Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 56 of 132
Found at i:15677707 original size:20 final size:20
Alignment explanation
Indices: 15677674--15677712 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15677664 TCATTTTTCC
* *
15677674 CTTCTTTTTTTTAAAAAAAG
1 CTTCTCTTTCTTAAAAAAAG
15677694 CTTCTCTTTCTTAAAAAAA
1 CTTCTCTTTCTTAAAAAAA
15677713 ATGCTCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (20 bp):
CTTCTCTTTCTTAAAAAAAG
Found at i:15678778 original size:17 final size:17
Alignment explanation
Indices: 15678742--15678846 Score: 111
Period size: 17 Copynumber: 6.1 Consensus size: 17
15678732 TGGAACTTCT
* *
15678742 TTTAAATTTTTAATTAAA
1 TTTAAA-TTTAAAATAAA
15678760 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
15678777 TTAAAATTTAAAATGAA
1 TTTAAATTTAAAATAAA
* *
15678794 CTTAAATTCAAAATAAA
1 TTTAAATTTAAAATAAA
* *
15678811 TTTAAATTTATACTAAA
1 TTTAAATTTAAAATAAA
* *
15678828 TTCAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
15678845 TT
1 TT
15678847 AAAAATGAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
17 65 0.92
18 6 0.08
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15679636 original size:208 final size:209
Alignment explanation
Indices: 15679203--15679888 Score: 840
Period size: 208 Copynumber: 3.3 Consensus size: 209
15679193 GAATTTCACT
* * * * * * *
15679203 AAGAAGAC-AGATTTGGTTCACTTCTCTGCATTTCGTCAGGAAGATGGCCACTTTATTGCTTCGG
1 AAGAAGACGA-ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGA
* * * * * * * *
15679267 TCTG-CTTTTCAATATCTTATCAGGAAGATGGTGTTTGAAGTTTCGCTCACATTGAGCTTTGTTT
65 CCTGCCTCTT-AGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAGCTTTGTTT
15679331 TATTGATTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTTTAATCCGC
129 TATTGATTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTTTAATCCGC
*
15679396 TTCTCTGTATTTCATC
194 TTCTCTGTATCTCATC
* * * * *
15679412 AGGAAGATGTATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGAC
1 AAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGAC
*
15679477 CTGCCTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAG-TTTGTTTCA
66 CTGCCTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAGCTTTGTTTTA
* * * * * * * * *
15679541 TTAAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTATTTCAATTCGTTT
131 TTGATTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTT
15679606 CTCTGTATCTCATC
196 CTCTGTATCTCATC
* *
15679620 AAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTGACCATTTTATTGCTTCGAC
1 AAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGAC
* * * * *
15679685 CTGCTTCTCAGTATCTCACCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAGCTTGGTTTTT
66 CTGCCTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAGCTTTGTTTTA
* * * * * * *
15679750 TTGATTTGGTCTACTTCTCAGTATCTCATTAAGAAGATGACCGTCTC-GTTGTTTTGATCCACTT
131 TTGATTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTT
15679814 CTCTGTATCTCATC
196 CTCTGTATCTCATC
* * * * ** * * *
15679828 AGGAAGACGGATCTGGTTCACTTCTTTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTT
1 AAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCACTTTATTGCTT
15679889 TAGATAACTA
Statistics
Matches: 407, Mismatches: 67, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
208 265 0.65
209 138 0.34
210 4 0.01
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (209 bp):
AAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGAC
CTGCCTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCGCATTGAGCTTTGTTTTA
TTGATTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTT
CTCTGTATCTCATC
Found at i:15680077 original size:39 final size:39
Alignment explanation
Indices: 15679957--15680077 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 39
15679947 CCATAGTTGG
* * *
15679957 GGTAAAAGATCGGATGGTTACAATCTGCCCCTA-TCTCGA
1 GGTAAAAGATCGGATGGCTGCAATCTGCCCC-AGGCTCGA
* * * * *
15679996 GGTAAAAGATTGGCTGAGGTG--ATCTGCCCTAGGCTCGG
1 GGTAAAAGATCGGATG-GCTGCAATCTGCCCCAGGCTCGA
*
15680034 GGTAAAAGATCGGATGGCTGCAATCTACCCCAGGCTCGA
1 GGTAAAAGATCGGATGGCTGCAATCTGCCCCAGGCTCGA
15680073 GGTAA
1 GGTAA
15680078 GAGGTGATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
37 4 0.06
38 26 0.40
39 33 0.51
40 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GGTAAAAGATCGGATGGCTGCAATCTGCCCCAGGCTCGA
Found at i:15680148 original size:41 final size:41
Alignment explanation
Indices: 15680100--15680191 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
15680090 CCCAAGCTCG
* * *
15680100 GGGTAAAAGATCGGAATCTTCATTCTGCCCCTCTTGATTAA
1 GGGTAAAAGATCGGAATCTTCAATCTACCCCTCTTGACTAA
* * *
15680141 GGGTAAAAGATTGGAATCTTTAATCTACCCTTCTTGACTAA
1 GGGTAAAAGATCGGAATCTTCAATCTACCCCTCTTGACTAA
15680182 GGGTAAAAGA
1 GGGTAAAAGA
15680192 CTGAATGATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (41 bp):
GGGTAAAAGATCGGAATCTTCAATCTACCCCTCTTGACTAA
Found at i:15680559 original size:49 final size:49
Alignment explanation
Indices: 15680443--15680618 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 49
15680433 TTAAGGTAAT
* * * **
15680443 GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCA-CAT-TTCATGGTATA
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATC-TCTTCATGGTACC
* ** ** *
15680491 GGATTCACCGCCGTGGCCTCAATCTTTCCCTTCATCTCTTCATGGTACC
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATCTCTTCATGGTACC
**
15680540 GGGTTCGTCGTTGCAGCCTCAACCTTTCCCTTCATCTCTTCATGGTACC
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATCTCTTCATGGTACC
* *
15680589 GGGTTCACCGTTGCGGCCTCGACCTTTCCC
1 GGGTTCACCGTTGCAGCCTCAACCTTTCCC
15680619 AGTCAAACCT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
48 28 0.27
49 77 0.73
ACGTcount: A:0.13, C:0.35, G:0.20, T:0.32
Consensus pattern (49 bp):
GGGTTCACCGTTGCAGCCTCAACCTTTCCCTTCATCTCTTCATGGTACC
Found at i:15680617 original size:98 final size:97
Alignment explanation
Indices: 15680443--15680618 Score: 228
Period size: 98 Copynumber: 1.8 Consensus size: 97
15680433 TTAAGGTAAT
* * *
15680443 GGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTATAGGATTCACCGCCGTGGC
1 GGGTTCGCCGTTGCAGCCTCAACCTTTCCCATCACATTTCATGGTACAGGATTCACCGCCGCGGC
*
15680508 CTCAATCTTTCCCTTCATCTCTTCATGGTACC
66 CTCAACCTTTCCCTTCATCTCTTCATGGTACC
* * * * **
15680540 GGGTTCGTCGTTGCAGCCTCAACCTTTCCCTTCATC-TCTTCATGGTACCGGGTTCACCGTTGCG
1 GGGTTCGCCGTTGCAGCCTCAACCTTTCCCATCA-CAT-TTCATGGTACAGGATTCACCGCCGCG
*
15680604 GCCTCGACCTTTCCC
64 GCCTCAACCTTTCCC
15680619 AGTCAAACCT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
97 32 0.48
98 34 0.52
ACGTcount: A:0.13, C:0.35, G:0.20, T:0.32
Consensus pattern (97 bp):
GGGTTCGCCGTTGCAGCCTCAACCTTTCCCATCACATTTCATGGTACAGGATTCACCGCCGCGGC
CTCAACCTTTCCCTTCATCTCTTCATGGTACC
Found at i:15681586 original size:20 final size:20
Alignment explanation
Indices: 15681541--15681586 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15681531 CTTTTTCCCG
*
15681541 TTTTTTCTATTTTCTTTTTC
1 TTTTTTCTATTTTCTTCTTC
** *
15681561 CCTTTTCTTTTTTCTTCTTC
1 TTTTTTCTATTTTCTTCTTC
15681581 TTTTTT
1 TTTTTT
15681587 TTCCTTCATT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTCTATTTTCTTCTTC
Found at i:15686914 original size:29 final size:29
Alignment explanation
Indices: 15686868--15686992 Score: 108
Period size: 29 Copynumber: 4.2 Consensus size: 29
15686858 AAATGATCAC
** **
15686868 TTTGGACACTTCGGGGGCAAACCGGTAATT
1 TTTGGACAC-TCAAGGGCAAAAAGGTAATT
*
15686898 TTTGGACACTCAAGGGCAAAAAATGTAATT
1 TTTGGACACTCAAGGGC-AAAAAGGTAATT
* * *
15686928 TTTGGACA-TCTAGGGGTAAAATGGTAATT
1 TTTGGACACTC-AAGGGCAAAAAGGTAATT
* * * *
15686957 TTTGGAAACTCGAGAGCAAAAATGTAATT
1 TTTGGACACTCAAGGGCAAAAAGGTAATT
15686986 TTTGGAC
1 TTTGGAC
15686993 TTCCAGGGGT
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
29 43 0.57
30 32 0.43
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (29 bp):
TTTGGACACTCAAGGGCAAAAAGGTAATT
Found at i:15686926 original size:30 final size:29
Alignment explanation
Indices: 15686892--15686992 Score: 123
Period size: 29 Copynumber: 3.4 Consensus size: 29
15686882 GGGCAAACCG
15686892 GTAATTTTTGGACACTCAAGGGCAAAAAAT
1 GTAATTTTTGGACACTCAAGGGC-AAAAAT
* **
15686922 GTAATTTTTGGACA-TCTAGGGGTAAAAT
1 GTAATTTTTGGACACTCAAGGGCAAAAAT
* * *
15686950 GGTAATTTTTGGAAACTCGAGAGCAAAAAT
1 -GTAATTTTTGGACACTCAAGGGCAAAAAT
15686980 GTAATTTTTGGAC
1 GTAATTTTTGGAC
15686993 TTCCAGGGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 5 0.08
29 31 0.52
30 24 0.40
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.32
Consensus pattern (29 bp):
GTAATTTTTGGACACTCAAGGGCAAAAAT
Found at i:15686958 original size:28 final size:28
Alignment explanation
Indices: 15686892--15687020 Score: 114
Period size: 29 Copynumber: 4.4 Consensus size: 28
15686882 GGGCAAACCG
* **
15686892 GTAATTTTTGGACACTCAAGGGCAAAAAAT
1 GTAATTTTTGGACA-TCCAGGG-GTAAAAT
*
15686922 GTAATTTTTGGACATCTAGGGGTAAAAT
1 GTAATTTTTGGACATCCAGGGGTAAAAT
* * * **
15686950 GGTAATTTTTGGAAACTCGAGAGCAAAAAT
1 -GTAATTTTTGGACA-TCCAGGGGTAAAAT
*
15686980 GTAATTTTTGGACTTCCAGGGGTAAAAT
1 GTAATTTTTGGACATCCAGGGGTAAAAT
*
15687008 GGTAATTTATGGA
1 -GTAATTTTTGGA
15687021 TGTTTAGGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
28 15 0.19
29 42 0.52
30 24 0.30
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (28 bp):
GTAATTTTTGGACATCCAGGGGTAAAAT
Found at i:15687001 original size:58 final size:59
Alignment explanation
Indices: 15686891--15687020 Score: 199
Period size: 58 Copynumber: 2.2 Consensus size: 59
15686881 GGGGCAAACC
* * *
15686891 GGTAATTTTTGGACACTCAAGGGCAAAAAATGTAATTTTTGGACATCTAGGGGTAAAAT
1 GGTAATTTTTGGAAACTCAAGAGCAAAAAATGTAATTTTTGGACATCCAGGGGTAAAAT
* *
15686950 GGTAATTTTTGGAAACTCGAGAGC-AAAAATGTAATTTTTGGACTTCCAGGGGTAAAAT
1 GGTAATTTTTGGAAACTCAAGAGCAAAAAATGTAATTTTTGGACATCCAGGGGTAAAAT
*
15687008 GGTAATTTATGGA
1 GGTAATTTTTGGA
15687021 TGTTTAGGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
58 44 0.68
59 21 0.32
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.32
Consensus pattern (59 bp):
GGTAATTTTTGGAAACTCAAGAGCAAAAAATGTAATTTTTGGACATCCAGGGGTAAAAT
Found at i:15687153 original size:30 final size:29
Alignment explanation
Indices: 15686916--15687326 Score: 252
Period size: 30 Copynumber: 14.0 Consensus size: 29
15686906 CTCAAGGGCA
*
15686916 AAAAATGTAATTTTTGGACA--TCTAGGGGT
1 AAAAATGTAATTTTTGGA-AGTTCGA-GGGT
** * *
15686945 -AAAATGGTAATTTTTGGAAACTCGAGAGC
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
* *
15686974 AAAAATGTAATTTTTGG-ACTTCCAGGGGT
1 AAAAATGTAATTTTTGGAAGTTCGA-GGGT
* * * *
15687003 -AAAATGGTAATTTATGGATGTTTAGGGGGT
1 AAAAAT-GTAATTTTTGGAAG-TTCGAGGGT
** * *
15687033 AAAAACATAATTTTTTGAAAGTTC-AAGGT
1 AAAAATGTAA-TTTTTGGAAGTTCGAGGGT
* * *
15687062 AAAAAATGTAATTTTTGTGAAATTTGGGGGT
1 -AAAAATGTAATTTTTG-GAAGTTCGAGGGT
*
15687093 -TAAATGGTAATTTTTGGAAGTTCG-GGGT
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
*
15687121 AAAAATGTGATTTTTGGAAGGTTCGAGGGT
1 AAAAATGTAATTTTTGGAA-GTTCGAGGGT
* *
15687151 --AAATGGTAATTTTTGGAAGTT-TAGGGGC
1 AAAAAT-GTAATTTTTGGAAGTTCGA-GGGT
* * *
15687179 AAAAATGTGATTTTTGGAAAGTTCGAGTGC
1 AAAAATGTAATTTTTGG-AAGTTCGAGGGT
15687209 AAAAATGTAATTTTTGTGAAGTTCGAGGGT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGT
* * * * **
15687239 TAAAATATAATATTTGAAAAGTTTAAGGGT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGT
* * *
15687269 TAAAATGTAATTTTTGAGAAGTTCAAGGTT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGT
* *
15687299 AAAAATATGATTTTTGGATAGTTC-AGGG
1 AAAAATGTAATTTTTGGA-AGTTCGAGGG
15687327 ACCTTCTAGG
Statistics
