Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 124 of 211
Found at i:39248179 original size:11 final size:11
Alignment explanation
Indices: 39248142--39248180 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
39248132 TTTCACGAGA
39248142 TTATTTTATTGT
1 TTATTTTA-TGT
*
39248154 TTATTTTATGA
1 TTATTTTATGT
*
39248165 TTATTTTGTGT
1 TTATTTTATGT
39248176 TTATT
1 TTATT
39248181 CTTTATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:39250076 original size:20 final size:20
Alignment explanation
Indices: 39250054--39250092 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
39250044 AAAAAATAAT
39250054 TTTTTATCTTAG-TTTCCAA
1 TTTTTATCTTAGTTTTCCAA
39250073 TTTTTATCTTAGTTTTCCAA
1 TTTTTATCTTAGTTTTCCAA
39250093 GAAAGCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTTATCTTAGTTTTCCAA
Found at i:39252435 original size:87 final size:86
Alignment explanation
Indices: 39252341--39252675 Score: 320
Period size: 87 Copynumber: 3.8 Consensus size: 86
39252331 AATTATAAGT
* * * *
39252341 AAATAAAATCAGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATTTTTTATTTTAT
1 AAATAAAATCAGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
* *
39252406 TTTCAAATGGGAAATTAAAGTT-
66 TTCCAAA--GGAAATTAAAATTA
* *
39252428 AAATAAAATCCA-TTTCAAGATTTTTTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTA
1 AAATAAAAT-CAGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTA
**
39252492 TTTCCAAAACAAGTATTAAAATTA
65 TTTCCAAAGGAA--ATTAAAATTA
* * * * *
39252516 AAATAAAATCTGTTTCGAGATTTATTCTCGTCGTTCAATGGATTTTATTCTAATTTTGATTTAAT
1 AAATAAAATCAGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
*
39252581 TTCCAAAAAGGAGTATTAAAATTA
66 TTCC--AAAGGA-AATTAAAATTA
* ** * * * * * * *
39252605 AAATAAATTTTGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATT-CGATATTG-TTTTA
1 AAATAAAATCAGTTTCGAGATTTATTCCCGTCGTTCAAC-GGATTTTATTCCAATTTTGATTTTA
39252668 TTT-CAAAG
65 TTTCCAAAG
39252676 AAAAGAAGTA
Statistics
Matches: 206, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
85 6 0.03
87 72 0.35
88 69 0.33
89 46 0.22
90 13 0.06
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (86 bp):
AAATAAAATCAGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
TTCCAAAGGAAATTAAAATTA
Found at i:39252559 original size:88 final size:87
Alignment explanation
Indices: 39252341--39252680 Score: 344
Period size: 88 Copynumber: 3.9 Consensus size: 87
39252331 AATTATAAGT
* * * * *
39252341 AAATAAAATCAGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATTTTTTATTTTAT
1 AAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
* *** * *
39252406 TTTCAAATGGGAAATTAAAGTT-
66 TTCCAAAAAAG-TATTAAAATTA
** * *
39252428 AAATAAAATCCATTTCAAGATTTTTTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
1 AAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
39252493 TTCCAAAACAAGTATTAAAATTA
66 TTCCAAAA-AAGTATTAAAATTA
* * * *
39252516 AAATAAAATCTGTTTCGAGATTTATTCTCGTCGTTCAATGGATTTTATTCTAATTTTGATTTAAT
1 AAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
39252581 TTCCAAAAAGGAGTATTAAAATTA
66 TTCCAAAAA--AGTATTAAAATTA
* * * * * * * * *
39252605 AAATAAATTTTGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATT-CGATATTG-TTTTA
1 AAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAAC-GGATTTTATTCCAATTTTGATTTTA
*
39252668 TTTCAAAGAAAAG
65 TTTCCAA-AAAAG
39252681 AAGTAATCAA
Statistics
Matches: 211, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
87 74 0.35
88 76 0.36
89 52 0.25
90 9 0.04
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (87 bp):
AAATAAAATCTGTTTCGAGATTTATTCCCGTCGTTCAACGGATTTTATTCCAATTTTGATTTTAT
TTCCAAAAAAGTATTAAAATTA
Found at i:39254739 original size:33 final size:33
Alignment explanation
Indices: 39254581--39254739 Score: 201
Period size: 33 Copynumber: 4.8 Consensus size: 33
39254571 TCAACATAAG
*
39254581 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAA
* * * *
39254614 TGATTCGAACATCTATCGGGGTAGGTTCATCAT
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAA
* ** *
39254647 TGTTTGGAACATCTATCAAGGAAGCTTCATCAA
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAA
* *
39254680 TGATTGGAACATCTATCGAGGCAGCTTCATCAT
1 TGATTGGAACATCTATCGGGGCAGCTTCATCAA
* *
39254713 TGATTGGAACATCTATTGGGGTAGCTT
1 TGATTGGAACATCTATCGGGGCAGCTT
39254740 TACCATTCTG
Statistics
Matches: 107, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 107 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATCGGGGCAGCTTCATCAA
Found at i:39254739 original size:66 final size:66
Alignment explanation
Indices: 39254581--39254728 Score: 233
Period size: 66 Copynumber: 2.2 Consensus size: 66
39254571 TCAACATAAG
* * * *
39254581 TGATTGGAACATCTATCAGGGCAGCTTCATCAATGATTCGAACATCTATCGGGGTAGGTTCATCA
1 TGATTGGAACATCTATCAGGGAAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
39254646 T
66 T
* * *
39254647 TGTTTGGAACATCTATCAAGGAAGCTTCATCAATGATTGGAACATCTATCGAGGCAGCTTCATCA
1 TGATTGGAACATCTATCAGGGAAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
39254712 T
66 T
39254713 TGATTGGAACATCTAT
1 TGATTGGAACATCTAT
39254729 TGGGGTAGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (66 bp):
TGATTGGAACATCTATCAGGGAAGCTTCATCAATGATTCGAACATCTATCGAGGCAGCTTCATCA
T
Found at i:39284052 original size:50 final size:50
Alignment explanation
Indices: 39283994--39284117 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
39283984 TATTGAGATT
* * *
39283994 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCAAG
* * *
39284044 ATGAGAGGTCCC-CTGTAAGACCATGTTTGGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCAC-GTAAGACCATGTCTGGGACATGACATGGGCACCAAG
** *
39284094 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
39284118 ATTTAGAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCAAG
Found at i:39285400 original size:32 final size:32
Alignment explanation
Indices: 39285340--39285574 Score: 285
Period size: 32 Copynumber: 7.4 Consensus size: 32
39285330 GAATGGCTAC
*
39285340 AAGCCATAAGT-ATAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
39285371 AAGCCATCAGTAGTAGTGATATGACCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
39285403 CAGCCATCAGTAATGGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* **
39285435 AAGCCATCAGTAATAGTAATATGATAGGTGCA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
39285467 AAGCCATCAGTAAT-GATAATATGATCGGTACA
1 AAGCCATCAGTAATAG-TAATATGATCGGCACA
* **
39285499 AAGCCATCAATAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** *
39285531 AAGCCATCAGTAACGGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
39285563 AAGCCATTAGTA
1 AAGCCATCAGTA
39285575 GCATCGCAAC
Statistics
Matches: 178, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
31 11 0.06
32 166 0.93
33 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:39285747 original size:24 final size:23
Alignment explanation
Indices: 39285720--39285801 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
39285710 CGATGCTCAG
*
39285720 AATCAGTCATTCAAATTACAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
