAGCATCTTGCTCTTCGAGGACTGAGGTAGGTAGG
1 CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGAGGTAGGTAGG
653831 TG
66 TG
* * * * * * * **
653833 CCACTAGCTTGTGAGGGCTTTGAGA-AGGCTAAACGTCTTCCTTTTTGATAACTGAGGTAGGTAG
1 CCACCAGCTTGTGTGGGCTTTGAGATAGG-TAAGCATCCTACTCTTTGAGGACTGAGGTAGGTAG
653897 GTG
65 GTG
** * * * * * * *
653900 CCATTAGCTTTTGTGGGCTTTGAAATGGGTAAGTATCCTTCTCTTTAAGGGCTGAGGTAGG
1 CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGAGGTAGG
653961 ATTTAAATAT
Statistics
Matches: 274, Mismatches: 52, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
66 2 0.01
67 213 0.78
68 59 0.22
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (67 bp):
CCACCAGCTTGTGTGGGCTTTGAGATAGGTAAGCATCCTACTCTTTGAGGACTGAGGTAGGTAGG
TG
Found at i:656926 original size:155 final size:152
Alignment explanation
Indices: 656765--657079 Score: 402
Period size: 154 Copynumber: 2.1 Consensus size: 152
656755 CCTCTAAAAA
** * * *
656765 TTTTTTGTTTTCAAAAAATAGAGTTTTTTA-TTCTATAAATATTTTC-GAGGGGATTTTTCTCGG
1 TTTTTTGTTCCCAAAAAACAAAGTTTTTTACTT-TATAAAT-TTTTCTG-GGGGATTTTTCTC-A
* * *
656828 TTT-AAAATTTTTAAAATTCATCTAATATTGTCATTAAATTCATATTAAATCAGTTTTAAAAAAT
62 TTTCAAAATTTTTAAAATTCATCAAATATTATCATTAAATTCATATTAAATCAATTTTAAAAAAT
**
656892 TCAATTTATTTTATGTGTTTTAGAAATT
127 TCAATTTATTTTATGAATTTT-G-AATT
* ** *
656920 TTTTTTGTTCCCAAAATACAAAGTTTTTTACTTTATAAATTTTTCTGTTGTATTTTTCTCATTTC
1 TTTTTTGTTCCCAAAAAACAAAGTTTTTTACTTTATAAATTTTTCTGGGGGATTTTTCTCATTTC
* * *
656985 AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTGAAAAATTCAA
66 AAAATTTTTAAAATTCATCAAATATTATCATTAAATTCATATTAAATCAATTTTAAAAAATTCAA
657050 TTTATTTTATGAATTTTGAATT
131 TTTATTTTATGAATTTTGAATT
657072 TTTTTTGT
1 TTTTTTGT
657080 ATATATCAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
152 12 0.09
153 4 0.03
154 89 0.64
155 33 0.24
156 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (152 bp):
TTTTTTGTTCCCAAAAAACAAAGTTTTTTACTTTATAAATTTTTCTGGGGGATTTTTCTCATTTC
AAAATTTTTAAAATTCATCAAATATTATCATTAAATTCATATTAAATCAATTTTAAAAAATTCAA
TTTATTTTATGAATTTTGAATT
Found at i:667694 original size:13 final size:13
Alignment explanation
Indices: 667676--667702 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
667666 ACAATTGTCC
667676 ATGTATCGATACA
1 ATGTATCGATACA
667689 ATGTATCGATACA
1 ATGTATCGATACA
667702 A
1 A
667703 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:668955 original size:31 final size:31
Alignment explanation
Indices: 668920--669046 Score: 112
Period size: 32 Copynumber: 4.0 Consensus size: 31
668910 CCAATGACGT
* *
668920 TGGGCTTAGAAAGAGATGCCACCAACTTGTG
1 TGGGCTTAGAAAGGGTTGCCACCAACTTGTG
* * * *
668951 TGGGCTTTTGAGAGGGTTGCCACTAACTTATG
1 TGGGC-TTAGAAAGGGTTGCCACCAACTTGTG
* * *
668983 TGGGTTTTTAGAAAGGGTTGCCACCGACTTGTA
1 TGGG--CTTAGAAAGGGTTGCCACCAACTTGTG
**
669016 TGGGCTTCAGAAA-GGTTGCCACTGACTTGTG
1 TGGGCTT-AGAAAGGGTTGCCACCAACTTGTG
669047 AGCTTTAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
31 23 0.30
32 29 0.38
33 24 0.32
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (31 bp):
TGGGCTTAGAAAGGGTTGCCACCAACTTGTG
Found at i:668979 original size:32 final size:31
Alignment explanation
Indices: 668936--669046 Score: 105
Period size: 33 Copynumber: 3.5 Consensus size: 31
668926 TAGAAAGAGA
668936 TGCCACCAACTTGTGTGGGCTTTTGAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGA-AGGGT
* * *
668968 TGCCACTAACTTATGTGGGTTTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTT-G-AAGGGT
* * ** *
669001 TGCCACCGACTTGTATGGGCTTCAGAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAGGGT
**
669032 TGCCACTGACTTGTG
1 TGCCACCAACTTGTG
669047 AGCTTTAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
31 18 0.28
32 22 0.34
33 23 0.36
34 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.32
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAGGGT
Found at i:669005 original size:33 final size:33
Alignment explanation
Indices: 668925--669037 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 33
668915 GACGTTGGGC
* * *
668925 TTAGAAAGAGATGCCACCAACTTGTGTGGGCTT
1 TTAGAAAGGGTTGCCACCAACTTATGTGGGCTT
* * *
668958 TT-GAGAGGGTTGCCACTAACTTATGTGGGTTT
1 TTAGAAAGGGTTGCCACCAACTTATGTGGGCTT
* * *
668990 TTAGAAAGGGTTGCCACCGACTTGTATGGGC-T
1 TTAGAAAGGGTTGCCACCAACTTATGTGGGCTT
*
669022 TCAGAAA-GGTTGCCAC
1 TTAGAAAGGGTTGCCAC
669038 TGACTTGTGA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
31 9 0.14
32 33 0.50
33 24 0.36
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (33 bp):
TTAGAAAGGGTTGCCACCAACTTATGTGGGCTT
Found at i:669201 original size:115 final size:114
Alignment explanation