Matches: 298, Mismatches: 59, Indels: 50
0.73 0.14 0.12
Matches are distributed among these distances:
27 1 0.00
28 41 0.14
29 92 0.31
30 146 0.49
31 18 0.06
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTCGAGGGT
Found at i:15687183 original size:58 final size:60
Alignment explanation
Indices: 15687093--15687231 Score: 196
Period size: 58 Copynumber: 2.4 Consensus size: 60
15687083 ATTTGGGGGT
* * * *
15687093 TAAATGGTAATTTTTGGAAG-TTCGGGGTAAAAATGTGATTTTTGGAAGGTTCGAG-G-G
1 TAAATGGTAATTTTTGGAAGTTTAGGGGCAAAAATGTGATTTTTGGAAAGTTCGAGTGCA
15687150 TAAATGGTAATTTTTGGAAGTTTAGGGGCAAAAATGTGATTTTTGGAAAGTTCGAGTGCA
1 TAAATGGTAATTTTTGGAAGTTTAGGGGCAAAAATGTGATTTTTGGAAAGTTCGAGTGCA
*
15687210 AAAAT-GTAATTTTTGTGAAGTT
1 TAAATGGTAATTTTTG-GAAGTT
15687232 CGAGGGTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
57 20 0.27
58 32 0.44
59 11 0.15
60 10 0.14
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.37
Consensus pattern (60 bp):
TAAATGGTAATTTTTGGAAGTTTAGGGGCAAAAATGTGATTTTTGGAAAGTTCGAGTGCA
Found at i:15689041 original size:17 final size:17
Alignment explanation
Indices: 15689005--15689109 Score: 111
Period size: 17 Copynumber: 6.1 Consensus size: 17
15688995 TGGAACTTCT
* *
15689005 TTTAAATTTTTAATTAAA
1 TTTAAA-TTTAAAATAAA
15689023 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
15689040 TTCAAATTTAAAATGAA
1 TTTAAATTTAAAATAAA
* *
15689057 CTTAAATTCAAAATAAA
1 TTTAAATTTAAAATAAA
* *
15689074 TTTAAATTTATACTAAA
1 TTTAAATTTAAAATAAA
* *
15689091 TTCAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
15689108 TT
1 TT
15689110 AAAAATAGGT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
17 65 0.92
18 6 0.08
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15690904 original size:55 final size:55
Alignment explanation
Indices: 15690765--15690888 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 55
15690755 AAGTTGCAGA
* * ** * *
15690765 AGGCACACGGGCCAAACACACGGGTGTGTGCCAGATCGTGTGTGTATACTATTTTG
1 AGGCACACGGG-CAGACACACAGACGTGTGCCAGATCGTGTGTGTATACAATTTGG
*
15690821 AGGCACACTGGCAGACACACAGACGTGTGCCAGATCGTGTGTGTATACAATTTGG
1 AGGCACACGGGCAGACACACAGACGTGTGCCAGATCGTGTGTGTATACAATTTGG
15690876 AGGCACACGGGCA
1 AGGCACACGGGCA
15690889 TGTGCCAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 50 0.83
56 10 0.17
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (55 bp):
AGGCACACGGGCAGACACACAGACGTGTGCCAGATCGTGTGTGTATACAATTTGG
Found at i:15693969 original size:21 final size:21
Alignment explanation
Indices: 15693945--15693994 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
15693935 TTTTTTTAAA
15693945 ATTTTAAAAATTCA-AAAAATT
1 ATTTTAAAAA-TCATAAAAATT
*
15693966 ATTTTAAAAATCATTAAAATT
1 ATTTTAAAAATCATAAAAATT
15693987 A-TTTAAAA
1 ATTTTAAAA
15693995 TGTATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAAAAATCATAAAAATT
Found at i:15693974 original size:20 final size:21
Alignment explanation
Indices: 15693945--15694005 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
15693935 TTTTTTTAAA
15693945 ATTTTAAAAATTCA-AAAAATT
1 ATTTT-AAAATTCATAAAAATT
* *
15693966 ATTTTAAAAATCATTAAAATT
1 ATTTTAAAATTCATAAAAATT
15693987 A-TTTAAAATGT-ATAAAAAT
1 ATTTTAAAAT-TCATAAAAAT
15694006 AATAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 21 0.62
21 13 0.38
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTTAAAATTCATAAAAATT
Found at i:15697297 original size:19 final size:20
Alignment explanation
Indices: 15697273--15697313 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15697263 ATTGTACAAG
15697273 AAGAAAGAT-TTTA-TTAATT
1 AAGAAA-ATCTTTATTTAATT
15697292 AAGAAAATCTTTATTTAATT
1 AAGAAAATCTTTATTTAATT
15697312 AA
1 AA
15697314 AATAGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 10 0.50
20 8 0.40
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
AAGAAAATCTTTATTTAATT
Found at i:15703608 original size:5 final size:5
Alignment explanation
Indices: 15703600--15703626 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15703590 TTACTCCCCT
15703600 CCATC CCATC CCATC CCATC CCATC CC
1 CCATC CCATC CCATC CCATC CCATC CC
15703627 CCATCTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.63, G:0.00, T:0.19
Consensus pattern (5 bp):
CCATC
Found at i:15707943 original size:25 final size:26
Alignment explanation
Indices: 15707910--15707991 Score: 93
Period size: 25 Copynumber: 3.2 Consensus size: 26
15707900 ATAATATTAT
15707910 TTTAATAGT-TTATTATTAAATTTAA
1 TTTAATAGTATTATTATTAAATTTAA
15707935 TTTAATAGTATT-TTATT-AATTTAA
1 TTTAATAGTATTATTATTAAATTTAA
*
15707959 TATTAA-AGTGATTA-GATTAATATTTAA
1 T-TTAATAGT-ATTATTATTAA-ATTTAA
15707986 TTTAAT
1 TTTAAT
15707992 TTAATGTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
24 11 0.22
25 24 0.49
26 7 0.14
27 7 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
TTTAATAGTATTATTATTAAATTTAA
Found at i:15710705 original size:18 final size:18
Alignment explanation
Indices: 15710682--15710716 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15710672 CCCTCGTCCT
*
15710682 CTAAGGGGAAGAAGAAAG
1 CTAAGGGAAAGAAGAAAG
15710700 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
15710717 CTGATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.34, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:15713722 original size:21 final size:22
Alignment explanation
Indices: 15713698--15713738 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15713688 CTGACTTCTT
15713698 TGTCGCGACA-CGACTCTTGTG
1 TGTCGCGACATCGACTCTTGTG
*
15713719 TGTCGCGACATCGATTCTTG
1 TGTCGCGACATCGACTCTTG
15713739 GATGCGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.32
Consensus pattern (22 bp):
TGTCGCGACATCGACTCTTGTG
Found at i:15714837 original size:5 final size:5
Alignment explanation
Indices: 15714827--15714852 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15714817 CTATAGATTC
15714827 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
15714853 ATACGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:15721656 original size:70 final size:70
Alignment explanation
Indices: 15721573--15721713 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
15721563 TTGTTGATGC
*
15721573 ATGCAAGACAGTAACCAAAGTTCAAATTCCCTATACTTCTATTGATACATGCAAGAGTTCTACCG
1 ATGCAAGACAGTAACCAAAGTTCAAATTCCCTATACTTCTATTGATACATGCAAGAGTTCTACCA
15721638 AAACA
66 AAACA
* *
15721643 ATGCAAGACAGTAACCAAAGTTCATATTCCCTATACTTCTATTTATACATGCAAGAGTTCTACCA
1 ATGCAAGACAGTAACCAAAGTTCAAATTCCCTATACTTCTATTGATACATGCAAGAGTTCTACCA
15721708 AAACA
66 AAACA
15721713 A
1 A
15721714 GTGTGCAGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (70 bp):
ATGCAAGACAGTAACCAAAGTTCAAATTCCCTATACTTCTATTGATACATGCAAGAGTTCTACCA
AAACA
Found at i:15722580 original size:69 final size:69
Alignment explanation
Indices: 15722492--15722763 Score: 345
Period size: 69 Copynumber: 4.0 Consensus size: 69
15722482 TCAAAATTTT
* * * *
15722492 ATAGCCTAACTATGATCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTTACGTCAGAA
1 ATAGCCCAGCTATGGTCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTTACATCAGAA
15722557 TGCC
66 TGCC
* * * * * * *
15722561 ATAGCCCAGCTATGGTCTTA-A-C-AT-TAGAATGCCTTAGCCCAACTATGGTCTTAACATCAGA
1 ATAGCCCAGCTATGGTCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTT-ACATCAGA
15722622 ATGCC
65 ATGCC
* * * * **
15722627 CTAGCCCAGTTATGGTTTTATATCTATATACACTGTCATGGTCCAACCATGGTCTTATGTCAGAA
1 ATAGCCCAGCTATGGTCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTTACATCAGAA
15722692 TGCC
66 TGCC
*
15722696 ATAGCCCAGCTATGGTCTTACATCTATATACACTTTCATGGTCCAACCATGGTCTTACATCAGAA
1 ATAGCCCAGCTATGGTCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTTACATCAGAA
15722761 TGC
66 TGC
15722764 AGTCTGTCTC
Statistics
Matches: 168, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
65 21 0.12
66 31 0.18
67 2 0.01
68 2 0.01
69 91 0.54
70 21 0.12
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (69 bp):
ATAGCCCAGCTATGGTCTTACATCTATATACACTGTCATGGTCCAACCATGGTCTTACATCAGAA
TGCC
Found at i:15722599 original size:33 final size:33
Alignment explanation
Indices: 15722540--15722719 Score: 152
Period size: 33 Copynumber: 5.4 Consensus size: 33
15722530 TGGTCCAACC
*
15722540 ATGGTCTT-ACGTCAGAATGCCATAGCCCAGCT
1 ATGGTCTTAACATCAGAATGCCATAGCCCAGCT
* * *
15722572 ATGGTCTTAACATTAGAATGCCTTAGCCCAACT
1 ATGGTCTTAACATCAGAATGCCATAGCCCAGCT
* *
15722605 ATGGTCTTAACATCAGAATGCCCTAGCCCAGTT
1 ATGGTCTTAACATCAGAATGCCATAGCCCAGCT
* * * * * * *
15722638 ATGGTTTTATATCTAT-ATACACTGTCATGGTCCAACC
1 ATGGTCTTA-A-C-ATCAGA-A-TGCCATAGCCCAGCT
**
15722675 ATGGTCTT-ATGTCAGAATGCCATAGCCCAGCT
1 ATGGTCTTAACATCAGAATGCCATAGCCCAGCT
15722707 ATGGTCTT-ACATC
1 ATGGTCTTAACATC
15722720 TATATACACT
Statistics
Matches: 113, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
32 29 0.26
33 59 0.52
34 3 0.03
35 4 0.04
36 3 0.03
37 15 0.13
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (33 bp):
ATGGTCTTAACATCAGAATGCCATAGCCCAGCT
Found at i:15745478 original size:36 final size:36
Alignment explanation
Indices: 15745428--15745529 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
15745418 TTGATGGATT
15745428 TGCTTACGTCTCGGTTAGAGCATAATGCTAAGGAAA
1 TGCTTACGTCTCGGTTAGAGCATAATGCTAAGGAAA
* * ** * *
15745464 TGTTTACGTCTCGGTTAAAGTGTAATGCTAAGTAAC
1 TGCTTACGTCTCGGTTAGAGCATAATGCTAAGGAAA
* * *
15745500 TGCTTATGTCTTGGTTAGAGCATAAGGCTA
1 TGCTTACGTCTCGGTTAGAGCATAATGCTA
15745530 TTTCAGCTCA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (36 bp):
TGCTTACGTCTCGGTTAGAGCATAATGCTAAGGAAA
Found at i:15747008 original size:15 final size:16
Alignment explanation
Indices: 15746972--15747007 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15746962 GAATAAAGTG
*
15746972 TTTTTGAGACTTTTAA
1 TTTTTGAGACTTGTAA
15746988 TTTTTGAGACTTGTAA
1 TTTTTGAGACTTGTAA
15747004 TTTT
1 TTTT
15747008 GGGATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (16 bp):
TTTTTGAGACTTGTAA
Found at i:15750317 original size:16 final size:16
Alignment explanation
Indices: 15750296--15750326 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15750286 TTCACTATTA
*
15750296 TGTCTTTTGTATTTTC
1 TGTCTTTCGTATTTTC
15750312 TGTCTTTCGTATTTT
1 TGTCTTTCGTATTTT
15750327 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.13, T:0.68
Consensus pattern (16 bp):
TGTCTTTCGTATTTTC
Found at i:15751425 original size:13 final size:13
Alignment explanation
Indices: 15751407--15751431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15751397 GAATTACTCA
15751407 ATTAAAGAATTTG
1 ATTAAAGAATTTG
15751420 ATTAAAGAATTT
1 ATTAAAGAATTT
15751432 TCTTGAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:15754637 original size:21 final size:21
Alignment explanation
Indices: 15754589--15754642 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15754579 GGAACTTATA
*
15754589 GTATCGGTAGATGGATAAGAT
1 GTATCGGTAGATGAATAAGAT
* *
15754610 GTTTCGGTAGAT-AATAGAGTT
1 GTATCGGTAGATGAATA-AGAT
15754631 GTATCGGTAGAT
1 GTATCGGTAGAT
15754643 CATTCATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.30, C:0.06, G:0.31, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGATGAATAAGAT
Found at i:15757095 original size:27 final size:27
Alignment explanation
Indices: 15757041--15757101 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
15757031 GGTCTAATTA
**
15757041 ATCAAAAGTTATATCTTTTGGTTATTG
1 ATCAAAAGTTATATCACTTGGTTATTG
*
15757068 ATCAAGAGTTATATCACTTGAGTT-TTG
1 ATCAAAAGTTATATCACTTG-GTTATTG
*
15757095 ATAAAAA
1 ATCAAAA
15757102 TAATTATAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