39285744 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* *
39285768 AATCAGTCATTTAACCACAGA-A
1 AATCAGTCATTCAAACACAGACA
*
39285790 AATTCAATCATT
1 AA-TCAGTCATT
39285802 TGACCTCGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.06
23 16 0.32
24 27 0.54
25 4 0.08
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.23
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:39285857 original size:25 final size:27
Alignment explanation
Indices: 39285822--39285889 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
39285812 GGGAAAAATA
39285822 GTCA-TTTACCC-ACCA-AGGCATTAC-
1 GTCATTTTACCCTA-CAGAGGCATTACG
* *
39285846 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGAGGCATTACG
39285873 GTCATTTTACCCTACAG
1 GTCATTTTACCCTACAG
39285890 GGATATTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 4 0.11
25 9 0.24
26 8 0.21
27 17 0.45
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (27 bp):
GTCATTTTACCCTACAGAGGCATTACG
Found at i:39285879 original size:27 final size:27
Alignment explanation
Indices: 39285841--39285921 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
39285831 CCACCAAGGC
39285841 ATTAC-GTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
39285867 ATTACGGTCATTTTACCCTACAGGGAT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
39285894 ATTTCGATCATTTTACCATTCAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
39285921 A
1 A
39285922 ATTTGGTCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:39285931 original size:27 final size:26
Alignment explanation
Indices: 39285846--39285933 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
39285836 AAGGCATTAC
*
39285846 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATT-TG
*
39285873 GTCATTTTACCCTACAGGGATATTTCG
1 GTCATTTTACCCTACAGGGGTATTT-G
* * *
39285900 ATCATTTTACCATTCAGGGGTAATTTG
1 GTCATTTTACCCTACAGGGGT-ATTTG
39285927 GTCATTT
1 GTCATTT
39285934 AACAACCTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 48 0.92
28 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGGTATTTG
Found at i:39288111 original size:43 final size:43
Alignment explanation
Indices: 39288028--39288417 Score: 398
Period size: 43 Copynumber: 9.1 Consensus size: 43
39288018 GCTAATAGTA
* * * * *
39288028 TTTA-CGGTGCTTTTCCCAAAAACGCCGCTATAGAACAAGACT
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACAAGACC
* * *
39288070 TTTAACGGCGC-TTTCAC-ACAAACGCCGCCAAAGGAAAAAGACC
1 TTTAGCGGCGCTTTTC-CTACAAACGCCGCTAAA-GAACAAGACC
*
39288113 TTTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAATAACAAGACC
1 TTTAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGAACAAGACC
* * *
39288156 TTTAGCGGCGCTTTTTTCTACAAACGTCGCTAAAGGACAAGACC
1 TTTAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGAACAAGACC
* * * *
39288200 TTTAGCGGCGC-TTTCCTACAAACGGCACTATAGAACATGACC
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACAAGACC
* *
39288242 TTTAGCGGCACTTTT-TTCACAAACGCCGCTAAAGAACAAGACC
1 TTTAGCGGCGCTTTTCCT-ACAAACGCCGCTAAAGAACAAGACC
** * * *
39288285 TTTAGCGGCAATTTTTCAACAAACGCCACTAAAGAACAAGACC
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACAAGACC
* * * * *
39288328 TTTAGCGGCGCTTTTTCTACAAACACTGCTAAAGAATAAGACT
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACAAGACC
* * *
39288371 TTTAGCGGAGCTTTTCCCACAAACGCCACTAAAGAACATA-ACC
1 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACA-AGACC
39288414 TTTA
1 TTTA
39288418 AAAATATATT
Statistics
Matches: 292, Mismatches: 46, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
42 56 0.19
43 183 0.63
44 49 0.17
45 4 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGAACAAGACC
Found at i:39292261 original size:15 final size:16
Alignment explanation
Indices: 39292226--39292261 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
39292216 GGAAATTAGG
39292226 GATTTCAGGGGGAAAA
1 GATTTCAGGGGGAAAA
*
39292242 GATTTTAGGGGGAAAA
1 GATTTCAGGGGGAAAA
39292258 -ATTT
1 GATTT
39292262 ATAAATGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (16 bp):
GATTTCAGGGGGAAAA
Found at i:39293186 original size:14 final size:14
Alignment explanation
Indices: 39293169--39293245 Score: 66
Period size: 14 Copynumber: 5.4 Consensus size: 14
39293159 TTATAAAACA
39293169 TAAACCTTAACCCC
1 TAAACCTTAACCCC
*
39293183 TAAACCCTTAACCCT
1 TAAA-CCTTAACCCC
* *
39293198 TAACCCCTAACCCC
1 TAAACCTTAACCCC
*
39293212 TAAATCTTAAACCCC
1 TAAACCTT-AACCCC
* * *
39293227 -AACCCTTAAACCA
1 TAAACCTTAACCCC
39293240 TAAACC
1 TAAACC
39293246 ATAATCCATA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
13 4 0.08
14 26 0.54
15 18 0.38
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCTTAACCCC
Found at i:39293190 original size:7 final size:7
Alignment explanation
Indices: 39293169--39293286 Score: 58
Period size: 7 Copynumber: 16.6 Consensus size: 7
39293159 TTATAAAACA
*
39293169 TAAACCT
1 TAAACCC
*
39293176 TAACCCC
1 TAAACCC
39293183 TAAACCC
1 TAAACCC
*
39293190 TTAACCC
1 TAAACCC
*
39293197 TTAACCCC
1 -TAAACCC
*
39293205 TAACCCC
1 TAAACCC
* *
39293212 TAAATCT
1 TAAACCC
39293219 TAAACCC
1 TAAACCC
*
39293226 -CAACCC
1 TAAACCC
*
39293232 TTAAACCA
1 -TAAACCC
*
39293240 TAAACCA
1 TAAACCC
* *
39293247 TAATCCA
1 TAAACCC
*
39293254 TAATCCC
1 TAAACCC
*
39293261 TAAACACA
1 TAAAC-CC
*
39293269 TAATCCC
1 TAAACCC
*
39293276 TAAACCT
1 TAAACCC
39293283 TAAA
1 TAAA
39293287 ATTTGGATAT
Statistics
Matches: 85, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 5 0.06
7 66 0.78
8 14 0.16
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:39293236 original size:21 final size:21
Alignment explanation
Indices: 39293169--39293245 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 21
39293159 TTATAAAACA
39293169 TAAACCTT-AACCCCTAAACCCT
1 TAAACCTTAAACCCC--AACCCT
* *
39293191 TAACCCTT-AACCCCTAACCCC
1 TAAACCTTAAACCCC-AACCCT
*
39293212 TAAATCTTAAACCCCAACCCT
1 TAAACCTTAAACCCCAACCCT
*
39293233 TAAACCATAAACC
1 TAAACCTTAAACC
39293246 ATAATCCATA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 27 0.59
22 19 0.41
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACCCCAACCCT
Found at i:39293272 original size:15 final size:15
Alignment explanation
Indices: 39293252--39293280 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39293242 AACCATAATC
39293252 CATAATCCCTAAACA
1 CATAATCCCTAAACA
39293267 CATAATCCCTAAAC
1 CATAATCCCTAAAC
39293281 CTTAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCCTAAACA
Found at i:39293286 original size:22 final size:21
Alignment explanation
Indices: 39293233--39293286 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
39293223 CCCCAACCCT
39293233 TAAACCATAAACCATAATCCA
1 TAAACCATAAACCATAATCCA
* * *
39293254 TAATCCCTAAACACATAATCCC
1 TAAACCATAAAC-CATAATCCA
*
39293276 TAAACCTTAAA
1 TAAACCATAAA
39293287 ATTTGGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCA
Found at i:39293714 original size:14 final size:13
Alignment explanation
Indices: 39293693--39293744 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
39293683 TAAAATGGTA