Indices: 668949--669519 Score: 617
Period size: 115 Copynumber: 4.9 Consensus size: 114
668939 CACCAACTTG
* * * * *
668949 TGTGGGCTTTTGAGAGGGTTGCCACTAACTTATGTGGGTTTTTAGAAAGGGTTGCCACCGACTTG
1 TGTGGGC-TTTAAAAGGGGTGCCACTAAC-T-TGTGGG-CTTT-GAAAGGG-TGCCACTGACTTG
* * *
669014 TATGGGCTTCAGAAAGGTTGCCACTGACTTGTGAGCTTT-AAAAAGGTGCCACTGACT
60 --TGGGCTTTAAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
* * * *
669071 TGTGGGCTTTGAAAA-GGGTGTCATTCACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGC
1 TGTGGGCTTT-AAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
669135 TTTGAAAAAGGTGCCACTGACTTGTGGGTTTTAAAAAAGGTGCCACTAACT
65 TTT-AAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
* * * * *
669186 TGTGGTCTTTCAAAA-GGGTGCCACTAACTTGTGGACTTTAGAAAGGTTGCTACTAACTTGTGGG
1 TGTGGGCTTT-AAAAGGGGTGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGG
* *
669250 CTTTAAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACT
64 CTTTAAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
* * * * *
669302 GGTAGGCTTTAAAAGGGGTGCCACTAACTTGTGGGCTTTAAAATGGTGCCACCGACTTGTGGGCT
1 TGTGGGCTTTAAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * *
669367 TTAAAATGGGTGCCACTGACTTGTAGGCTTTGAAAAGGGTGCCACTGACT
66 TTAAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
* * * *
669417 TGTGGGCTTTAAAAGGGGTGCCACTAACTTGTGGGTTTTAAAATGGTGACACTGACTTGTGGGCT
1 TGTGGGCTTTAAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* ** * *
669482 TTGGAAGGGGTGCCACTCACTTATGGGCTTTGACAAAA
66 TT-AAAAAGGTGCCACTGACTTGTGGGCTTTGA-AAAA
669520 ATTTCTTGAC
Statistics
Matches: 387, Mismatches: 53, Indels: 24
0.83 0.11 0.05
Matches are distributed among these distances:
114 26 0.07
115 216 0.56
116 107 0.28
117 7 0.02
118 3 0.01
119 6 0.02
120 1 0.00
121 12 0.03
122 9 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (114 bp):
TGTGGGCTTTAAAAGGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
TTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
Found at i:669513 original size:29 final size:29
Alignment explanation
Indices: 668989--669512 Score: 581
Period size: 29 Copynumber: 18.1 Consensus size: 29
668979 TATGTGGGTT
* *
668989 TTTAGAAAGGGTTGCCACCGACTTGTATGGGC
1 TTTAAAAAGGG-TGCCACTGACTTG--TGGGC
* * * *
669021 TTCAGAAAGGTTGCCACTGACTTGTGAGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
669050 TTTAAAAA-GGTGCCACTGACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* * * *
669078 TTTGAAAAGGGTGTCATTCACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* *
669107 TTT-GAAAGGGTGCCACTGACTTATGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
*
669135 TTTGAAAAA-GGTGCCACTGACTTGTGGGT
1 TTT-AAAAAGGGTGCCACTGACTTGTGGGC
* * *
669164 TTTAAAAAAGGTGCCACTAACTTGTGGTC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* * *
669193 TTTCAAAAGGGTGCCACTAACTTGTGGAC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* * * *
669222 TTTAGAAAGGTTGCTACTAACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
*
669251 TTTAAAAAGGGTGCCACTAACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* * *
669280 TTTGAAAAGGGTGCCACTGACTGGTAGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* *
669309 TTTAAAAGGGGTGCCACTAACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* *
669338 TTT-AAAATGGTGCCACCGACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* *
669366 TTTAAAATGGGTGCCACTGACTTGTAGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
*
669395 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* *
669424 TTTAAAAGGGGTGCCACTAACTTGTGGG-
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
* * *
669452 TTTTAAAATGGTGACACTGACTTGTGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
** * * *
669481 TTTGGAAGGGGTGCCACTCACTTATGGGC
1 TTTAAAAAGGGTGCCACTGACTTGTGGGC
669510 TTT
1 TTT
669513 GACAAAAATT
Statistics
Matches: 417, Mismatches: 69, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
28 100 0.24
29 293 0.70
30 3 0.01
31 12 0.03
32 9 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TTTAAAAAGGGTGCCACTGACTTGTGGGC
Found at i:669550 original size:25 final size:26
Alignment explanation
Indices: 669519--669582 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
669509 CTTTGACAAA
669519 AATTTCTTGACAAAGTTTC-TGACGA-
1 AATTTCTTGACAAAG-TTCGTGACGAT
*
669544 ACA-TTCTAGACAAAAGTTCGTGACGAT
1 A-ATTTCTTGAC-AAAGTTCGTGACGAT
669571 AATTTCTTGACA
1 AATTTCTTGACA
669583 GCCATTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
25 11 0.34
26 13 0.41
27 8 0.25
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (26 bp):
AATTTCTTGACAAAGTTCGTGACGAT
Done.