ATCAAAAGTTATATCACTTGGTTATTG
Found at i:15758473 original size:14 final size:14
Alignment explanation
Indices: 15758454--15758480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15758444 TTAACCCAAA
15758454 GATTCAATATCTTT
1 GATTCAATATCTTT
15758468 GATTCAATATCTT
1 GATTCAATATCTT
15758481 CTTCCCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
GATTCAATATCTTT
Found at i:15758582 original size:6 final size:6
Alignment explanation
Indices: 15758571--15758599 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15758561 CAAAAGGGAA
15758571 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
15758600 AGAGAGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:15758673 original size:14 final size:14
Alignment explanation
Indices: 15758656--15758685 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15758646 AGGGTTTAAA
15758656 AATTTTAATTAATT
1 AATTTTAATTAATT
*
15758670 AATTTTATTTAATT
1 AATTTTAATTAATT
15758684 AA
1 AA
15758686 AGATTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTAATTAATT
Found at i:15762970 original size:17 final size:18
Alignment explanation
Indices: 15762938--15762972 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15762928 GTGATTTTTC
*
15762938 ATTTTTATACTTTCTAAA
1 ATTTTTATACTATCTAAA
15762956 ATTTTTATAC-ATCTAAA
1 ATTTTTATACTATCTAAA
15762973 TAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTATACTATCTAAA
Found at i:15763393 original size:17 final size:17
Alignment explanation
Indices: 15763371--15763430 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
15763361 CGGGACAACA
*
15763371 AAATTTAAATATATTTT
1 AAATTTAAATTTATTTT
* *
15763388 AAATTTAAGTTTATATT
1 AAATTTAAATTTATTTT
*
15763405 AAGTTTAAATTTA-TTT
1 AAATTTAAATTTATTTT
*
15763421 AAATTAAAAT
1 AAATTTAAAT
15763431 GTCCAAGTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
16 10 0.29
17 25 0.71
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:15765276 original size:30 final size:31
Alignment explanation
Indices: 15765222--15765280 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15765212 CTAAATTGTC
*
15765222 CAAAAATCATGTTTTGACCCCCCAAACTTTT
1 CAAAAATCATATTTTGACCCCCCAAACTTTT
15765253 CAAAAATCATATTTTGA-CCCCCAAACTT
1 CAAAAATCATATTTTGACCCCCCAAACTT
15765281 CAAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.31
Consensus pattern (31 bp):
CAAAAATCATATTTTGACCCCCCAAACTTTT
Found at i:15765404 original size:30 final size:30
Alignment explanation
Indices: 15765352--15765466 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
15765342 AAAAATTACA
*
15765352 TTTTCACCCCTAAACTTT-CAAAAATTTCCT
1 TTTTGACCCC-AAACTTTCCAAAAATTTCCT
* *
15765382 TTTTGACCCCAAACTTTCCAAAAATTACCA
1 TTTTGACCCCAAACTTTCCAAAAATTTCCT
* *
15765412 TTTT-ACCCTCAAA-TGTCCAAAAATTTCAT
1 TTTTGACCC-CAAACTTTCCAAAAATTTCCT
* * *
15765441 TTTTGACCTCAAAATTTCTAAAAATT
1 TTTTGACCCCAAACTTTCCAAAAATT
15765467 ACCGTTTATC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
29 31 0.44
30 40 0.56
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTTGACCCCAAACTTTCCAAAAATTTCCT
Found at i:15765404 original size:59 final size:57
Alignment explanation
Indices: 15765250--15765612 Score: 236
Period size: 59 Copynumber: 6.2 Consensus size: 57
15765240 CCCCCAAACT
* * * *
15765250 TTTCAAAAA--TCATATTTTGACCCCCAAACTTCAAAAAATTACATTTTTACGCTCAAA
1 TTTCAAAAATTTCAT-TTTTGACCCCAAAATTTCCAAAAATTACA-TTTTACCCTCAAA
* * * **
15765307 CTTTCTAAAATTGT-ATCTTT-AACCCTTAATTTCTCAAAAATTACATTTTCACCC-CTAAA
1 -TTTCAAAAATT-TCATTTTTGACCCCAAAATTTC-CAAAAATTACATTTT-ACCCTC-AAA
* *
15765366 CTTTCAAAAATTTCCTTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAA
1 -TTTCAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAATTA-CATTTTACCCTCAAA
* * * **
15765425 TGTCCAAAAATTTCATTTTTGACCTCAAAATTTCTAAAAATTACCGTTTATCCCT-AAA
1 T-TTCAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAATTACATTTTA-CCCTCAAA
* * * * *
15765483 TTTACAAAAGTTCCATTTTTAACCCTAAAATTTCCAAAAATTACCATTTTATCCCT-AGA
1 TTT-CAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAATTA-CATTTTA-CCCTCAAA
** * * * * ** **
15765542 TGCCCAAGAATTCCTTTTTTAACCTTAAACCTTCCAAAAATTACCATTTTACCCTCAAA
1 T-TTCAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAATTA-CATTTTACCCTCAAA
*
15765601 TGTCCAAAAATT
1 T-TTCAAAAATT
15765613 ACCATTTTAT
Statistics
Matches: 246, Mismatches: 43, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
57 1 0.00
58 70 0.28
59 156 0.63
60 18 0.07
61 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (57 bp):
TTTCAAAAATTTCATTTTTGACCCCAAAATTTCCAAAAATTACATTTTACCCTCAAA
Found at i:15765420 original size:88 final size:86
Alignment explanation
Indices: 15765253--15765650 Score: 267
Period size: 88 Copynumber: 4.5 Consensus size: 86
15765243 CCAAACTTTT
* * * * * *
15765253 CAAAAATCATATTTTGACCCCCAAAC-TTCAAAAAATTACATTTTTACGCTCAAACTTTCTAAAA
1 CAAAAATTACATTTT-ACCCCTAAACTTTC-AAAAATTACCTTTTTAC-CCCAAACTTTCCAAAA
* * * * *
15765317 TTGTATC-TTTAACCCT-TAATTTC
63 AT-TACCATTTTACCCTCAAATGTC
*
15765340 TCAAAAATTACATTTTCACCCCTAAACTTTCAAAAATTTCCTTTTTGACCCCAAACTTTCCAAAA
1 -CAAAAATTACATTTT-ACCCCTAAACTTTCAAAAATTACCTTTTT-ACCCCAAACTTTCCAAAA
15765405 ATTACCATTTTACCCTCAAATGTC
63 ATTACCATTTTACCCTCAAATGTC
* * * * * *
15765429 CAAAAATTTCATTTTTGACCTC-AAAATTTCTAAAAATTACC-GTTTATCCCTAAA-TTTACAAA
1 CAAAAATTACA-TTTT-ACCCCTAAACTTTC-AAAAATTACCTTTTTA-CCCCAAACTTTCCAAA
* * *
15765491 AGTT-CCATTTTTAACCCTAAAATTTC
62 AATTACCA-TTTT-ACCCTCAAATGTC
* * ** * ** *
15765517 CAAAAATTACCATTTTATCCCTAGA-TGCCCAAGAATT-CCTTTTTTAACCTTAAACCTTCCAAA
1 CAAAAATTA-CATTTTACCCCTAAACT-TTCAAAAATTACC-TTTTT-ACCCCAAACTTTCCAAA
15765580 AATTACCATTTTACCCTCAAATGTC
62 AATTACCATTTTACCCTCAAATGTC
* * *
15765605 CAAAAATTACCATTTTATCCCTGAAC-TTCAAAAAATTACCATTTTA
1 CAAAAATTA-CATTTTACCCCTAAACTTTC-AAAAATTACCTTTTTA
15765651 TGCCCGAGCA
Statistics
Matches: 246, Mismatches: 44, Indels: 41
0.74 0.13 0.12
Matches are distributed among these distances:
86 5 0.02
87 30 0.12
88 163 0.66
89 45 0.18
90 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (86 bp):
CAAAAATTACATTTTACCCCTAAACTTTCAAAAATTACCTTTTTACCCCAAACTTTCCAAAAATT
ACCATTTTACCCTCAAATGTC
Found at i:15765527 original size:117 final size:116
Alignment explanation
Indices: 15765334--15765651 Score: 306
Period size: 117 Copynumber: 2.7 Consensus size: 116
15765324 TTTAACCCTT
* * * *
15765334 AATTTCTCAAAAATTA-CATTTTCACCCCTAAACTTTCAAAAATTTCC-TTTTTGACCCCAAACT
1 AATTTCT-AAAAATTACCA-TTT-ATCCCTAAA-TTTCAAAAA-TTCCATTTTTAACCCTAAAAT
* * *
15765397 TTCCAAAAATTACCATTTTA-CCCTCAAATGTCCAAAAATTTCATTTTTGACCTCAA
61 TTCCAAAAATTACCATTTTATCCCT-AAATGCCCAAAAATTCCATTTTTAACCTCAA
* *
15765453 AATTTCTAAAAATTACCGTTTATCCCTAAATTTACAAAAGTTCCATTTTTAACCCTAAAATTTCC
1 AATTTCTAAAAATTACCATTTATCCCTAAATTT-CAAAAATTCCATTTTTAACCCTAAAATTTCC
* * * *
15765518 AAAAATTACCATTTTATCCCTAGATGCCCAAGAATTCCTTTTTTAACCTTAA
65 AAAAATTACCATTTTATCCCTAAATGCCCAAAAATTCCATTTTTAACCTCAA
** * * * * *
15765570 ACCTTCCAAAAATTACCATTT-TACCCTCAAATGTCCAAAAATTACCA-TTTTATCCCT-GAACT
1 AATTTCTAAAAATTACCATTTAT-CCCT-AAAT-TTCAAAAATT-CCATTTTTAACCCTAAAATT
*
15765632 TCAAAAAATTACCATTTTAT
62 TCCAAAAATTACCATTTTAT
15765652 GCCCGAGCAT
Statistics
Matches: 168, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
116 8 0.05
117 113 0.67
118 35 0.21
119 12 0.07
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (116 bp):
AATTTCTAAAAATTACCATTTATCCCTAAATTTCAAAAATTCCATTTTTAACCCTAAAATTTCCA
AAAATTACCATTTTATCCCTAAATGCCCAAAAATTCCATTTTTAACCTCAA
Found at i:15765607 original size:29 final size:29
Alignment explanation
Indices: 15765263--15765650 Score: 221
Period size: 29 Copynumber: 13.2 Consensus size: 29
15765253 CAAAAATCAT
* * *
15765263 ATTTTGACCCCCAAACTTCAAAAAATTA-C
1 ATTTT-ACCCTCAAATTTCCAAAAATTACC
* * * *
15765292 ATTTTTACGCTCAAACTTTCTAAAATTGTATC
1 A-TTTTACCCTCAAA-TTTCCAAAAAT-TACC
* *
15765324 -TTTAACCCT-TAATTTCTCAAAAATTA-C
1 ATTTTACCCTCAAATTTC-CAAAAATTACC
*
15765351 ATTTTCACCC-CTAAACTTT-CAAAAATTTCC
1 ATTTT-ACCCTC-AAA-TTTCCAAAAATTACC
*
15765381 TTTTTGACCC-CAAACTTTCCAAAAATTACC
1 ATTTT-ACCCTCAAA-TTTCCAAAAATTACC
* *
15765411 ATTTTACCCTCAAATGTCCAAAAATT-TC
1 ATTTTACCCTCAAATTTCCAAAAATTACC
*
15765439 ATTTTTGA-CCTCAAAATTTCTAAAAATTACC
1 A-TTTT-ACCCTC-AAATTTCCAAAAATTACC
* * *
15765470 -GTTTATCCCT-AAATTTACAAAAGTT-CC
1 ATTTTA-CCCTCAAATTTCCAAAAATTACC
*
15765497 ATTTTTAACCCTAAAATTTCCAAAAATTACC
1 A-TTTT-ACCCTCAAATTTCCAAAAATTACC
* ** *
15765528 ATTTTATCCCT-AGATGCCCAAGAATT-CC
1 ATTTTA-CCCTCAAATTTCCAAAAATTACC
* * * *
15765556 TTTTTTAACCTTAAACCTTCCAAAAATTACC
1 -ATTTTACCCTCAAA-TTTCCAAAAATTACC
*
15765587 ATTTTACCCTCAAATGTCCAAAAATTACC
1 ATTTTACCCTCAAATTTCCAAAAATTACC
* * *
15765616 ATTTTATCCCT-GAACTTCAAAAAATTACC
1 ATTTTA-CCCTCAAATTTCCAAAAATTACC
15765645 ATTTTA
1 ATTTTA
15765651 TGCCCGAGCA
Statistics
Matches: 280, Mismatches: 49, Indels: 60
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.01
28 29 0.10
29 125 0.45
30 111 0.40
31 11 0.04
32 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTTTACCCTCAAATTTCCAAAAATTACC
Found at i:15765621 original size:59 final size:58
Alignment explanation
Indices: 15765324--15765650 Score: 267
Period size: 59 Copynumber: 5.6 Consensus size: 58
15765314 AAATTGTATC
* * *
15765324 TTTAACCCT-TAATTTCTCAAAAATTA-CATTTTCACCC-CTAAACT-TTCAAAAATTTCCTT
1 TTTAACCCTAAAATTTC-CAAAAATTACCATTTT-ACCCTC-AAA-TGTCCAAAAA-TTCCAT
* * * *
15765383 TTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTTCATT
1 TTTAACCCTAAAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCA-T
* * * * * *
15765442 TTTGA-CCTCAAAATTTCTAAAAATTACC-GTTTATCCCT-AAATTTACAAAAGTTCCATT
1 TTTAACCCT-AAAATTTCCAAAAATTACCATTTTA-CCCTCAAATGTCCAAAAATTCCA-T
* * * *
15765500 TTTAACCCTAAAATTTCCAAAAATTACCATTTTATCCCT-AGATGCCCAAGAATTCCTTT
1 TTTAACCCTAAAATTTCCAAAAATTACCATTTTA-CCCTCAAATGTCCAAAAATTCC-AT
* **
15765559 TTTAACCTTAAACCTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTACCAT
1 TTTAACCCTAAAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATT-CCAT
* * * *
15765618 TTTATCCCT-GAACTTCAAAAAATTACCATTTTA
1 TTTAACCCTAAAATTTCCAAAAATTACCATTTTA
15765651 TGCCCGAGCA
Statistics
Matches: 219, Mismatches: 37, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
58 73 0.33
59 132 0.60
60 14 0.06
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (58 bp):
TTTAACCCTAAAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCAT
Found at i:15765667 original size:29 final size:29
Alignment explanation
Indices: 15765574--15765669 Score: 108
Period size: 29 Copynumber: 3.3 Consensus size: 29
15765564 CCTTAAACCT
*
15765574 TCCAAAAATTACCATTTTA-CCCTCAA-A
1 TCCAAAAATTACCATTTTATCCCTGAACA
*
15765601 TGTCCAAAAATTACCATTTTATCCCTGAACT
1 --TCCAAAAATTACCATTTTATCCCTGAACA
* *
15765632 TCAAAAAATTACCATTTTATGCCC-GAGCA
1 TCCAAAAATTACCATTTTAT-CCCTGAACA
15765661 TCCAAAAAT
1 TCCAAAAAT
15765670 CGCATTTTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
29 49 0.84
30 9 0.16
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTATCCCTGAACA
Found at i:15778045 original size:209 final size:209
Alignment explanation
Indices: 15777678--15778343 Score: 902
Period size: 209 Copynumber: 3.2 Consensus size: 209
15777668 ACGAGTTGAC
* * * * * * * ** * *
15777678 CATCTTCCTGATGAGATACAGAGAAGTATACCAACTCGATGGAGCCAAGCTCAAAGTGAGCAAAT
1 CATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAATCAGGCTCAAAGTGAGCGAAT
*
15777743 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTT
66 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* *
15777808 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTGAA
131 CTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCTTGATGAGATACAAAGAAGCAGATTGAA
* *
15777873 ACAAGTGATACGAT
196 ACAAGTGATGCGGT
* *
15777887 CATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATTAATGAAATCATGCTCAAAGTGAGCGAAT
1 CATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAATCAGGCTCAAAGTGAGCGAAT
* * * * *
15777952 CTTCGAATCCCAGCTTCTTGATGAGATACTGAGAAACAGTTCGAGGCAATAAAATGGTTAGCTTC
66 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* * * *
15778017 CTGATGAGATATTGAGAAGCGAACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGGATTGAA
131 CTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCTTGATGAGATACAAAGAAGCAGATTGAA
15778082 ACAAGTGATGCGGT
196 ACAAGTGATGCGGT
* * *
15778096 CATCTTCCTGATGAGGTATTGAGAAGAAGACCAAATCAATGAAGTCAGGCTCAAAGTGAGTGAAT
1 CATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAATCAGGCTCAAAGTGAGCGAAT
* * ** * *
15778161 CTTCGAACCCCTGCTTCCTGATTAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTACCTTC
66 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* * * * * * **
15778226 CTGATGAGATACAGAGAAGTGAACCAGATCCATCTTCTTGATGAGACACAAAGAAGTAGATCAAA
131 CTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCTTGATGAGATACAAAGAAGCAGATTGAA
15778291 ACAAGTGATGCGGT
196 ACAAGTGATGCGGT
* *
15778305 CATCTTCCTGATGAGATACT-ATGAAGTAGACCAAATCAA
1 CATCTTCCTGATGAGGTACTGA-GAAGAAGACCAAATCAA
15778344 ACCACTAAAG
Statistics
Matches: 399, Mismatches: 57, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
208 1 0.00
209 398 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
CATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAATCAGGCTCAAAGTGAGCGAAT
CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
CTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCTTGATGAGATACAAAGAAGCAGATTGAA
ACAAGTGATGCGGT
Found at i:15778639 original size:17 final size:17
Alignment explanation
Indices: 15778617--15778696 Score: 88
Period size: 17 Copynumber: 4.7 Consensus size: 17
15778607 GGGCCAACAG
*
15778617 AATTTAAATATATTTTA
1 AATTTAAATTTATTTTA
* *
15778634 AATTTAAGTTTATATTA
1 AATTTAAATTTATTTTA
* **
15778651 AGTTTAAATTTATTTGG
1 AATTTAAATTTATTTTA
*
15778668 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
*
15778685 AATTTAAGTTTA
1 AATTTAAATTTA
15778697 AATTTATTCA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:15779355 original size:3 final size:3
Alignment explanation
Indices: 15779347--15779391 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
15779337 TTAATAACAT
15779347 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15779392 AAAGGGGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15780490 original size:30 final size:30
Alignment explanation
Indices: 15780454--15780650 Score: 97
Period size: 30 Copynumber: 6.6 Consensus size: 30
15780444 CCCAAGAGGT
15780454 CCCTAAA-TTGTCCAAAAATCATG-TTTTAAC
1 CCCTAAACTT-TCCAAAAATCA-GATTTTAAC
*
15780484 CCCTAAACTTTTCAAAAATCAGATTTTAAC
1 CCCTAAACTTTCCAAAAATCAGATTTTAAC
* * * * ***
15780514 TCCTAAAC-TTCTAAAAATTATATTTTTTG
1 CCCTAAACTTTCCAAAAATCAGATTTTAAC
* *
15780543 CCTTCAAACTTTCC-AAAAT-TGCATCTTTAA-
1 CCCT-AAACTTTCCAAAAATCAG-AT-TTTAAC
* * * *
15780573 CCCTAAA-TTTCTCACAAATTACATTTTCAC
1 CCCTAAACTTTC-CAAAAATCAGATTTTAAC
* *** *
15780603 CCCTGAAC-TTCCAAAAATTCCCTTTTTGA-
1 CCCTAAACTTTCCAAAAA-TCAGATTTTAAC
15780632 CCCTAAACTTTCCAAAAAT
1 CCCTAAACTTTCCAAAAAT
15780651 TACCATTTAC
Statistics
Matches: 126, Mismatches: 28, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
28 4 0.03
29 38 0.30
30 76 0.60
31 8 0.06
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATCAGATTTTAAC
Found at i:15780620 original size:29 final size:29
Alignment explanation
Indices: 15780588--15780980 Score: 163
Period size: 29 Copynumber: 13.4 Consensus size: 29
15780578 AATTTCTCAC
15780588 AAATTA-CATTTTCACCCCTGAACTTCCAA
1 AAATTACCATTTT-ACCCCTGAACTTCCAA
* * *
15780617 AAATTCCCTTTTTGA-CCCTAAACTTTCCAA
1 AAATTACCATTTT-ACCCCTGAAC-TTCCAA
* *
15780647 AAATTACCA-TTTACCCCCGAA-TGTCTAA
1 AAATTACCATTTTACCCCTGAACT-TCCAA
* ** * *
15780675 AAATT-CTATTTTCGACCCCAAAATTTTCAA
1 AAATTACCATTTT--ACCCCTGAACTTCCAA
* **
15780705 AAATTACCATTTTA-CCCTCAAAAGTCCAA
1 AAATTACCATTTTACCCCT-GAACTTCCAA
* ** *
15780734 AAATT-CCATTTTTGATCCCAAAATTTCCAA
1 AAATTACCA-TTTT-ACCCCTGAACTTCCAA
* * *
15780764 AAATTACCATTTTATCTCC-GGA-TGTCTAA
1 AAATTACCATTTTA-CCCCTGAACT-TCCAA
** *
15780793 AAATT-CCATTTTTGACCCCAAAATTTCCAA
1 AAATTACCA-TTTT-ACCCCTGAACTTCCAA
15780823 AAATTACCATTTTACCCCT-AGA-TGTCCAA
1 AAATTACCATTTTACCCCTGA-ACT-TCCAA
* *
15780852 GAATT-CCATTTTTATCCCC-GAACCTTCTAA
1 AAATTACCA-TTTTA-CCCCTGAA-CTTCCAA
* * * *
15780882 AAATCACCATTTT-TCCCTCAAGTGTCCAA
1 AAATTACCATTTTACCCCTGAACT-TCCAA
* * *
15780911 AAATTATCATTTTA-TCCTCGAACCTCCAA
1 AAATTACCATTTTACCCCT-GAACTTCCAA
* * *
15780940 AAATTACCATTTTACCCCCGAGCATCCAA
1 AAATTACCATTTTACCCCTGAACTTCCAA
*
15780969 AAATCA-CATTTT
1 AAATTACCATTTT
15780981 TGACTCCGTT
Statistics
Matches: 278, Mismatches: 52, Indels: 69
0.70 0.13 0.17
Matches are distributed among these distances:
27 3 0.01
28 38 0.14
29 127 0.46
30 89 0.32
31 21 0.08
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATTACCATTTTACCCCTGAACTTCCAA
Found at i:15780629 original size:89 final size:89
Alignment explanation
Indices: 15780478--15780648 Score: 195
Period size: 89 Copynumber: 1.9 Consensus size: 89
15780468 AAAATCATGT
* * * *
15780478 TTTAACCCCTAAACTTTTCAAAAATCAGATTTTAACTCCTAAACTTCTAAAAATTATATTTTTTG
1 TTTAACCCCTAAACTTTTCAAAAATCACATTTTAACCCCTAAACTTCCAAAAATTACA-TTTTTG
*
15780543 -CCTTCAAACTTTCCAAAATTGCATC
65 ACCCT-AAACTTTCCAAAATTGCATC
* * * * * *
15780568 TTTAA-CCCTAAA-TTTCTCACAAATTACATTTTCACCCCTGAACTTCCAAAAATTCCCTTTTTG
1 TTTAACCCCTAAACTTT-TCAAAAATCACATTTTAACCCCTAAACTTCCAAAAATTACATTTTTG
15780631 ACCCTAAACTTTCCAAAA
65 ACCCTAAACTTTCCAAAA
15780649 ATTACCATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
88 22 0.32
89 41 0.60
90 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.37
Consensus pattern (89 bp):
TTTAACCCCTAAACTTTTCAAAAATCACATTTTAACCCCTAAACTTCCAAAAATTACATTTTTGA
CCCTAAACTTTCCAAAATTGCATC
Found at i:15780745 original size:59 final size:59
Alignment explanation
Indices: 15780577--15780915 Score: 339
Period size: 59 Copynumber: 5.7 Consensus size: 59
15780567 CTTTAACCCT
* * * * *
15780577 AAATTTCTCACAAATTA-CATTTTCACCCCTGAACT-TCCAAAAATTCCCTTTTTGACCCTA
1 AAATTTC-CAAAAATTACCATTTT-A-CCCTCAAATGTCCAAAAATTCCATTTTTGACCCCA
* * * * * *
15780637 AACTTTCCAAAAATTACCA-TTTACCCCCGAATGTCTAAAAATTCTATTTTCGACCCCA
1 AAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTTTTGACCCCA
* * *
15780695 AAATTTTCAAAAATTACCATTTTACCCTCAAAAGTCCAAAAATTCCATTTTTGATCCCA
1 AAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTTTTGACCCCA
* ** *
15780754 AAATTTCCAAAAATTACCATTTTA-TCTCCGGATGTCTAAAAATTCCATTTTTGACCCCA
1 AAATTTCCAAAAATTACCATTTTACCCT-CAAATGTCCAAAAATTCCATTTTTGACCCCA
* * *
15780813 AAATTTCCAAAAATTACCATTTTACCC-CTAGATGTCCAAGAATTCCATTTTT-ATCCCCG
1 AAATTTCCAAAAATTACCATTTTACCCTC-AAATGTCCAAAAATTCCATTTTTGA-CCCCA
** * * * *
15780872 AACCTTCTAAAAATCACCATTTTTCCCTCAAGTGTCCAAAAATT
1 AAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATT
15780916 ATCATTTTAT
Statistics
Matches: 231, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
57 5 0.02
58 42 0.18
59 174 0.75
60 10 0.04
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
AAATTTCCAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTTTTGACCCCA
Found at i:15780884 original size:118 final size:119
Alignment explanation
Indices: 15780577--15780894 Score: 382
Period size: 118 Copynumber: 2.7 Consensus size: 119
15780567 CTTTAACCCT
* * *
15780577 AAATTTCTCACAAATTA-CATTTTCACCCCT-GAACT-TCCAAAAATTCCCTTTTTGA-CCCTAA
1 AAATTTC-CAAAAATTACCATTTT-ACCCCTAG-A-TGTCCAAAAATTCCATTTTTGATCCCCAA
*
15780638 ACTTTCCAAAAATTACCA-TTTACCCCCGAATGTCTAAAAATTCTATTTTCGACCCCA
62 ACTTTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTCGACCCCA
* * * *
15780695 AAATTTTCAAAAATTACCATTTTA-CCCTCAAAAGTCCAAAAATTCCATTTTTGAT-CCCAAAAT
1 AAATTTCCAAAAATTACCATTTTACCCCT-AGATGTCCAAAAATTCCATTTTTGATCCCCAAACT
* * * *
15780758 TTCCAAAAATTACCATTTTATCTCCGGATGTCTAAAAATTCCATTTTTGACCCCA
65 TTCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTCGACCCCA
* * *
15780813 AAATTTCCAAAAATTACCATTTTACCCCTAGATGTCCAAGAATTCCATTTTT-ATCCCCGAACCT
1 AAATTTCCAAAAATTACCATTTTACCCCTAGATGTCCAAAAATTCCATTTTTGATCCCCAAACTT
* *
15780877 TCTAAAAATCACCATTTT
66 TCCAAAAATTACCATTTT
15780895 TCCCTCAAGT
Statistics
Matches: 171, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
116 4 0.02
117 52 0.30
118 111 0.65
119 4 0.02
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (119 bp):
AAATTTCCAAAAATTACCATTTTACCCCTAGATGTCCAAAAATTCCATTTTTGATCCCCAAACTT
TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTCGACCCCA
Found at i:15780913 original size:118 final size:119
Alignment explanation
Indices: 15780577--15780957 Score: 329
Period size: 118 Copynumber: 3.2 Consensus size: 119
15780567 CTTTAACCCT
* * ** * *
15780577 AAATTTCTCACAAATTA-CATTTTCACCCCT-GAACTTCCAAAAATTCCCTTTTTGA-CCCTAAA
1 AAATTTC-CAAAAATTACCATTTT-ACCCCTCAAAAGTCCAAAAATTCCATTTTTGATCCCAAAA
* * ** * *
15780639 CTTTCCAAAAATTACCA-TTTA-CCCCCGAATGTCTAAAAATTCTATTTTCGACCCCA
64 C-TTCCAAAAATCACCATTTTATCTCAAG-ATGTCTAAAAATTCCATTTTTGACCCCA
* *
15780695 AAATTTTCAAAAATTACCATTTTA-CCCTCAAAAGTCCAAAAATTCCATTTTTGATCCCAAAATT
1 AAATTTCCAAAAATTACCATTTTACCCCTCAAAAGTCCAAAAATTCCATTTTTGATCCCAAAACT
* **
15780759 TCCAAAAATTACCATTTTATCTCCGGATGTCTAAAAATTCCATTTTTGACCCCA
66 TCCAAAAATCACCATTTTATCTCAAGATGTCTAAAAATTCCATTTTTGACCCCA
* * * * *
15780813 AAATTTCCAAAAATTACCATTTTACCCCT-AGATGTCCAAGAATTCCATTTTT-ATCCCCGAACC
1 AAATTTCCAAAAATTACCATTTTACCCCTCAAAAGTCCAAAAATTCCATTTTTGAT-CCCAAAAC
* * * *
15780876 TTCTAAAAATCACCATTTT-TCCCTCAAG-TGTCCAAAAATTATCA-TTTT-ATCCTC-
65 TTCCAAAAATCACCATTTTAT--CTCAAGATGTCTAAAAATT-CCATTTTTGA-CCCCA
* **
15780930 GAACCTCCAAAAATTACCATTTTACCCC
1 AAATTTCCAAAAATTACCATTTTACCCC
15780958 CGAGCATCCA
Statistics
Matches: 223, Mismatches: 29, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
116 4 0.02
117 74 0.33
118 131 0.59
119 14 0.06
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (119 bp):
AAATTTCCAAAAATTACCATTTTACCCCTCAAAAGTCCAAAAATTCCATTTTTGATCCCAAAACT
TCCAAAAATCACCATTTTATCTCAAGATGTCTAAAAATTCCATTTTTGACCCCA
Found at i:15780924 original size:59 final size:58
Alignment explanation
Indices: 15780642--15780957 Score: 243
Period size: 59 Copynumber: 5.4 Consensus size: 58
15780632 CCCTAAACTT
* * * * * **
15780642 TCCAAAAATTACCA-TTTACCCC-CGAATGTCTAAAAATTCTATTTTCGA-CCCCAAAATT
1 TCCAAAAATTACCATTTTACCCCAAG-ATGTCCAAAAATTCCATTTT-TATCCCC-GAACC
* * ** **
15780700 TTCAAAAATTACCATTTTACCCTCAA-AAGTCCAAAAATTCCATTTTTGATCCCAAAATT
1 TCCAAAAATTACCATTTTACCC-CAAGATGTCCAAAAATTCCATTTTT-ATCCCCGAACC
* * * * **
15780759 TCCAAAAATTACCATTTTATCTCC-GGATGTCTAAAAATTCCATTTTTGA-CCCCAAAATT
1 TCCAAAAATTACCATTTTA-CCCCAAGATGTCCAAAAATTCCATTTTT-ATCCCC-GAACC
* *
15780818 TCCAAAAATTACCATTTTACCCCTAGATGTCCAAGAATTCCATTTTTATCCCCGAACC
1 TCCAAAAATTACCATTTTACCCCAAGATGTCCAAAAATTCCATTTTTATCCCCGAACC
* * * * *
15780876 TTCTAAAAATCACCATTTTTCCCTCAAG-TGTCCAAAAATTATCA-TTTTATCCTCGAACC
1 -TCCAAAAATTACCATTTTACCC-CAAGATGTCCAAAAATT-CCATTTTTATCCCCGAACC
15780935 TCCAAAAATTACCATTTTACCCC
1 TCCAAAAATTACCATTTTACCCC
15780958 CGAGCATCCA
Statistics
Matches: 215, Mismatches: 30, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.00
58 41 0.19
59 162 0.75
60 11 0.05
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCCAAGATGTCCAAAAATTCCATTTTTATCCCCGAACC