*
39293693 AAACCTAAACCTT
1 AAACCTAAACCAT
39293706 AAACTCTAAACCAT
1 AAAC-CTAAACCAT
* *
39293720 ATACCCTAAACCAA
1 A-AACCTAAACCAT
39293734 AAACCCTAAAC
1 AAA-CCTAAAC
39293745 TCTAGTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 25 0.78
15 2 0.06
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACCTAAACCAT
Found at i:39293985 original size:41 final size:41
Alignment explanation
Indices: 39293918--39294253 Score: 370
Period size: 41 Copynumber: 8.2 Consensus size: 41
39293908 TAAATTATTT
* *
39293918 TAAATCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
39293959 TAAAGCCCTGAGCAGTAGCGGTGCTTTCCCAAAAACGTCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
39294000 TAAAAG-CCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
39294041 TAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * ** *
39294082 TAAAGCCTTGAGCATTAGTGGCG-TTTCCTCAAAAGTGTCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTT-CTCAAAAACGCCGC
* * * * *
39294123 TAAATCCCTGAGCATTAGCTGCGCTTTCCCAAAAAAGCTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * * * *
39294164 TAATGCTCAGGGCTTTAGCGGCGCTTCCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
39294205 TAAAGCCCTGAGCATTAGCAGCGCTTCCCCAAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTC-AAAAACGCCGC
39294247 TAAAGCC
1 TAAAGCC
39294254 TTAAGTATTA
Statistics
Matches: 245, Mismatches: 45, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
40 7 0.03
41 214 0.87
42 24 0.10
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:39294281 original size:123 final size:122
Alignment explanation
Indices: 39293918--39294291 Score: 356
Period size: 123 Copynumber: 3.0 Consensus size: 122
39293908 TAAATTATTT
* * * * *
39293918 TAAATCCCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCAGTAGCGGTGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* * * *
39293983 TTTCCCAAAAACGTCGCTAAAAGCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
66 TTCCCCAAAAACGTCGCT-AAAGCCTGAGCATTAGTGGCGCTTCCTAAAAAACGCCGC
* * * * * *
39294041 TAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACACCGCTAAAGCCTTGAGCATTAGTGGCGT
1 TAAAGCCCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
* ** * * *
39294106 TTCCTCAAAAGTGTCGCTAAATCCCTGAGCATTAGCT-GCGCTTTCCCAAAAAA-GCTGC
66 TTCCCCAAAAACGTCGCTAAA-GCCTGAGCATTAG-TGGCGC-TTCCTAAAAAACGCCGC
* * * * * * *
39294164 TAATGCTCAGGGCTTTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGC
1 TAAAGCCCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
** * * * * * *
39294229 TTCCCCAAAAAACACCGCTAAAGCCTTAAGTATTAGTGGAGCTTCCTTAAAAATGTCGC
66 TTCCCC-AAAAACGTCGCTAAAGCC-TGAGCATTAGTGGCGCTTCCTAAAAAACGCCGC
39294288 TAAA
1 TAAA
39294292 TCCCCGAAAG
Statistics
Matches: 198, Mismatches: 46, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
122 3 0.02
123 159 0.80
124 36 0.18
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (122 bp):
TAAAGCCCAGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTCCCCAAAAACGTCGCTAAAGCCTGAGCATTAGTGGCGCTTCCTAAAAAACGCCGC
Found at i:39296813 original size:14 final size:14
Alignment explanation
Indices: 39296783--39296819 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
39296773 TTTGGTTCAG
*
39296783 TTAGATTT-CATAT
1 TTAGATTTCCAAAT
39296796 TTAGATTTCCAAAT
1 TTAGATTTCCAAAT
39296810 TTAGATTTCC
1 TTAGATTTCC
39296820 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (14 bp):
TTAGATTTCCAAAT
Found at i:39302348 original size:19 final size:20
Alignment explanation
Indices: 39302308--39302351 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
39302298 GTCTCTTTAG
* *
39302308 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
39302327 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
39302346 GCATTA
1 GCATTA
39302352 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:39304414 original size:9 final size:9
Alignment explanation
Indices: 39304400--39304457 Score: 86
Period size: 9 Copynumber: 6.7 Consensus size: 9
39304390 TTCAGACTAA
39304400 AAAAAAATC
1 AAAAAAATC
39304409 AAAAAAATC
1 AAAAAAATC
39304418 AAAAAAATC
1 AAAAAAATC
39304427 AAAAAAAATC
1 -AAAAAAATC
39304437 -AAAAAATC
1 AAAAAAATC
39304445 --AAAAATC
1 AAAAAAATC
39304452 AAAAAA
1 AAAAAA
39304458 TAAAAGTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.15
8 8 0.17
9 22 0.48
10 9 0.20
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:39304485 original size:16 final size:16
Alignment explanation
Indices: 39304474--39304508 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
39304464 TCAAAATAGG
39304474 AAAAA-AAGAAAAAGA
1 AAAAAGAAGAAAAAGA
39304489 AAAAAGAAGAAAAAGA
1 AAAAAGAAGAAAAAGA
39304505 AAAA
1 AAAA
39304509 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGAAAAAGA
Found at i:39307013 original size:44 final size:43
Alignment explanation
Indices: 39306953--39307246 Score: 222
Period size: 44 Copynumber: 6.8 Consensus size: 43
39306943 AGAATTTCAG
*
39306953 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAG-A
* ** * *
39306997 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACT--AGA
* * * *
39307041 ATCTTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACT--AGA
* * * * * *
39307085 ATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTATC-AG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACTAGA
* *
39307126 GTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAG-A
* * * * * *
39307170 ATCCTATTTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAC-TAGA
* * *
39307214 ATCTTATCTCACTGA-AGTTACAGTAGAGTAGAT
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
39307247 CGCATCAGGT
Statistics
Matches: 201, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
41 30 0.15
42 5 0.02
43 5 0.02
44 156 0.78
45 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACTAGA
Found at i:39307147 original size:129 final size:129
Alignment explanation
Indices: 39307001--39307291 Score: 390
Period size: 129 Copynumber: 2.3 Consensus size: 129
39306991 CTAGTAATCC
* * * *
39307001 TATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATCTTATCTCCCTGAGATTATAG
1 TATCTCCCTGAGATTACAGTGGAGTAGATTGAAAAT--AGTAATCCTATCTCCCTGAGATTACAG
* * *
39307064 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTC
64 TGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGAAGATCGCATCAGGTC
39307129 T
129 T
* ** *
39307130 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACAGTG
1 TATCTCCCTGAGATTACAGTGGAGTAGATTGAAAATAGTAATCCTATCTCCCTGAGATTACAGTG
* *
39307195 GAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCATCAGGTTT
66 GAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGAAGATCGCATCAGGTCT
* * *
39307259 TACCTCCCT-ATGGTTACAGTGGAGTACATTGAA
1 TATCTCCCTGA-GATTACAGTGGAGTAGATTGAA
39307292 GCCAGTAATT
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
128 3 0.02
129 136 0.96
130 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (129 bp):
TATCTCCCTGAGATTACAGTGGAGTAGATTGAAAATAGTAATCCTATCTCCCTGAGATTACAGTG
GAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGAAGATCGCATCAGGTCT
Found at i:39307413 original size:23 final size:23
Alignment explanation
Indices: 39307362--39307415 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
39307352 TGAAGTTGCA
**
39307362 GTTGAAGTTACAAGTCTTATCTC
1 GTTGAAGTTACAAGTCGGATCTC
** *
39307385 CCTGAAGTTACAAGTCGGATCTT
1 GTTGAAGTTACAAGTCGGATCTC
39307408 GTTGAAGT
1 GTTGAAGT
39307416 GCAGTGGAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
GTTGAAGTTACAAGTCGGATCTC
Found at i:39311325 original size:18 final size:18
Alignment explanation
Indices: 39311302--39311338 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39311292 CCCTTATTCC
39311302 TTCAATTTTGCAAGAAAA
1 TTCAATTTTGCAAGAAAA
39311320 TTCAATTTTGCAAGAAAA
1 TTCAATTTTGCAAGAAAA
39311338 T
1 T
39311339 CACTCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (18 bp):
TTCAATTTTGCAAGAAAA
Found at i:39314917 original size:19 final size:19
Alignment explanation
Indices: 39314895--39314932 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39314885 TTTAGATTTG
*
39314895 AAACTATAAACTGTGAAAA
1 AAACTATAAACTGAGAAAA
*
39314914 AAACTATAGACTGAGAAAA
1 AAACTATAAACTGAGAAAA
39314933 CTGTAGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (19 bp):
AAACTATAAACTGAGAAAA
Found at i:39314934 original size:16 final size:16
Alignment explanation
Indices: 39314913--39314955 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
39314903 AACTGTGAAA
*
39314913 AAAACTATAGACTGAG
1 AAAACTATAGAATGAG
* *
39314929 AAAACTGTAGAATGTG
1 AAAACTATAGAATGAG
*
39314945 AAAACTCTAGA
1 AAAACTATAGA
39314956 TAATGAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (16 bp):
AAAACTATAGAATGAG
Found at i:39316769 original size:27 final size:27
Alignment explanation
Indices: 39316731--39317342 Score: 669
Period size: 27 Copynumber: 22.7 Consensus size: 27
39316721 CGATTCATGC
* *
39316731 TAAAATGACCGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
39316758 TAAAATGACCGAAATACCCCCGAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
39316785 TAAATTGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
39316812 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
39316839 TAAAATGACTGAAATACCCTCGAAGGA
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
39316866 TAAAATGATCAAAATACCCCCGTAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
39316893 TAAAATGACTAAAATACCC-CGAAAAGTG
1 TAAAATGACCGAAATACCCTCG--AAGGG
* * * *
39316921 TAAAATGACTGAAATACTCGCGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
39316948 TAAAATGACCAAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
39316975 TAAAATGACCGAAATATCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
39317002 TAAAATGACTGAAATAACCCT-GAA-GG
1 TAAAATGACCGAAAT-ACCCTCGAAGGG
** *
39317028 TAAAATGATTGAAGTACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
39317055 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
39317082 TAAAATG-CCTAAAATACCCTTGAAGGG
1 TAAAATGACC-GAAATACCCTCGAAGGG
*** *
39317109 TAAAATGATTAAAATACCTTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
39317136 TAAAATGATTGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
39317163 TAAAATGATCGAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* **
39317190 TAAAATGACCGAAATATCCTTAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
39317217 TAAAATAACTGAAATATCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
39317244 TAAAATGATCGAAATACCC-CAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
39317270 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
39317297 TAAAATGACTAAAATACCCT-TATAGGG
1 TAAAATGACCGAAATACCCTCGA-AGGG
* *
39317324 TAAAATGACTGATATACCC
1 TAAAATGACCGAAATACCC
39317343 CTAGGAAATA
Statistics
Matches: 499, Mismatches: 76, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
25 5 0.01
26 46 0.09
27 422 0.85
28 24 0.05
29 2 0.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:39318582 original size:17 final size:17
Alignment explanation
Indices: 39318560--39318595 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39318550 CTTAAATTAG
* *
39318560 GGAAAACTAAGACTGTA
1 GGAAAACGAAAACTGTA
39318577 GGAAAACGAAAACTGTA
1 GGAAAACGAAAACTGTA
39318594 GG
1 GG
39318596 TAGACTCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.28, T:0.14
Consensus pattern (17 bp):
GGAAAACGAAAACTGTA
Found at i:39324808 original size:27 final size:27
Alignment explanation
Indices: 39324767--39325257 Score: 571
Period size: 27 Copynumber: 18.3 Consensus size: 27
39324757 TACAATTCGT
*
39324767 GGTAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
*
39324794 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
* * *
39324821 GTTAAAATTATCGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
* *
39324848 GGTAAAATGATCGAAATACCCTTGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
* *
39324875 GGTAAAATGACCGATATACCCTTGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
** *
39324902 GGTAAAATGACTAAAATACCC-CTGAAA
1 GGTAAAATGACCGAAATACCCTC-GAAG
* *
39324929 GGTAAAATGATCGAAATACCCTCAAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
** *
39324956 GG-AAAATGACTAAAATACCCTCAAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
**
39324982 GGTAAAATGATTGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
* * * *
39325009 GATAAAATGATCGAAATACCTTCGAAA
1 GGTAAAATGACCGAAATACCCTCGAAG
* *
39325036 GGTAAAATGACTGAAATACTCC-CGAAT
1 GGTAAAATGACCGAAATAC-CCTCGAAG
* *
39325063 GGTAAAATGACCGAAATACCCTCAAAA
1 GGTAAAATGACCGAAATACCCTCGAAG
* *
39325090 GGTACAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
* * *
39325117 GGTAAGATGATCGAAATACCCTCGAAT
1 GGTAAAATGACCGAAATACCCTCGAAG
* * *
39325144 GGTAAAATGACCGAAATATCCTTGAAA
1 GGTAAAATGACCGAAATACCCTCGAAG
*
39325171 GGTAAAATGACCGAAATACCC-AG-AG
1 GGTAAAATGACCGAAATACCCTCGAAG
*
39325196 GGTAAAATGACCTAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCCTCGAAG
*
39325223 GGTAAAATGACCGAAATATCCTC-ATAG
1 GGTAAAATGACCGAAATACCCTCGA-AG
39325250 GGTAAAAT
1 GGTAAAAT
39325258 TACTAATATA
Statistics
Matches: 397, Mismatches: 59, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
25 21 0.05
26 28 0.07
27 346 0.87
28 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCTCGAAG
Found at i:39327926 original size:16 final size:15
Alignment explanation
Indices: 39327893--39327934 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
39327883 AGATGATCAT
39327893 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
39327909 TATTCATTATAATATA
1 TATTAATTATAAT-TA
39327925 TATTAATTAT
1 TATTAATTAT
39327935 TATCAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:39343016 original size:45 final size:45
Alignment explanation
Indices: 39342952--39343042 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
39342942 TGAGAAGAAT
39342952 TAAATATCTGATAAAATGAACGAGATTTGATCCCGCTCAATTTTA
1 TAAATATCTGATAAAATGAACGAGATTTGATCCCGCTCAATTTTA
39342997 TAAATATCTGATAAAATGAACGAGATTTGATCCCGCTCAATTTTA
1 TAAATATCTGATAAAATGAACGAGATTTGATCCCGCTCAATTTTA
39343042 T
1 T
39343043 CCCCTAGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (45 bp):
TAAATATCTGATAAAATGAACGAGATTTGATCCCGCTCAATTTTA
Found at i:39349732 original size:12 final size:12
Alignment explanation
Indices: 39349705--39349770 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
39349695 TTAGCCATTT
39349705 TTATTTTTATT-
1 TTATTTTTATTG
*
39349716 ATATTTTTATTG
1 TTATTTTTATTG
*
39349728 TTATTTTTAGTG
1 TTATTTTTATTG
* *
39349740 TAATTTTTGTTG
1 TTATTTTTATTG
*
39349752 TCTAATTTTTCTT-
1 T-T-ATTTTTATTG
39349765 TTATTT
1 TTATTT
39349771 GCTTCTGGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 14 0.32
12 21 0.48
13 1 0.02
14 8 0.18
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.71
Consensus pattern (12 bp):
TTATTTTTATTG
Found at i:39351426 original size:39 final size:40
Alignment explanation
Indices: 39351381--39351604 Score: 206
Period size: 39 Copynumber: 5.7 Consensus size: 40
39351371 GCTCCTCGTT
* * * * *
39351381 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
39351421 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
39351460 CGAATGCCTTC-GGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
39351499 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
39351539 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
39351580 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39351605 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
39 72 0.47
40 67 0.44
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:39351534 original size:40 final size:37
Alignment explanation
Indices: 39351381--39351604 Score: 159
Period size: 40 Copynumber: 5.7 Consensus size: 37
39351371 GCTCCTCGTT
* * * *
39351381 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-T--CTCGCA
39351421 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTT-AT--CTCGCA
*
39351460 CGAATGCCTTC-GGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGA-TT--TATCTCGCA
* *
39351499 CAAAGGCCTTCGGGGCTTAACCCGGAACTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-A-TT-TATCTCGCA
** * *
39351539 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-T--C-TCGCA
*
39351580 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39351605 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 64 0.42
40 69 0.45
41 16 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (37 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTATCTCGCA
Found at i:39351537 original size:79 final size:77
Alignment explanation
Indices: 39351381--39351604 Score: 209
Period size: 79 Copynumber: 2.8 Consensus size: 77
39351371 GCTCCTCGTT
* * * * *
39351381 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGA
39351446 TTTAATGACTCGCA
65 TTTAAT-ACTCGCA
* * * *
39351460 CGAATGCCTTCGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGACTTAACCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
39351525 ACTTGT-AT-CTCGCA
64 A-TT-TAATACTCGCA
** * * * * * *
39351539 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAATAACTCA-CACAAGGCCTTCGGGACTTAACCCGG
39351604 A
64 A
39351605 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
78 23 0.19
79 51 0.43
80 36 0.31
81 7 0.06
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGAT
TTAATACTCGCA
Found at i:39351613 original size:41 final size:41
Alignment explanation
Indices: 39351536--39351613 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39351526 CTTGTATCTC
* * *
39351536 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39351577 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39351614 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39358943 original size:39 final size:40
Alignment explanation
Indices: 39358898--39359121 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
39358888 GCTCCTCGTT
* * * * *
39358898 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
39358938 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
39358977 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
39359017 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
39359056 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
39359097 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39359122 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 64 0.41
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:39359054 original size:79 final size:78
Alignment explanation
Indices: 39358898--39359121 Score: 204
Period size: 79 Copynumber: 2.8 Consensus size: 78
39358888 GCTCCTCGTT
* * * *
39358898 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGA
39358963 TTTAATGACTCGCA
66 TTTAAT-ACTCGCA
* * * *
39358977 CGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
39359041 AACTTGT-AT-CTCGCA
65 -A-TT-TAATACTCGCA
* ** * * * * * *
39359056 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAATAACTCA-CACAAGGCCTTCGGGACTTAACCCG
39359120 GA
64 GA
39359122 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
78 3 0.03
79 87 0.73
80 24 0.20
81 4 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATACTCGCA
Found at i:39359130 original size:41 final size:41
Alignment explanation
Indices: 39359053--39359130 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39359043 CTTGTATCTC
* * *
39359053 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39359094 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39359131 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39366653 original size:4 final size:4
Alignment explanation
Indices: 39366644--39366677 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
39366634 GCCTTTTCTT
*
39366644 TTTA TTTA TTTA TTTA -TTA TTTA TTTC TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
39366678 TATCCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:39366665 original size:15 final size:15
Alignment explanation
Indices: 39366645--39366676 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39366635 CCTTTTCTTT
39366645 TTATTTATTTATTTA
1 TTATTTATTTATTTA
*
39366660 TTATTTATTTCTTTA
1 TTATTTATTTATTTA
39366675 TT
1 TT
39366677 TTATCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:39368325 original size:6 final size:6
Alignment explanation
Indices: 39368314--39368340 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39368304 AGTTTATTTG
39368314 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
39368341 CTTAAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:39379730 original size:6 final size:6
Alignment explanation
Indices: 39379720--39379755 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
39379710 AGAAAATATC
*
39379720 AATAAA CATAAA AATAAA AATAAA AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
39379756 TGAATAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:39379735 original size:18 final size:18
Alignment explanation
Indices: 39379720--39379755 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39379710 AGAAAATATC
*
39379720 AATAAACATAAAAATAAA
1 AATAAAAATAAAAATAAA
39379738 AATAAAAAT-AAAATAAA
1 AATAAAAATAAAAATAAA
39379755 A
1 A
39379756 TGAATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAAAAATAAAAATAAA
Found at i:39381752 original size:20 final size:21
Alignment explanation
Indices: 39381708--39381755 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
39381698 GAACATGTTA
39381708 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
39381730 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
39381750 ATTTTT
1 ATTTTT
39381756 GACAGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:39382315 original size:14 final size:14
Alignment explanation
Indices: 39382292--39382321 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39382282 CATCCCTCAT
*
39382292 TCACATCTCTTCTC
1 TCACAACTCTTCTC
39382306 TCACAACTCTTCTC
1 TCACAACTCTTCTC
39382320 TC
1 TC
39382322 CTCTCTCACT
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:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:39384161 original size:16 final size:15
Alignment explanation
Indices: 39384136--39384169 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
39384126 AAAGTTGATA
*
39384136 ATAATTAATATATATT
1 ATAATAAATATA-ATT
39384152 ATAATAAATATAATT
1 ATAATAAATATAATT
39384167 ATA
1 ATA
39384170 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:39388314 original size:28 final size:28
Alignment explanation
Indices: 39388243--39388328 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
39388233 AATGCAGAAT
* * * *
39388243 CAGTCTGGGCCTGAGCCCATTACAATAA
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
*
39388271 AAGTGTGTGGGCCTTAGCCCAATACAGTAA
1 CA--GTGTGGGCCTTAGCCCAATACAGTAA
39388301 CAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
39388329 TTAGTACAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.54
30 23 0.46
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAA
Found at i:39388461 original size:26 final size:25
Alignment explanation
Indices: 39388432--39388488 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
39388422 GCCAACACAC
39388432 TAATATCGCAACAAAGCTCCCAGTAA
1 TAATAT-GCAACAAAGCTCCCAGTAA
** *
39388458 TAATGATGCAGTAAAGCTGCCAGTAA
1 TAAT-ATGCAACAAAGCTCCCAGTAA
*
39388484 CAATA
1 TAATA
39388489 ACGTAGTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 23 0.88
27 2 0.08
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (25 bp):
TAATATGCAACAAAGCTCCCAGTAA
Found at i:39388496 original size:26 final size:26
Alignment explanation
Indices: 39388444--39388511 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
39388434 ATATCGCAAC
* * *
39388444 AAAGCTCCCAGTAATAATGATGCAGT
1 AAAGCTCCCAGTAACAATAACGCAGT
* *
39388470 AAAGCTGCCAGTAACAATAACGTAGT
1 AAAGCTCCCAGTAACAATAACGCAGT
* *
39388496 AAGGCTTCCAGTAACA
1 AAAGCTCCCAGTAACA
39388512 GTATATGTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (26 bp):
AAAGCTCCCAGTAACAATAACGCAGT
Found at i:39388720 original size:27 final size:27
Alignment explanation
Indices: 39388690--39388857 Score: 171
Period size: 27 Copynumber: 6.2 Consensus size: 27
39388680 GGTATAACAG
39388690 TCATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCT-TCGAGGGTATTTCGA
*
39388717 TCATTGTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
39388744 TCATTTTATCCATAGAGGGTATTTTC-A
1 TCATTTTACCCTTCGAGGGTA-TTTCGA
* * * * *
39388771 TTATTTTATCTTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
39388798 TCATTTTATCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
39388825 TCATTTTACCCTTTGAGGGTTTTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
39388851 GTCATTT
1 -TCATTT
39388858 GCCCATGAAT
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.03
27 111 0.93
28 4 0.03
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:39391806 original size:20 final size:20
Alignment explanation
Indices: 39391781--39391821 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39391771 CACATGGTAG
*
39391781 TGTGTTTGAAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
* *
39391801 TGTGTTGGGAAATCGTAACT
1 TGTGTTGGAAAACCGTAACT
39391821 T
1 T
39391822 TGCTTAATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAACT
Found at i:39391832 original size:16 final size:16
Alignment explanation
Indices: 39391811--39391844 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39391801 TGTGTTGGGA
39391811 AATCGTAACTTTGCTT
1 AATCGTAACTTTGCTT
39391827 AATCGTAACTTTGCTT
1 AATCGTAACTTTGCTT
39391843 AA
1 AA
39391845 AAAATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (16 bp):
AATCGTAACTTTGCTT
Found at i:39398384 original size:98 final size:99
Alignment explanation
Indices: 39398166--39398385 Score: 284
Period size: 99 Copynumber: 2.2 Consensus size: 99
39398156 GAAGAAATGT
* * ** *
39398166 TCCCAAAAGATGGAGTTTATACGACTCAACCGATTTACTCAGAGTGTAGGGTTAACTTAGTTGAA
1 TCCCAGAAGATGGAGTTTATACAACTCAACCGATTTACTCAGAACGTAGGGTTAACTTAGTAGAA
*
39398231 ACAAATCAATTTAACAGTCATATTGGAAGTAGCC
66 ACAAATCAATTCAACAGTCATATTGGAAGTAGCC
* * *
39398265 TACCAGAAGATGCAGTATATACAACTCAACCTG-TTTACTCAGAACGTAGGGTTAACTTAG-AGA
1 TCCCAGAAGATGGAGTTTATACAACTCAACC-GATTTACTCAGAACGTAGGGTTAACTTAGTAGA
* * **
39398328 AAC-CATTAATCTCAATGGTCATATTGGAAGTAGCC
65 AACAAATCAAT-TCAACAGTCATATTGGAAGTAGCC
39398363 TCCCAGAAGATGGAGTTTATACA
1 TCCCAGAAGATGGAGTTTATACA
39398386 GCTAAATCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
97 5 0.05
98 46 0.45
99 51 0.50
100 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (99 bp):
TCCCAGAAGATGGAGTTTATACAACTCAACCGATTTACTCAGAACGTAGGGTTAACTTAGTAGAA
ACAAATCAATTCAACAGTCATATTGGAAGTAGCC
Found at i:39401959 original size:18 final size:18
Alignment explanation
Indices: 39401933--39401968 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39401923 TATCCTTTCT
* *
39401933 CTGGGACTGGGACTTCCA
1 CTGGCACTGGGACCTCCA
39401951 CTGGCACTGGGACCTCCA
1 CTGGCACTGGGACCTCCA
39401969 TTTCAAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (18 bp):
CTGGCACTGGGACCTCCA
Found at i:39403894 original size:23 final size:23
Alignment explanation
Indices: 39403866--39403910 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39403856 TTATATAAAT
** *
39403866 TATATTTGTTTTATTTTGTTTTA
1 TATATTTAATTTAATTTGTTTTA
39403889 TATATTTAATTTAATTTGTTTT
1 TATATTTAATTTAATTTGTTTT
39403911 TTTACATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (23 bp):
TATATTTAATTTAATTTGTTTTA
Found at i:39406418 original size:13 final size:13
Alignment explanation
Indices: 39406400--39406424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39406390 TACAAACATA
39406400 TTATTTAATTAAT
1 TTATTTAATTAAT
39406413 TTATTTAATTAA
1 TTATTTAATTAA
39406425 CTAAATTAGT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTTAATTAAT
Found at i:39406888 original size:43 final size:43
Alignment explanation
Indices: 39406840--39406925 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
39406830 TTAATTACAA
39406840 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
1 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
*
39406883 CATTATTTAGTTTTGAAGTCATTACACTCAATTAACGTGATTG
1 CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
39406926 AGCTCTCTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (43 bp):