Found at i:15782603 original size:17 final size:17
Alignment explanation
Indices: 15782583--15782632 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
15782573 CTCTTTCTCT
15782583 CTCCATCTTCTTCCCCA
1 CTCCATCTTCTTCCCCA
* **
15782600 CTCCATTTTCTTATCCA
1 CTCCATCTTCTTCCCCA
15782617 CTCCATCTTTCTTCCC
1 CTCCATC-TTCTTCCC
15782633 AGTACCAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.12, C:0.46, G:0.00, T:0.42
Consensus pattern (17 bp):
CTCCATCTTCTTCCCCA
Found at i:15785048 original size:23 final size:23
Alignment explanation
Indices: 15785020--15785140 Score: 129
Period size: 23 Copynumber: 5.2 Consensus size: 23
15785010 ACACTAGTGC
*
15785020 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACGTCGT-GT
15785043 GCTCTCTGTTATTAGCACTGT-GTGT
1 GCTCTCTG--ATTAGCAC-GTCGTGT
*
15785068 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACGTCGTGT
* *
15785091 GCTATCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACGTCGTGT
* * *
15785114 GCTATCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACGTCGTGT
15785137 GCTC
1 GCTC
15785141 AGTACTTTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.01
23 67 0.76
25 17 0.19
26 3 0.03
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACGTCGTGT
Found at i:15785106 original size:46 final size:47
Alignment explanation
Indices: 15785020--15785139 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
15785010 ACACTAGTGC
* * *
15785020 GCTCTCTGTTTAGCACGTC-TCGTGCTCTCTGTTATTAGCACTGT-GTGT
1 GCTCTCTGATTAGCACTTCGT-GTGCTATCTG-TATTAGCACT-TCGTGT
15785068 GCTCTCTGATTAGCACTTCGTGTGCTATCTG-ATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACTTCGTGTGCTATCTGTATTAGCACTTCGTGT
* *
15785114 GCTATCTGATTAGCACTTTGTGTGCT
1 GCTCTCTGATTAGCACTTCGTGTGCT
15785140 CAGTACTTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
45 1 0.02
46 37 0.57
48 26 0.40
49 1 0.02
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (47 bp):
GCTCTCTGATTAGCACTTCGTGTGCTATCTGTATTAGCACTTCGTGT
Found at i:15785174 original size:23 final size:23
Alignment explanation
Indices: 15785144--15785233 Score: 87
Period size: 23 Copynumber: 3.9 Consensus size: 23
15785134 TGTGCTCAGT
15785144 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
*
15785167 ACTTTGTGTGCTCTCTGTTGCCTAGC
1 ACTTTGTGTACTCTCTGTT---TAGC
*
15785193 ACTTATGTG--CTCTCTGTTTAGT
1 ACTT-TGTGTACTCTCTGTTTAGC
* *
15785215 ACTTCG-GTACTCTCCGTTT
1 ACTTTGTGTACTCTCTGTTT
15785234 GTTTCGTATC
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.28
23 18 0.32
25 9 0.16
26 8 0.14
27 4 0.07
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:15786110 original size:13 final size:13
Alignment explanation
Indices: 15786051--15786110 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
15786041 GGACTTAATG
*
15786051 AATTTTTTTATAT
1 AATTTTTTAATAT
15786064 AATTTTTTAATAAT
1 AATTTTTTAAT-AT
* *
15786078 ATATATTTT--T-G
1 A-ATTTTTTAATAT
15786089 AATTTTTTAATAT
1 AATTTTTTAATAT
15786102 AATTTTTTA
1 AATTTTTTA
15786111 CATTTTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
10 6 0.16
11 1 0.03
12 1 0.03
13 20 0.54
14 3 0.08
15 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
AATTTTTTAATAT
Found at i:15788739 original size:31 final size:30
Alignment explanation
Indices: 15788681--15788739 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15788671 TTAAGTGATT
* *
15788681 AAATTGAAAAAATTAATAGTTTAGTGACCA
1 AAATAGAAAAAATTAATAGTTGAGTGACCA
* *
15788711 AAATAGAACAAATTGAATAGTTGGGTGAC
1 AAATAGAAAAAATT-AATAGTTGAGTGAC
15788740 TATTCAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (30 bp):
AAATAGAAAAAATTAATAGTTGAGTGACCA
Found at i:15792365 original size:57 final size:58
Alignment explanation
Indices: 15792268--15792511 Score: 298
Period size: 57 Copynumber: 4.2 Consensus size: 58
15792258 AACTGCCACT
* *
15792268 ATTTTACAGTTTTGCCA-TAGTTTTTCCAGATTTTACAGTTTTGCCACTAATTTTTCAG
1 ATTTTACAGTTTTGCCACT-GGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTCAG
15792326 ATTTTACAGTTTTG-CACTGGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTCAG
1 ATTTTACAGTTTTGCCACTGGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTCAG
* * ** *
15792383 ATTTTACAATTTTGCCACTGGTTTTCTAGATTTTACAACTTTGTCACT-A-TTTTCTAG
1 ATTTTACAGTTTTGCCACTGGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTC-AG
* * * * * * * *
15792440 ATTTTATAGTTTTGCCACTAGTTTTCTATATTTTATAGTTTTGCCACTGGTTTTCCAA
1 ATTTTACAGTTTTGCCACTGGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTCAG
*
15792498 ATTTTACAATTTTG
1 ATTTTACAGTTTTG
15792512 TTACTATTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
56 5 0.03
57 95 0.59
58 57 0.35
59 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (58 bp):
ATTTTACAGTTTTGCCACTGGTTTTCCAGATTTTACAGTTTTGCCACTGATTTTTCAG
Found at i:15792414 original size:86 final size:85
Alignment explanation
Indices: 15792268--15792521 Score: 307
Period size: 86 Copynumber: 3.0 Consensus size: 85
15792258 AACTGCCACT
**
15792268 ATTTTACAGTTTTGCCA-TAGTTTTTCCAGATTTTACAGTTTTGCCACTAATTTT-TCAGATTTT
1 ATTTTACAGTTTTGCCACTA-TTTTT-CAGATTTTACAGTTTTGCCACTGGTTTTCT-AGATTTT
* *
15792331 ACAGTTTTG-CACTGGTTTTCCAG
63 ACAATTTTGTCACT-ATTTTCCAG
*
15792354 ATTTTACAGTTTTGCCACTGATTTTTCAGATTTTACAATTTTGCCACTGGTTTTCTAGATTTTAC
1 ATTTTACAGTTTTGCCACT-ATTTTTCAGATTTTACAGTTTTGCCACTGGTTTTCTAGATTTTAC
* *
15792419 AACTTTGTCACTATTTTCTAG
65 AATTTTGTCACTATTTTCCAG
* * * * * *
15792440 ATTTTATAGTTTTGCCACTAGTTTTCTATATTTTATAGTTTTGCCACTGGTTTTCCAAATTTTAC
1 ATTTTACAGTTTTGCCACTATTTTTC-AGATTTTACAGTTTTGCCACTGGTTTTCTAGATTTTAC
*
15792505 AATTTTGTTACTATTTT
65 AATTTTGTCACTATTTT
15792522 TCAAAAAATT
Statistics
Matches: 147, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
85 6 0.04
86 129 0.88
87 11 0.07
88 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (85 bp):
ATTTTACAGTTTTGCCACTATTTTTCAGATTTTACAGTTTTGCCACTGGTTTTCTAGATTTTACA
ATTTTGTCACTATTTTCCAG
Found at i:15792523 original size:29 final size:29
Alignment explanation
Indices: 15792268--15792511 Score: 280
Period size: 29 Copynumber: 8.5 Consensus size: 29
15792258 AACTGCCACT
15792268 ATTTTACAGTTTTGCCA-TAGTTTTTCCAG
1 ATTTTACAGTTTTGCCACTAG-TTTTCCAG
* *
15792297 ATTTTACAGTTTTGCCACTAATTTTTCAG
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
*
15792326 ATTTTACAGTTTTG-CACTGGTTTTCCAG
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
*
15792354 ATTTTACAGTTTTGCCACT-GATTTTTCAG
1 ATTTTACAGTTTTGCCACTAG-TTTTCCAG
* * *
15792383 ATTTTACAATTTTGCCACTGGTTTTCTAG
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
** * *
15792412 ATTTTACAACTTTGTCACTA-TTTTCTAG
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
* * *
15792440 ATTTTATAGTTTTGCCACTAGTTTTCTAT
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
* * *
15792469 ATTTTATAGTTTTGCCACTGGTTTTCCAA
1 ATTTTACAGTTTTGCCACTAGTTTTCCAG
*
15792498 ATTTTACAATTTTG
1 ATTTTACAGTTTTG
15792512 TTACTATTTT
Statistics
Matches: 188, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
28 50 0.27
29 135 0.72
30 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (29 bp):
ATTTTACAGTTTTGCCACTAGTTTTCCAG
Found at i:15792996 original size:36 final size:36
Alignment explanation
Indices: 15792968--15793192 Score: 207
Period size: 36 Copynumber: 5.8 Consensus size: 36
15792958 ATAAGATGAT
*
15792968 TATTATTTGATTGATTATGCTATATGATATGGTAAA
1 TATTATTTGATTGATTATGCTATACGATATGGTAAA
* * *
15793004 TATTATTTGATTAATTATACTATACAATATGGTAAA
1 TATTATTTGATTGATTATGCTATACGATATGGTAAA
* *
15793040 TGTTATTTGATTGATTATGCTATGCGATATGGTAAA
1 TATTATTTGATTGATTATGCTATACGATATGGTAAA
*
15793076 TATTATTTCATTGATTATGCTATACTGTATGCATGATATGGTAAA
1 TATTATTTGATTGATTATGC--TA---TA--C--GATATGGTAAA
* *
15793121 AATTATTTGATTAATTATGCTATACGATGTGTGTGATATGGTAAA
1 TATTATTTGATTGATTATGCTATAC---------GATATGGTAAA
15793166 TATTATTTGATTGATTATGCTATACGA
1 TATTATTTGATTGATTATGCTATACGA
15793193 CACACATGAT
Statistics
Matches: 155, Mismatches: 18, Indels: 32
0.76 0.09 0.16
Matches are distributed among these distances:
36 83 0.54
38 3 0.02
40 2 0.01
41 1 0.01
43 3 0.02
45 63 0.41
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (36 bp):
TATTATTTGATTGATTATGCTATACGATATGGTAAA
Found at i:15793191 original size:45 final size:46
Alignment explanation
Indices: 15793065--15793192 Score: 190
Period size: 45 Copynumber: 2.8 Consensus size: 46
15793055 TATGCTATGC
*
15793065 GATATGGTAAATATTATTTCATTGATTATGCTATAC--TGTATGCAT
1 GATATGGTAAATATTATTTGATTGATTATGCTATACGATGTATG-AT
* * *
15793110 GATATGGTAAAAATTATTTGATTAATTATGCTATACGATGTGTG-T
1 GATATGGTAAATATTATTTGATTGATTATGCTATACGATGTATGAT
15793155 GATATGGTAAATATTATTTGATTGATTATGCTATACGA
1 GATATGGTAAATATTATTTGATTGATTATGCTATACGA
15793193 CACACATGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 70 0.93
47 5 0.07
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (46 bp):
GATATGGTAAATATTATTTGATTGATTATGCTATACGATGTATGAT
Found at i:15794649 original size:16 final size:15
Alignment explanation
Indices: 15794621--15794651 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
15794611 TTATAATCTA
15794621 TATTATAATAATAGT
1 TATTATAATAATAGT
15794636 TATTATATATAATAGT
1 TATTATA-ATAATAGT
15794652 AGTATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTATAATAATAGT
Found at i:15794659 original size:20 final size:19
Alignment explanation
Indices: 15794619--15794666 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
15794609 TATTATAATC
15794619 TATATTATAATAATAGTTAT
1 TATA-TATAATAATAGTTAT
*
15794639 TATATATAATAGTAGTATAT
1 TATATATAATAATAGT-TAT
15794659 TATATATA
1 TATATATA
15794667 TTACTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (19 bp):
TATATATAATAATAGTTAT
Found at i:15794667 original size:22 final size:20
Alignment explanation
Indices: 15794619--15794666 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
15794609 TATTATAATC
15794619 TATAT-TATAATAATAGTTA
1 TATATATATAATAATAGTTA
*
15794638 T-TATATATAATAGTAG-TA
1 TATATATATAATAATAGTTA
15794656 TATTATATATA
1 TA-TATATATA
15794667 TTACTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 11 0.44
20 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
TATATATATAATAATAGTTA
Found at i:15796453 original size:29 final size:31
Alignment explanation
Indices: 15796405--15796489 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 31
15796395 AGACTTATCT
*
15796405 CTTAAATATGAAATGTAGAAAGACTAAATTC
1 CTTAAATATGAAAAGTAGAAAGACTAAATTC
*
15796436 CTTAAA-AT-AAAAGTAGAAGGACTAAATTC
1 CTTAAATATGAAAAGTAGAAAGACTAAATTC
* * *
15796465 C-AAACATATAAAAAGTATAAAGACT
1 CTTAA-ATATGAAAAGTAGAAAGACT
15796490 TAGAACATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 2 0.04
29 21 0.46
30 4 0.09
31 19 0.41
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (31 bp):
CTTAAATATGAAAAGTAGAAAGACTAAATTC
Found at i:15796886 original size:3 final size:3
Alignment explanation
Indices: 15796811--15796868 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
15796801 TTTTCCGTCG
15796811 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
15796859 CTT CTT CTT C
1 CTT CTT CTT C
15796869 GCCTAAAAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:15797396 original size:32 final size:33
Alignment explanation
Indices: 15797330--15797396 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
15797320 TCAGGGATTA
* *
15797330 TTTTTCTTTTTTGTAAAATCTTGTGTAAAATCT
1 TTTTTCTTTTTTGTAAAATCTTGGGGAAAATCT
* * *
15797363 TTTTTTTTTTTTGT-AAATTTTGGGGAAATTCT
1 TTTTTCTTTTTTGTAAAATCTTGGGGAAAATCT
15797395 TT
1 TT
15797397 GTTGTAAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (33 bp):
TTTTTCTTTTTTGTAAAATCTTGGGGAAAATCT
Found at i:15797524 original size:3 final size:3
Alignment explanation
Indices: 15797516--15797548 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15797506 TATGTATTTT
15797516 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
15797549 ACGACAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15801643 original size:10 final size:10
Alignment explanation
Indices: 15801626--15801694 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 10
15801616 TAAAAACTTG
*
15801626 ATTTTTTTTCA
1 ATTTTTTAT-A
15801637 ATTTTTTATA
1 ATTTTTTATA
*
15801647 ATTTTTAAATA
1 ATTTTT-TATA
* *
15801658 ATTGTTGATA
1 ATTTTTTATA
15801668 ATTTTTTAATA
1 ATTTTTT-ATA
*
15801679 A-TTTCTA-A
1 ATTTTTTATA
15801687 ATTTTTTA
1 ATTTTTTA
15801695 ATTTTTAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 19 0.40
11 20 0.43
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:15801660 original size:21 final size:21
Alignment explanation
Indices: 15801636--15801682 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15801626 ATTTTTTTTC
*
15801636 AATTTTTTATAATTTTTAAAT
1 AATTTTTGATAATTTTTAAAT
* *
15801657 AATTGTTGATAATTTTTTAAT
1 AATTTTTGATAATTTTTAAAT
15801678 AATTT
1 AATTT
15801683 CTAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
AATTTTTGATAATTTTTAAAT
Found at i:15803441 original size:4 final size:4
Alignment explanation
Indices: 15803432--15803477 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
15803422 TGTTTTTAAC
*
15803432 TTTA TTTA TTTA TTT- TATT- TTTA TTTA TTTA TCTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
15803478 AATAAATACA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 31 0.84
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:15803454 original size:19 final size:18
Alignment explanation
Indices: 15803432--15803477 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
15803422 TGTTTTTAAC
*
15803432 TTTATTTATTTATTTTATT
1 TTTATTTATTTA-TCTATT
15803451 TTTATTTATTTATCTATT
1 TTTATTTATTTATCTATT
15803469 TATTATTTA
1 T-TTATTTA
15803478 AATAAATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTATCTATT
Found at i:15803460 original size:23 final size:23
Alignment explanation
Indices: 15803432--15803477 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15803422 TGTTTTTAAC
*
15803432 TTTATTTATTTATTTTATT-TTTA
1 TTTATTTATCTA-TTTATTATTTA
15803455 TTTATTTATCTATTTATTATTTA
1 TTTATTTATCTATTTATTATTTA
15803478 AATAAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTATCTATTTATTATTTA
Found at i:15803474 original size:15 final size:15
Alignment explanation
Indices: 15803433--15803477 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
15803423 GTTTTTAACT
15803433 TTATTTATTTATTTTA
1 TTATTTATTTA-TTTA
15803449 TT-TTTATTTATTTA
1 TTATTTATTTATTTA
15803463 TCTATTTA-TTATTTA
1 T-TATTTATTTATTTA
15803478 AATAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 16 0.59
16 6 0.22
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:15806334 original size:50 final size:51
Alignment explanation
Indices: 15806280--15806393 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 51
15806270 CTTATACCTT
* *
15806280 TAAAGCTGTAGAGGAACG-A-ATTGAAGTCGCAATGGCAAATCTCATACACC
1 TAAAGCTATAGAGG-ACGCAGATTGAAGCCGCAATGGCAAATCTCATACACC
* * * *
15806330 TAAAGCTCTAGA-GAGGCAGATTGAAGCCGCAATGGCGAATCTCATTCACC
1 TAAAGCTATAGAGGACGCAGATTGAAGCCGCAATGGCAAATCTCATACACC
15806380 TAAAGCTATAGAGG
1 TAAAGCTATAGAGG
15806394 GATAGATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 2 0.04
49 2 0.04
50 50 0.91
51 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (51 bp):
TAAAGCTATAGAGGACGCAGATTGAAGCCGCAATGGCAAATCTCATACACC
Found at i:15806421 original size:50 final size:50
Alignment explanation
Indices: 15806307--15806411 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
15806297 GAATTGAAGT
* * *
15806307 CGCAATGGCAAATCTCATACACCTAAAGCTCTAGAGAGGCAGATTGAAGC
1 CGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGGCAGATTAAAGC
* *
15806357 CGCAATGGCGAATCTCATTCACCTAAAGCTATAGAG-GGATAGATTAAAGC
1 CGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGG-CAGATTAAAGC
*
15806407 TGCAA
1 CGCAA
15806412 GAGTGAATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 2 0.04
50 46 0.96
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (50 bp):
CGCAATGGCGAATCTCATACACCTAAAGCTATAGAGAGGCAGATTAAAGC
Found at i:15806620 original size:125 final size:125
Alignment explanation
Indices: 15806388--15806640 Score: 375
Period size: 125 Copynumber: 2.0 Consensus size: 125
15806378 CCTAAAGCTA
*
15806388 TAGAGGGATAGATTAAAGCTGCAAGAGTGAATCTTATACTCCTGAAGCTGAAAAAGGGTAAATTG
1 TAGAGGGATAGATTAAAGCTGCAAGAGCGAATCTTATACTCCTGAAGCTGAAAAAGGGTAAATTG
* ** * *
15806453 AAGCTACAAGAACAGATCTTATACCACTAAAGTTGTGAAGAGGCGA-ATTAAAACTCGCTG
66 AAGCTACAAGAACAAATCTTATACCACTAAAACTATGAAGAGG-GAGATTAAAACTCGCAG
*
15806513 TAGAGGGGTAGATTAAAGCTGCAAGAGCGAATCTTATACTCCTGAAGCTGAAAAAGGGTAAATTG
1 TAGAGGGATAGATTAAAGCTGCAAGAGCGAATCTTATACTCCTGAAGCTGAAAAAGGGTAAATTG
* * * *
15806578 AAGCTACAATAGCAAATCTTATACCCCTAAAACTAT-AGAGAGGTAGATTAAAACTCGCAG
66 AAGCTACAAGAACAAATCTTATACCACTAAAACTATGA-AGAGGGAGATTAAAACTCGCAG
15806638 TAG
1 TAG
15806641 CAGACCTCAA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
124 2 0.02
125 113 0.98
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (125 bp):
TAGAGGGATAGATTAAAGCTGCAAGAGCGAATCTTATACTCCTGAAGCTGAAAAAGGGTAAATTG
AAGCTACAAGAACAAATCTTATACCACTAAAACTATGAAGAGGGAGATTAAAACTCGCAG
Found at i:15806847 original size:40 final size:40
Alignment explanation
Indices: 15806731--15807182 Score: 370
Period size: 40 Copynumber: 11.4 Consensus size: 40
15806721 GAAATCATCA
* *
15806731 CATCTAATCTTTTACGCCGACCATGGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* ** ** * * *
15806771 CATTCAATCTTTTACCCTAATTA-GAAGACAGTTTGAAGAC
1 CATCCAATCTTTTACCCCGACCATG-GGGCAGATTGAAGAC
15806811 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAG-C
1 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* * * *
15806850 AAT-CAAGTCTTTTACCCTGACCATGGGGTAGATTGAGGAC
1 CATCCAA-TCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* ** *
15806890 CAACCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGA-
1 CATCCAATCTTTTACCCCGACCATG-GGGCAGATTGAAGAC
* *
15806929 CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAGGAC
1 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* ** ** *
15806969 CGA-CCAATCTTTTATCCTAATTA-GAGGGTAGATTGAAGAC
1 C-ATCCAATCTTTTACCCCGACCATG-GGGCAGATTGAAGAC
* *
15807009 CATCCAATCTTTTACCCCGACCATGAGGTAGATTGAAGTA-
1 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAG-AC
** *
15807049 -ATCCAATCTTTTACCCTAAACA-GAGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCCCGACCATG-GGGCAGATTGAAGAC
* * *
15807088 CATCTGAA-CTCTTACCCCGACCATGGGGCAGATTCAAGAC
1 CATC-CAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* * * ** *
15807128 TATCCGATCTCTTACCTAGACCATGGGGTAGATTGAAG-C
1 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
* *
15807167 AATCCAATCATTTACC
1 CATCCAATCTTTTACC
15807183 GCTAAAGCTA
Statistics
Matches: 327, Mismatches: 66, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
38 5 0.02
39 112 0.34
40 200 0.61
41 10 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (40 bp):
CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGAC
Found at i:15806905 original size:79 final size:79
Alignment explanation
Indices: 15806803--15807182 Score: 357
Period size: 79 Copynumber: 4.8 Consensus size: 79
15806793 AGAAGACAGT
* **
15806803 TTGAAGACCATCCAATCTTTTACCCCGACCATG-GGGCAGATTGAAG-CAATCAAGTCTTTTACC
1 TTGAGGACCATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACAATCAA-TCTTTTACC
* *
15806866 CTGACCATGGGGTAGA
64 CCGACCATGGGGCAGA
* *
15806882 TTGAGGACCAACCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGAC-ATCCAATCTTTTACCC
1 TTGAGGACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAAT-CAATCTTTTACCC
*
15806946 CAACCATGGGGCAGA
65 CGACCATGGGGCAGA
* ** * *
15806961 TTGAGGACCGA-CCAATCTTTTATCCTAATTAGAGGGTAGATTGAAGACCATCCAATCTTTTACC
1 TTGAGGACC-ATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAAT-CAATCTTTTACC
* *
15807025 CCGACCATGAGGTAGA
64 CCGACCATGGGGCAGA
* * * *
15807041 TTGAAGTA--ATCCAATCTTTTACCCTAAACAGAGGGCAGATTGAAGACCATCTGAA-CTCTTAC
1 TTG-AGGACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAATC--AATCTTTTAC
15807103 CCCGACCATGGGGCAGA
63 CCCGACCATGGGGCAGA
* * * * * * *
15807120 TTCAAGACTATCCGATCTCTTA-CCTAGACCATG-GGGTAGATTGAAG-CAATCCAATCATTTAC
1 TTGAGGACCATCCAATCTTTTACCCTA-ACCA-GAGGGCAGATTGAAGACAAT-CAATCTTTTAC
15807182 C
63 C
15807183 GCTAAAGCTA
Statistics
Matches: 254, Mismatches: 32, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
78 7 0.03
79 178 0.70
80 65 0.26
81 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (79 bp):
TTGAGGACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACAATCAATCTTTTACCCC
GACCATGGGGCAGA
Found at i:15806980 original size:119 final size:117
Alignment explanation
Indices: 15806736--15807182 Score: 397
Period size: 119 Copynumber: 3.8 Consensus size: 117
15806726 CATCACATCT
* * * *
15806736 AATCTTTTACGCC-GACCATGGGGCAGATTGAAGACCATTCAATCTTTTACCCTAATTAGAAGAC
1 AATCTTTTAC-CCTGACCATGGGGTAGATTGAAGACCATCCAATCTTTTACCCTAATCAG-AGGC
* * * *
15806800 AGTTTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAGATTGA-AGCAATC
64 AGATTGAAGA-CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAGACCAACC
* *
15806854 AAGTCTTTTACCCTGACCATGGGGTAGATTGAGGACCAACCAATCTTTTACCCTAATCAGAGGGC
1 AA-TCTTTTACCCTGACCATGGGGTAGATTGAAGACCATCCAATCTTTTACCCTAATCAGA-GGC
*
15806919 AGATTGAAGACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAGGACCGACC
64 AGATTGAAGACATCCAATCTTTTACCCCAACCATGGGGCAGATTGA-GACCAACC
* * ** ** * *
15806974 AATCTTTTATCCTAATTA-GAGGGTAGATTGAAGACCATCCAATCTTTTACCCCGACCATGAGGT
1 AATCTTTTACCCTGACCATG-GGGTAGATTGAAGACCATCCAATCTTTTACCCTAATCA-GAGGC
* * * *
15807038 AGATTGAAGTA-ATCCAATCTTTTACCCTAAACA-GAGGGCAGATTGAAGACCATCTG
64 AGATTGAAG-ACATCCAATCTTTTACCCCAACCATG-GGGCAGATTG-AGACCAAC-C
* * * * * * * * * *
15807094 AA-CTCTTACCCCGACCATGGGGCAGATTCAAGACTATCCGATCTCTTA-CCTAGACCATGGGGT
1 AATCTTTTACCCTGACCATGGGGTAGATTGAAGACCATCCAATCTTTTACCCTA-ATCA-GAGGC
*
15807157 AGATTGAAG-CAATCCAATCATTTACC
64 AGATTGAAGAC-ATCCAATCTTTTACC
15807183 GCTAAAGCTA
Statistics
Matches: 273, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
118 44 0.16
119 216 0.79
120 13 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (117 bp):
AATCTTTTACCCTGACCATGGGGTAGATTGAAGACCATCCAATCTTTTACCCTAATCAGAGGCAG
ATTGAAGACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAGACCAACC
Found at i:15807083 original size:198 final size:198
Alignment explanation
Indices: 15806730--15807187 Score: 525
Period size: 198 Copynumber: 2.3 Consensus size: 198
15806720 CGAAATCATC
* * * *
15806730 ACATCTAATCTTTTACGCCGACCATGGGGCAGATTGAAGACCATTCAATCTTTTACCCTAATTAG
1 ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATTAG
* *
15806795 AAGACAGTTTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAGCAATCAAGTCT
66 AAGACAGATTGAAGACCATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGCAATCAAGTCT
* * * *
15806860 TTTACCCTGACCATGGGGTAGATTGAGGACCAACCAATCTTTTACCCTAATCAGAGGGCAGATTG
131 TTTACCCTAAACATGGGGCAGATTGAAGACCAACCAATCTTTTACCCTAATCAGAGGGCAGATTG
15806925 AAG
196 AAG
* *
15806928 ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAGGACCGA-CCAATCTTTTATCCTAATTA
1 ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACC-ATCCAATCTTTTACCCTAATTA
* ** * *
15806992 GAGGGTAGATTGAAGACCATCCAATCTTTTACCCCGACCATGAGGTAGATTGAAGTAATCCAA-T
65 GAAGACAGATTGAAGACCATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGCAAT-CAAGT
* * * ** *
15807056 CTTTTACCCTAAACA-GAGGGCAGATTGAAGACCATCTGAA-CTCTTACCCCGACCATG-GGGCA
129 CTTTTACCCTAAACATG-GGGCAGATTGAAGACCAAC-CAATCTTTTACCCTAATCA-GAGGGCA
*
15807118 GATTCAAG
191 GATTGAAG
* * * * * *
15807126 ACTATCCGATCTCTTA-CCTAGACCATGGGGTAGATTGAAG-CAATCCAATCATTTACCGCTAA
1 AC-ATCCAATCTTTTACCCCA-ACCATGGGGCAGATTGAAGACCATCCAATCTTTTACC-CTAA
15807188 AGCTATAGAG
Statistics
Matches: 219, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
197 2 0.01
198 178 0.81
199 39 0.18
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (198 bp):
ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCTAATTAG
AAGACAGATTGAAGACCATCCAATCTTTTACCCCGACCATGAGGCAGATTGAAGCAATCAAGTCT
TTTACCCTAAACATGGGGCAGATTGAAGACCAACCAATCTTTTACCCTAATCAGAGGGCAGATTG
AAG
Found at i:15807850 original size:4 final size:4
Alignment explanation
Indices: 15807841--15807890 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
15807831 TGTTTTTAAC
* *
15807841 TTTA TTTA TTTA TTTC TTT- TATT- TTTA TTTA TTTA TCTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
15807887 TTTA
1 TTTA
15807891 AATAAATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
3 6 0.15
4 34 0.85
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:15807890 original size:23 final size:20
Alignment explanation
Indices: 15807842--15807890 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
15807832 GTTTTTAACT
15807842 TTATTTATTTATTTCTTTTA
1 TTATTTATTTATTTCTTTTA
15807862 TT-TTTATTTATTTATCTATTTA
1 TTATTTATTTA-TT-TCT-TTTA
15807884 TTATTTA
1 TTATTTA
15807891 AATAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 3 0.12
22 6 0.24
23 4 0.16
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTATTTATTTCTTTTA
Found at i:15808981 original size:29 final size:28
Alignment explanation
Indices: 15808927--15809012 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
15808917 ATGTTTTGAC
* *
15808927 CCCCAAACTTTTCAATAATTCCAATTTTA
1 CCCCAAACTTTCCAA-AAATCCAATTTTA
*
15808956 CCCCTAAACTTTCCAAAAATCTAATTTTA
1 CCCC-AAACTTTCCAAAAATCCAATTTTA
* * * *
15808985 CCCCGAATTTTCCAAAAATTCAAATTTA
1 CCCCAAACTTTCCAAAAATCCAATTTTA
15809013 ATCCGATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 19 0.40
29 19 0.40
30 10 0.21
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.35
Consensus pattern (28 bp):
CCCCAAACTTTCCAAAAATCCAATTTTA
Found at i:15809018 original size:28 final size:27
Alignment explanation
Indices: 15808965--15809022 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
15808955 ACCCCTAAAC
* *
15808965 TTTCCAAAAATCTAATTTTACCCCGAAT
1 TTTCCAAAAATCTAAATTTAACCCG-AT
*
15808993 TTTCCAAAAAT-TCAAATTTAATCCGAT
1 TTTCCAAAAATCT-AAATTTAACCCGAT
15809020 TTT
1 TTT
15809023 AATGTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (27 bp):
TTTCCAAAAATCTAAATTTAACCCGAT
Found at i:15817141 original size:130 final size:130
Alignment explanation
Indices: 15816908--15817160 Score: 416
Period size: 130 Copynumber: 1.9 Consensus size: 130
15816898 ACAAGATCAG
*
15816908 ATCTTATATCCCTAAAGTTATAGAGAGACAAATTAAAACTCGTAATAGCAGACATCAATCTCCAC
1 ATCTTATATCCCTAAAATTATAGAGAGACAAATTAAAACTCGTAATAGCAGACATCAATCTCCAC
* * * *
15816973 TAAAGTTGTAGTGGAATGGAGTGAAGCCAAATCAATCTCTCTAAAGTTGCAATAGAATGGAGTGA
66 TAAAATTGTAATAGAATGGAGTGAAGCCAAATCAATCTCCCTAAAGTTGCAATAGAATGGAGTGA
* * * *
15817038 ATCTTATATCCCTAAAATTGTAGAGAGACAAATTAAAACTCGTAGTAGCAGACCTCGATCTCCAC
1 ATCTTATATCCCTAAAATTATAGAGAGACAAATTAAAACTCGTAATAGCAGACATCAATCTCCAC
*
15817103 TAAAATTGTAATAGAATGGAGTGAAGCCAAATCAATCTCCCTGAAGTTGCAATAGAAT
66 TAAAATTGTAATAGAATGGAGTGAAGCCAAATCAATCTCCCTAAAGTTGCAATAGAAT
15817161 AAAGCGAAGT
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 113 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (130 bp):
ATCTTATATCCCTAAAATTATAGAGAGACAAATTAAAACTCGTAATAGCAGACATCAATCTCCAC
TAAAATTGTAATAGAATGGAGTGAAGCCAAATCAATCTCCCTAAAGTTGCAATAGAATGGAGTGA
Found at i:15817242 original size:40 final size:39
Alignment explanation
Indices: 15817175--15817509 Score: 248
Period size: 40 Copynumber: 8.5 Consensus size: 39
15817165 CGAAGTCACC
* *
15817175 ACATCCAATCCTTTACCCAAACCATGGGGCAGATTGAAG
1 ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * *
15817214 ACCAACCAATCTTTTACCCCGACAATGGGGCAGATTGAAG
1 A-CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * *
15817254 -CAATCTAGTCTTTTACCCCAACCATGGGGCAGATTGAGG
1 AC-ATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * * * *
15817293 ACCAGCTAATCTTTTACCCTAATCA-GAGGGTAGATTGAAG
1 A-CATCCAATCTTTTACCCCAACCATG-GGGCAGATTGAAG
* * ** * * *
15817333 ACATTCAGTCTTTTACATCGACCATGGGGTAGATTGAGG
1 ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * * *
15817372 ACCATCCATTCTTTTACCCCGACCATGAGGTAGATTGAAG
1 A-CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
* * * *
15817412 TA-ATTCAATCTTTTTCCCTAACTA-GAGGGCAGATTGAAG
1 -ACATCCAATCTTTTACCCCAACCATG-GGGCAGATTGAAG
* * ** *
15817451 ACCATCCGATCTCTTACCCTGACCATGGGGCAAATTGAAG
1 A-CATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
*
15817491 -CAATCCAATCATTTACCCC
1 AC-ATCCAATCTTTTACCCC
15817510 TAAAGCTATA
Statistics
Matches: 231, Mismatches: 52, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
38 4 0.02
39 100 0.43
40 124 0.54
41 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (39 bp):
ACATCCAATCTTTTACCCCAACCATGGGGCAGATTGAAG
Found at i:15817277 original size:79 final size:79
Alignment explanation
Indices: 15817181--15817509 Score: 306
Period size: 79 Copynumber: 4.2 Consensus size: 79
15817171 CACCACATCC
* * * *
15817181 AATCCTTTACCCAAACCATGGGGCAGATTGAAGACCAACCAATCTTTTACCCCGACAATGGGGCA
1 AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCA
15817246 GATTGAAGCAATCT
66 GATTGAAGCAATCT
* * * * ** * *
15817260 AGTCTTTTACCCCAACCATGGGGCAGATTGAGGACCAGCTAATCTTTTACCCTAATCA-GAGGGT
1 AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATG-GGGC
*
15817324 AGATTGAAGACATTC-
65 AGATTGAAG-CAATCT
* ** * * * * * *
15817339 AGTCTTTTACATCGACCATGGGGTAGATTGAGGACCATCCATTCTTTTACCCCGACCATGAGGTA
1 AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCA
*
15817404 GATTGAAGTAAT-T
66 GATTGAAGCAATCT
* * * * * *
15817417 CAATCTTTTTCCCTAACTA-GAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATGGGG
1 -AATCTTTTACCCCAACCATG-GGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGG
* *
15817481 CAAATTGAAGCAATCC
64 CAGATTGAAGCAATCT
*
15817497 AATCATTTACCCC
1 AATCTTTTACCCC
15817510 TAAAGCTATA
Statistics
Matches: 197, Mismatches: 46, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
78 4 0.02
79 188 0.95
80 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (79 bp):
AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCATCCAATCTTTTACCCCGACCATGGGGCA
GATTGAAGCAATCT
Found at i:15817488 original size:158 final size:158
Alignment explanation
Indices: 15817195--15817490 Score: 355
Period size: 158 Copynumber: 1.9 Consensus size: 158
15817185 CTTTACCCAA
*
15817195 ACCATGGGGCAGATTGAAGACCAACCAATCTTTTACCCCGACAATGGGGCAGATTGAAGCAATCT
1 ACCATGGGGCAGATTGAAGACCAACCAATCTTTTACCCCGACAATGAGGCAGATTGAAGCAATCT
* * * * * *
15817260 AGTCTTTTACCCCAACCATGGGGCAGATTGAGGACCAGCTAATCTTTTACCCTAATCAGAGGGTA
66 AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCAGCCAATCTCTTACCCTAACCAGAGGGCA
*
15817325 GATTGAAGACATTCAGTCTTTTACATCG
131 AATTGAAGACATTCAGTCTTTTACATCG
* * * * * * *
15817353 ACCATGGGGTAGATTGAGGACCATCCATTCTTTTACCCCGACCATGAGGTAGATTGAAGTAAT-T
1 ACCATGGGGCAGATTGAAGACCAACCAATCTTTTACCCCGACAATGAGGCAGATTGAAGCAATCT
* * * * * *
15817417 CAATCTTTTTCCCTAACTA-GAGGGCAGATTGAAGACCATCCGATCTCTTACCCTGACCATG-GG
66 -AATCTTTTACCCCAACCATG-GGGCAGATTGAAGACCAGCCAATCTCTTACCCTAACCA-GAGG
15817480 GCAAATTGAAG
128 GCAAATTGAAG
15817491 CAATCCAATC
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
157 2 0.02
158 111 0.97
159 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (158 bp):
ACCATGGGGCAGATTGAAGACCAACCAATCTTTTACCCCGACAATGAGGCAGATTGAAGCAATCT
AATCTTTTACCCCAACCATGGGGCAGATTGAAGACCAGCCAATCTCTTACCCTAACCAGAGGGCA
AATTGAAGACATTCAGTCTTTTACATCG
Found at i:15818174 original size:4 final size:4
Alignment explanation
Indices: 15818165--15818214 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
15818155 TTTTTTTAAC
* *
15818165 TTTA TTTA TTTA TTT- CTTA TTTA TTTA TTTA TTTA TCTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
15818211 TTTA
1 TTTA
15818215 AATAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 5 0.12
4 35 0.88
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:15818189 original size:19 final size:20
Alignment explanation
Indices: 15818165--15818214 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
15818155 TTTTTTTAAC
*
15818165 TTTATTTATTTATTTCT-TA
1 TTTATTTATTTATTTATCTA
15818184 TTTATTTATTTATTTATCTA
1 TTTATTTATTTATTTATCTA
15818204 TTTA-TTATTTA
1 TTTATTTATTTA
15818215 AATAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTATTTATTTATTTATCTA
Found at i:15818235 original size:14 final size:15
Alignment explanation
Indices: 15818213--15818245 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15818203 ATTTATTATT
*
15818213 TAAATAAATAAA-AA
1 TAAACAAATAAATAA
15818227 TAAACAAATAAATAA
1 TAAACAAATAAATAA
15818242 TAAA
1 TAAA
15818246 TTTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACAAATAAATAA
Found at i:15818237 original size:18 final size:20
Alignment explanation
Indices: 15818214--15818257 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
15818204 TTTATTATTT
15818214 AAATAAATAA-AAA-TAAAC
1 AAATAAATAATAAATTAAAC
15818232 AAATAAATAATAAATTTAAAC
1 AAATAAATAATAAA-TTAAAC
15818253 AAATA
1 AAATA
15818258 CAAACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.43
19 3 0.13
21 10 0.43
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAATAATAAATTAAAC
Found at i:15818245 original size:21 final size:22
Alignment explanation
Indices: 15818213--15818257 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
15818203 ATTTATTATT
15818213 TAAATAAATAAAAATAAACAAA
1 TAAATAAATAAAAATAAACAAA
**
15818235 TAAAT-AATAAATTTAAACAAA
1 TAAATAAATAAAAATAAACAAA
15818256 TA
1 TA
15818258 CAAACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATAAATAAAAATAAACAAA
Found at i:15819280 original size:30 final size:30
Alignment explanation
Indices: 15819243--15819428 Score: 182
Period size: 30 Copynumber: 6.2 Consensus size: 30
15819233 AAATCATGTC
*
15819243 TTGACCCTCGAACTTTTCAAAAATTCTAAT
1 TTGACCCTCGAACTTTCCAAAAATTCTAAT
*
15819273 TTTACCCT-GAACTTTCCAAAAA-TCTAAACT
1 TTGACCCTCGAACTTTCCAAAAATTCT-AA-T
* * * *
15819303 TT-ACCCCCAAATTTTCCAAAAATTCAAAT
1 TTGACCCTCGAACTTTCCAAAAATTCTAAT
* * * *
15819332 TTGACCCCCAAACTTTCCAAAAAGTCAAAT
1 TTGACCCTCGAACTTTCCAAAAATTCTAAT
* *
15819362 TTGACCCTTGAACTTTTCAAAAATT-TGAAT
1 TTGACCCTCGAACTTTCCAAAAATTCT-AAT
* *
15819392 TTGACCTTCGAACTTTCCAAAAATTCAAAAT
1 TTGACCCTCGAACTTTCCAAAAATTC-TAAT
15819423 TTGACC
1 TTGACC
15819429 TATTTTAATG
Statistics
Matches: 130, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.02
29 22 0.17
30 94 0.72
31 11 0.08
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (30 bp):
TTGACCCTCGAACTTTCCAAAAATTCTAAT
Found at i:15819645 original size:18 final size:19
Alignment explanation
Indices: 15819598--15819651 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
15819588 ATCTACCTAA
15819598 TTTATTATTT-TATTGTAT
1 TTTATTATTTATATTGTAT
15819616 TTTATGTA--TATATTGT-T
1 TTTAT-TATTTATATTGTAT
15819633 TTTATTATTTATACTTGTA
1 TTTATTATTTATA-TTGTA
15819652 AATCATTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 2 0.07
17 7 0.23
18 15 0.50
19 6 0.20
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTATTATTTATATTGTAT
Found at i:15822188 original size:18 final size:18
Alignment explanation
Indices: 15822165--15822200 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15822155 CGAGGCACAA
*
15822165 TTGGATTGTAGATAGAGC
1 TTGGATTGTAGACAGAGC
15822183 TTGGATTGTAGACAGAGC
1 TTGGATTGTAGACAGAGC
15822201 CTTTTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (18 bp):
TTGGATTGTAGACAGAGC
Found at i:15829372 original size:18 final size:17
Alignment explanation
Indices: 15829339--15829372 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15829329 ATAATCGATA
*
15829339 TAAATTAATAATAAAAT
1 TAAATTAATAAAAAAAT
15829356 TAAATTAAATAAAAAAA
1 TAAATT-AATAAAAAAA
15829373 ACAATGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATTAATAAAAAAAT
Found at i:15833765 original size:23 final size:23
Alignment explanation
Indices: 15833714--15833768 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
15833704 CTATCCTTGT
* * *
15833714 TGACTAGACCTTCTAGAAGCTGC
1 TGACTGGATCTTCTAAAAGCTGC
15833737 TGACTGGATCTTCTAAAAGCTGC
1 TGACTGGATCTTCTAAAAGCTGC
15833760 TGACTGGAT
1 TGACTGGAT
15833769 GCCTCGTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
TGACTGGATCTTCTAAAAGCTGC
Found at i:15842648 original size:17 final size:17
Alignment explanation
Indices: 15842628--15842668 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15842618 TCTCTTGACA
15842628 TTTAACCTTCCATCTTC
1 TTTAACCTTCCATCTTC
* *
15842645 TTTAACCTTTCATTTTC
1 TTTAACCTTCCATCTTC
15842662 TTGTAAC
1 TT-TAAC
15842669 TACTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAACCTTCCATCTTC
Found at i:15850272 original size:20 final size:20
Alignment explanation
Indices: 15850242--15850291 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15850232 ATTAGCATGA
*
15850242 GTTATATTAAGTA-TAAATAGG
1 GTTA-ATTAAG-ACTAAAAAGG
*
15850263 TTTAATTAAGACTAAAAAGG
1 GTTAATTAAGACTAAAAAGG
15850283 GTTAATTAA
1 GTTAATTAA
15850292 AGCTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
GTTAATTAAGACTAAAAAGG
Found at i:15862878 original size:200 final size:200
Alignment explanation
Indices: 15862532--15863367 Score: 1296
Period size: 200 Copynumber: 4.2 Consensus size: 200
15862522 CGGCGAGGCA
* * * *
15862532 GTCATCTTCCTGATAAGATACAGAGAAGAATACCAACTCAACGCTCAAAGTGAGAAAATCTTCAT
1 GTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTCGT
*
15862597 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCTTGATGA
66 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGA
* *
15862662 GATACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGTG
131 GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAAGTG
*
15862727 ATGCA
196 ATGCG
* *
15862732 GTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTTGT
1 GTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTCGT
* *
15862797 ACCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGTTTAGCTTCCTGATGA
66 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGA
*
15862862 GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGTG
131 GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAAGTG
15862927 ATGCG
196 ATGCG
* * * * * *
15862932 GTTATATTCTTGATGAGATAAAGAGAAGAATACCAACTCAACACTCAAAGTGAGCAAATCTTCGT
1 GTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTCGT
* *
15862997 ACCCAGCTTCCTGATGAGACATTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCTTGATGA
66 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGA
** * * *
15863062 GATACAGAGAAGTGGACCAAATTTTTCTTCTTGAGGAGATCCAAAGAAGCAAATTAAAACAAGCG
131 GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAAGTG
*
15863127 AGGCG
196 ATGCG
* * * *
15863132 GTCATCTTCCTGATGAGACACAGAGAAGAATACCAAATCAAAGCTCAAAGCGAGCCAATCTTCGT
1 GTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTCGT
* *
15863197 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAACATGGTTAGTTTCCTGATGA
66 ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGA
* *
15863262 GATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAGGCAAATTAAAAC-AGAT
131 GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAAG-T
15863326 GATTGCG
195 GA-TGCG
* * * *
15863333 GTCATCTTCCTAATGAGACACAGGGAAGAAGACCA
1 GTCATCTTCCTGATGAGATACAGAGAAGAATACCA
15863368 GGTCAATGAA
Statistics
Matches: 583, Mismatches: 51, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
199 2 0.00
200 546 0.94
201 35 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (200 bp):
GTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAGCGAGCAAATCTTCGT
ACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGA
GATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAAAACAAGTG
ATGCG
Found at i:15863762 original size:18 final size:18
Alignment explanation
Indices: 15863722--15863760 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
15863712 TAAATAGGCT
15863722 TAAATTTATTATTAAATA
1 TAAATTTATTATTAAATA
*
15863740 TAAATTTATT-TTAAATT
1 TAAATTTATTATTAAATA
15863757 TAAA
1 TAAA
15863761 ATATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTTATTATTAAATA
Found at i:15864720 original size:13 final size:12
Alignment explanation
Indices: 15864694--15864728 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
15864684 GAAACAGTTT
*
15864694 TAAAAAAAATAA
1 TAAAAAAAAGAA
15864706 TAAAAAACAAGAA
1 TAAAAAA-AAGAA
15864719 TAAAAAAAAG
1 TAAAAAAAAG
15864729 GGTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (12 bp):
TAAAAAAAAGAA
Found at i:15865182 original size:32 final size:33
Alignment explanation
Indices: 15865145--15865208 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
15865135 TGCGCGTTTG
*
15865145 GTCCTTTCGCAT-TTTTTAATTA-TTTTAATTTA
1 GTCCTTT-GCATACTTTTAATTATTTTTAATTTA
*
15865177 GTCCTTTTCATACTTTTAATTATTTTTAATTT
1 GTCCTTTGCATACTTTTAATTATTTTTAATTT
15865209 GGCCTGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 3 0.11
32 16 0.57
33 9 0.32
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (33 bp):
GTCCTTTGCATACTTTTAATTATTTTTAATTTA
Found at i:15865573 original size:58 final size:58
Alignment explanation
Indices: 15865480--15865825 Score: 416
Period size: 59 Copynumber: 5.9 Consensus size: 58
15865470 AGTCCCCAAG
* *
15865480 CTTTCCAAAATCCCATGTTTAACCCCAATTTCACCAAAAATTGCCATTTTACCCCTAAA
1 CTTTCCAAAATCCCAT-TTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTAAA
* * *
15865539 CTTTCCAAAATACCATTTTAACCTCGATTTCACC-AAAATTACCATTTTAACCCTAAA
1 CTTTCCAAAATCCCATTTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTAAA
* * * * *
15865596 CTTTCTAAAATTCCATTTTAACCTCGATTTCACCAAAAATTATCATTTTAGCCCC-GAA
1 CTTTCCAAAATCCCATTTTAACCTCAATTTCACCAAAAATTACCATTTTA-CCCCTAAA
* * *
15865654 CTTTCCAAAATCCCATTTTTAACCTCAATTTCATCAAAAATTACTATTTTACCCATAAA
1 CTTTCCAAAATCCCA-TTTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTAAA
* *
15865713 CTTTCCAAAA-CCCTATTTTTAACCTCAATTTCACCAAAAATTACCAATTTACCCCCAAA
1 CTTTCCAAAATCCC-A-TTTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTAAA
* * *
15865772 CTTTCCAAAATTCCATTTTTGACC-CTAA-TTCACAAAAAATTA-CATTTTTACCCC
1 CTTTCCAAAATCCCA-TTTTAACCTC-AATTTCACCAAAAATTACCA-TTTTACCCC
15865826 CGAAAGTCAA
Statistics
Matches: 252, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
57 55 0.22
58 73 0.29
59 122 0.48
60 2 0.01
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (58 bp):
CTTTCCAAAATCCCATTTTAACCTCAATTTCACCAAAAATTACCATTTTACCCCTAAA
Found at i:15865749 original size:29 final size:29
Alignment explanation
Indices: 15865658--15865751 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
15865648 CCCGAACTTT
15865658 CCAAAATCCC-ATTTTTAACCTCAATTTCA
1 CCAAAA-CCCTATTTTTAACCTCAATTTCA
* ** * *
15865687 TCAAAA-ATTACTATTTTACCCATAAACTTT--
1 CCAAAACCCTA-T-TTTTAACC-TCAA-TTTCA
15865717 CCAAAACCCTATTTTTAACCTCAATTTCA
1 CCAAAACCCTATTTTTAACCTCAATTTCA
15865746 CCAAAA
1 CCAAAA
15865752 ATTACCAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
27 3 0.06
28 4 0.09
29 19 0.40
30 13 0.28
31 5 0.11
32 3 0.06
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (29 bp):
CCAAAACCCTATTTTTAACCTCAATTTCA
Found at i:15877145 original size:6 final size:6
Alignment explanation
Indices: 15877134--15877176 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
15877124 ATTTAGCCAT
* *
15877134 TTTTTA TTTTTA TTTTAATA TTTTTA TTTTTA ATTTAA TTTTT
1 TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTT
15877177 CTATTCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:15877159 original size:20 final size:19
Alignment explanation
Indices: 15877132--15877181 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
15877122 TAATTTAGCC
*
15877132 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
15877151 ATATTTTTATTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
15877171 ATTTTTCTATT
1 ATTTTT-TATT
15877182 CTAATTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:15877181 original size:26 final size:26
Alignment explanation
Indices: 15877134--15877190 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
15877124 ATTTAGCCAT
* * * *
15877134 TTTTTATTTTTATTTTAATATTTTTA
1 TTTTTAATTTAATTTTAATATTCTAA
**
15877160 TTTTTAATTTAATTTTTCTATTCTAA
1 TTTTTAATTTAATTTTAATATTCTAA
15877186 TTTTT
1 TTTTT
15877191 CCCTTTTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTAATTTAATTTTAATATTCTAA
Found at i:15880988 original size:3 final size:3
Alignment explanation
Indices: 15880982--15881039 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
15880972 AGCATCAGTT
* * * * **
15880982 TTA TTA TTA TTC TTA TTA TTA TTA GTA GTA GTA TTA TTA CCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15881030 TTA TTA TTA T
1 TTA TTA TTA T
15881040 ATGTTCATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:15881003 original size:33 final size:33
Alignment explanation
Indices: 15880961--15881038 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
15880951 CTCCTTTCGT
* ** *
15880961 TTATTATTATTAGCA-TCAGTTTTATTATTATTC
1 TTATTATTATTAGCAGT-AGTATTATTACCATTA
*
15880994 TTATTATTATTAGTAGTAGTATTATTACCATTA
1 TTATTATTATTAGCAGTAGTATTATTACCATTA
15881027 TTATTATTATTA
1 TTATTATTATTA
15881039 TATGTTCATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 38 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (33 bp):
TTATTATTATTAGCAGTAGTATTATTACCATTA
Found at i:15884343 original size:16 final size:16
Alignment explanation
Indices: 15884313--15884368 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
15884303 CCATTAGAGT
* *
15884313 GAATTTTTTTTATTTG
1 GAATTTTATTAATTTG
*
15884329 GAATTTTATTAATTTT
1 GAATTTTATTAATTTG
*
15884345 G-TTTTATATTAATTTG
1 GAATTT-TATTAATTTG
15884361 TGAATTTT
1 -GAATTTT
15884369 TATGTATTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 3 0.10
16 23 0.74
17 2 0.06
18 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (16 bp):
GAATTTTATTAATTTG
Found at i:15884908 original size:15 final size:16
Alignment explanation
Indices: 15884888--15884939 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 16
15884878 TATTTTGTTT
15884888 GAAAAAAATTG-AAAA
1 GAAAAAAATTGAAAAA
*
15884903 GAAAAAAATTGTAAAA
1 GAAAAAAATTGAAAAA
*
15884919 -AAAGAAA--GAAAAA
1 GAAAAAAATTGAAAAA
15884932 GAAAAAAA
1 GAAAAAAA
15884940 ATGTGTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 17 0.53
16 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
GAAAAAAATTGAAAAA
Done.