CATTATTTAGTCTTGAAGTCATTACACTCAATTAACGTGATTG
Found at i:39408670 original size:36 final size:36
Alignment explanation
Indices: 39408630--39408799 Score: 101
Period size: 39 Copynumber: 4.6 Consensus size: 36
39408620 GTGCCTAGCA
*
39408630 CTAGTCGTATAAATCGACAATGTTTTGCGCCCAGTG
1 CTAGTCGAATAAATCGACAATGTTTTGCGCCCAGTG
* * * * * **
39408666 CTAGTCGGATAAACCGACGATGAAATTCGTGTGCCCAGCA
1 CTAGTCGAATAAATCGACAATG---TT-TTGCGCCCAGTG
* *
39408706 CTA-TCGAATAAATCGACAAAGATTTGCGCCCAGTG
1 CTAGTCGAATAAATCGACAATGTTTTGCGCCCAGTG
* * * * **
39408741 CTAGTTGGAT-AATCGACGATGATAATTGTGTGCCCAGCA
1 CTAGTCGAATAAATCGACAATG-T--TT-TGCGCCCAGTG
*
39408780 CTAGTCGAATAAATCAACAA
1 CTAGTCGAATAAATCGACAA
39408800 AGGTTTGTGC
Statistics
Matches: 96, Mismatches: 28, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
35 20 0.21
36 24 0.25
38 2 0.02
39 32 0.33
40 18 0.19
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (36 bp):
CTAGTCGAATAAATCGACAATGTTTTGCGCCCAGTG
Found at i:39408683 original size:76 final size:74
Alignment explanation
Indices: 39408575--39408875 Score: 268
Period size: 75 Copynumber: 4.0 Consensus size: 74
39408565 CCATAATAAG
* ** * * * * *
39408575 GTTTTGCGCCTAGCACTAGTCGTATAACCCGACAAGATCAATTTTGTGCCTAGCACTAGTCGTAT
1 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGAC-AGAT-AATTGTGTGCCCAGCACTAGTCGAAT
*
39408640 AAATCGACAAT
64 AAATCGACAAA
39408651 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGAC-GATGAAATTCGTGTGCCCAGCACTA-TCGAA
1 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGACAGAT--AATT-GTGTGCCCAGCACTAGTCGAA
39408714 TAAATCGACAAA
63 TAAATCGACAAA
* * *
39408726 GATTTGCGCCCAGTGCTAGTTGGAT-AATCGACGATGATAATTGTGTGCCCAGCACTAGTCGAAT
1 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGAC-A-GATAATTGTGTGCCCAGCACTAGTCGAAT
*
39408790 AAATCAACAAA
64 AAATCGACAAA
* * *** * * * * *
39408801 GGTTTGTGCCCACCACTAGTTGAATAAACTGA-TGATAATACTTGTGTGCCGAGCACTAGTCGAA
1 GTTTTGCGCCCAGTGCTAGTCGGATAAACCGACAGAT-A-A-TTGTGTGCCCAGCACTAGTCGAA
*
39408865 TAAATCAACAA
63 TAAATCGACAA
39408876 CACTTACATA
Statistics
Matches: 191, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
73 3 0.02
74 25 0.13
75 82 0.43
76 78 0.41
77 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (74 bp):
GTTTTGCGCCCAGTGCTAGTCGGATAAACCGACAGATAATTGTGTGCCCAGCACTAGTCGAATAA
ATCGACAAA
Found at i:39408740 original size:75 final size:75
Alignment explanation
Indices: 39408614--39408875 Score: 305
Period size: 75 Copynumber: 3.5 Consensus size: 75
39408604 CGACAAGATC
* * * * * * *
39408614 AATTTTGTGCCTAGCACTAGTCGTATAAATCGACAATGTTTTGCGCCCAGTGCTAGTCGGATAAA
1 AATTGTGTGCCCAGCACTAGTCGAATAAATCAACAAAGATTTGCGCCCAGTGCTAGTTGGATAAA
39408679 CCGACGATGA
66 CCGACGATGA
*
39408689 AATTCGTGTGCCCAGCACTA-TCGAATAAATCGACAAAGATTTGCGCCCAGTGCTAGTTGGAT-A
1 AATT-GTGTGCCCAGCACTAGTCGAATAAATCAACAAAGATTTGCGCCCAGTGCTAGTTGGATAA
*
39408752 ATCGACGATGA
65 ACCGACGATGA
* * *** *
39408763 TAATTGTGTGCCCAGCACTAGTCGAATAAATCAACAAAGGTTTGTGCCCACCACTAGTTGAATAA
1 -AATTGTGTGCCCAGCACTAGTCGAATAAATCAACAAAGATTTGCGCCCAGTGCTAGTTGGATAA
* *
39408828 ACTGATGAT-A
65 ACCGACGATGA
*
39408838 ATACTTGTGTGCCGAGCACTAGTCGAATAAATCAACAA
1 A-A-TTGTGTGCCCAGCACTAGTCGAATAAATCAACAA
39408876 CACTTACATA
Statistics
Matches: 163, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
74 27 0.17
75 83 0.51
76 53 0.33
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (75 bp):
AATTGTGTGCCCAGCACTAGTCGAATAAATCAACAAAGATTTGCGCCCAGTGCTAGTTGGATAAA
CCGACGATGA
Found at i:39408784 original size:39 final size:39
Alignment explanation
Indices: 39408614--39408870 Score: 139
Period size: 36 Copynumber: 6.8 Consensus size: 39
39408604 CGACAAGATC
* * * *
39408614 AATTTTGTGCCTAGCACTAGTCGTATAAATCGACAATG-
1 AATTGTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
* * ** *
39408652 --TTTTGCGCCCAGTGCTAGTCGGATAAACCGACGATGA
1 AATTGTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
*
39408689 AATTCGTGTGCCCAGCACTA-TCGAATAAATCGAC-A--A
1 AATT-GTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
* ** *
39408725 AGATT-TGCGCCCAGTGCTAGTTGGAT-AATCGACGATGA
1 A-ATTGTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
* *
39408763 TAATTGTGTGCCCAGCACTAGTCGAATAAATCAAC-A--A
1 -AATTGTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
* * * * *
39408800 AGGTT-TGTGCCCACCACTAGTTGAATAAA-CTGATGAT-A
1 A-ATTGTGTGCCCAGCACTAGTCGGATAAATC-GACGATGA
* *
39408838 ATACTTGTGTGCCGAGCACTAGTCGAATAAATC
1 A-A-TTGTGTGCCCAGCACTAGTCGGATAAATC
39408871 AACAACACTT
Statistics
Matches: 166, Mismatches: 34, Indels: 35
0.71 0.14 0.15
Matches are distributed among these distances:
35 19 0.11
36 60 0.36
37 7 0.04
38 7 0.04
39 34 0.20
40 38 0.23
41 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (39 bp):
AATTGTGTGCCCAGCACTAGTCGGATAAATCGACGATGA
Found at i:39412662 original size:38 final size:37
Alignment explanation
Indices: 39412593--39412665 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
39412583 TTTTCATAAT
* *
39412593 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
39412630 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
39412666 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:39412696 original size:23 final size:22
Alignment explanation
Indices: 39412653--39412696 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
39412643 TTTCAAGTCA
39412653 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
39412676 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
39412697 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:39412821 original size:23 final size:23
Alignment explanation
Indices: 39412795--39412916 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
39412785 ATAAGTGCCA
39412795 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
39412818 CACTGAAATGTAGCTGAAGCTAG
1 CACTGATATGTAGCCGAAGCTAC
*
39412841 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
39412864 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39412887 CATTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
39412910 CACTGAT
1 CACTGAT
39412917 CAATAACACT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:39414873 original size:23 final size:23
Alignment explanation
Indices: 39414847--39414945 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
39414837 ATAAGTGCCA
39414847 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
39414870 CACTGAAATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39414893 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39414916 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
39414939 CACTGAT
1 CACTGAT
39414946 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:39419115 original size:333 final size:334
Alignment explanation
Indices: 39417941--39419838 Score: 2467
Period size: 335 Copynumber: 5.7 Consensus size: 334
39417931 TTAATCCTTC
* ** *
39417941 TTCCCATTATTGATTCTGGTTCTGTTCAGGAAAGTTTAAAAAGTTATGGATGATTCGATGTAGTT
1 TTCCCATTATTGATTCTGGTTCT-TTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTT
* * * * * *
39418006 AATTCAAATATTTCTTTCTCTATATGTCATATTTTGTCTGAAAT-ATCA-GA--TC--T-AAGTG
65 AATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATC
* * * * *
39418064 T--G--C--GCCATTC-TTTCGATATAGATAGGATCGTAACCTTCACCTTAATTTTAATAT-AAT
130 TAAGAACGTGCCATTCGTTT-GATATAGATACGACCATATCCTTCACATTAATTTTAAT-TCAAT
* * * *
39418121 TGGGGACAGATTCTCTCCCTATTCTCTAAAGGATGAATGAAAGCAAGGAAGATAATCGATGTATG
193 TGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATG
* * * **
39418186 ATGTATCTATACAAAATTATGATTATATCACAGAGATCTGAA-AACGT-TCCATGTGTTGGATAG
258 ATGTATTTCTACAAAATTATGATTATATCGCTTAGATCT-AAGAACGTGT-CATGTGTTGGATAG
**
39418249 -TAGGACAACCGTTG
321 CT-GGACAATTGTTG
* * * * * * *
39418263 TCCCCACTATTGATTTTGGTTCTGTTCAGGAAAGTGAAAAAAGTTATGGGGGATTCAATGTATTT
1 TTCCCATTATTGATTCTGGTTCT-TTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTT
* * * *
39418328 AATTCAAATCTGTCTTTCTCTATATGTCATACTTTGTTTGAAATAATAATTATGTTTATCAAATC
65 AATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATC
*
39418393 TAAGAACGTGCCATTCGTTCGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTG
130 TAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTG
* *
39418458 GGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAATAATCGATGTATGAA
195 GGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGAT
*
39418523 GTATTTCTACAAAATTATGATTATATCACTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTGG
260 GTATTTCTACAAAATTATGATTATATCGCTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTGG
39418588 ACAATTGTTTG
325 ACAATTG-TTG
* *
39418599 TTCCTATTATTGATTCTAGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
* * * * * * *
39418664 ATTCAAATCT-TCCTTTTTCTATGTGTCATACTTTGTTTGAAATAGTGATTATGTCTTTCAGATC
66 ATTCAAATATGT-CTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATC
** ** * * * * * * * *
39418728 TTGGAACGTATCGTTCGTCTGATATAGAAACGATCGTAACCTGCACCTTAATTTTAATTCAATTG
130 TAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTG
* * * ** *
39418793 GGAACAAATTCTCTCCCTCTTCTCTAAAGGGTAATTTAAAATAAGGAAGATAATCGGTGT-TGAT
195 GGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGAT
* * * * * *
39418857 GTATTTGTACAAAATT-TCGATTATATTGCTTAGATCTAAGAGCATGTCATGTGTTGGATACCTA
260 GTATTTCTACAAAATTAT-GATTATATCGCTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTG
39418921 GACAATTGTTG
324 GACAATTGTTG
* * * *
39418932 TTCCCATTATGGATTCTAGTTCATTGAGGAAAGTGAAAAAAGTTATGGGTAATTCGATGTAGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
* * * *
39418997 ATTCAAATATGTATTTCTCTATATGTCATACTTTGTCTAAAATAACGATTATTTCTATCAAATCT
66 ATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATCT
* * *
39419062 AAGAACGTGCCATTTGTTTGATAAAGATACGACCATATCCTTCACAGTAATTTTAATTCAATTGG
131 AAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
* * *
39419127 GGACAAATTCTCTCCCTCTTCTCTAAATGATGATTTAGAGCAAGGAAAATAATCGATGTATGATG
196 GGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGATG
* * *
39419192 TATTTCTACAAAATTATGATTATATCGCTTAGATATGAGAACGTGTCATGTTGTTGGATAGTTGG
261 TATTTCTACAAAATTATGATTATATCGCTTAGATCTAAGAACGTGTCATG-TGTTGGATAGCTGG
*
39419257 ACAACTGTTG
325 ACAATTGTTG
* * *
39419267 TTCCCATTATTGATTCTGGTTCTTTGAGGAAATTGAAAAAAGTTATAGGTGATTCGATGTTGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
* * * *
39419332 ATTCAAATATGTCTTTCTCTATATGTCATACTTTTTCTGAAATAACGATTATGTCTATTAGATCT
66 ATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATCT
*
39419397 AAGAACATGCCATTCGTTTG-TATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
131 AAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
* * *
39419461 GGACAAATTCTCTCCCTTTTCTCTAAAGGTTGATTTAAAGCAAGGAAGATAATCAATGTATGATG
196 GGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGATG
* * * *
39419526 TAATTCTACAAAATTATGATTATATTGCTTAGATTTGAGAACGTGTCATGTGTTGGATAGCTGGA
261 TATTTCTACAAAATTATGATTATATCGCTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTGGA
* *
39419591 CAATTATTA
326 CAATTGTTG
* * *
39419600 TTCCCATTATTGATTTTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATATAGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
* *
39419665 ATTCAAATATGTCTTTCTCTATATGTCATACTTTGCCTGGAA-AATGATTATGTCTATCAAATCT
66 ATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATCT
*
39419729 AA-AACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAGTTGG
131 AAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
* * *
39419793 CGACAAATCCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGA
196 GGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGA
39419839 TGAGAAAAAT
Statistics
Matches: 1372, Mismatches: 178, Indels: 42
0.86 0.11 0.03
Matches are distributed among these distances:
322 96 0.07
323 3 0.00
324 1 0.00
326 1 0.00
328 1 0.00
329 4 0.00
331 17 0.01
332 105 0.08
333 336 0.24
334 266 0.19
335 517 0.38
336 25 0.02
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (334 bp):
TTCCCATTATTGATTCTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
ATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCTATCAAATCT
AAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
GGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGATG
TATTTCTACAAAATTATGATTATATCGCTTAGATCTAAGAACGTGTCATGTGTTGGATAGCTGGA
CAATTGTTG
Found at i:39419575 original size:668 final size:663
Alignment explanation
Indices: 39417941--39419838 Score: 2523
Period size: 668 Copynumber: 2.9 Consensus size: 663
39417931 TTAATCCTTC
* *
39417941 TTCCCATTATTGATTCTGGTTCTGTTCAGGAAAGTT-TAAAAAGTTATGGATGATTCGATGTAGT
1 TTCCCATTATTGATTCTGGTTCT-TTGAGGAAA-TTGAAAAAAGTTATGG-TGATTCGATGTAGT
* *
39418005 TAATTCAAATATTTCTTTCTCTATATGTCATA-TTTTGTCTGAAATATC-A-GA--TCTA--AG-
63 TAATTCAAATA-TTCTTTCTCTATATGTCATACTTTT-TCTGAAATAACGATTATGTCTATTAGA
* *
39418062 TGTG--C-GCCATTC-TTTCGATATAGATAGGATCGTAACCTTCACCTTAATTTTAATAT-AATT
126 TCTGAACTGCCATTCGTTT-GATATAGATACGATCGTAACCTTCACCTTAATTTTAAT-TCAATT
* * *
39418122 GGGGACAGATTCTCTCCCTATTCTCTAAAGGATGAATGAAAGCAAGGAAGATAATCGATGTATGA
189 GGGGACAAATTCTCTCCCTATTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGA
** ** * *
39418187 TGT-ATCTATACAAAATTATGATTATATCACAGAGATCTGAAAACGT-TCCATGTGTTGGATAGT
254 TGTAAT-TATACAAAATTATGATTATATTGCTTAGATCTGAGAACGTGT-CATGTGTTGGATACT
** * * * * *
39418250 AGGACAACCGTTGTCCCCACTATTGATTTTGGTTCTGTTCAGGAAAGTGAAAAAAGTTATGGGGG
317 A-GACAATTGTTGTTCCCATTATTGATTTTGGTTC-ATTGAGGAAAGTGAAAAAAGTTATGGGTG
* * * *
39418315 ATTCAATGTATTTAATTCAAATCTGTCTTTCTCTATATGTCATACTTTGTTTGAAATAATAATTA
380 ATTCAATGTAGTTAATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTA
*
39418380 TGTT-TATCAAATCTAAGAACGTGCCATTCGTTCGATATAGATACGACCATATCCTTCACATTAA
445 T-TTCTATCAAATCTAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAA
39418444 TTTTAATTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAAT
509 TTTTAATTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAAT
*
39418509 AATCGATGTATGAAGTATTTCTACAAAATTATGATTATATCACTTAGATCTAAGAACGTGTCATG
574 AATCGATGTATGAAGTATTTCTACAAAATTATGATTATATCACTTAGATATAAGAACGTGTCATG
*
39418574 TGTTGGATAGCTGGACAATTGTTTG
639 TGTTGGATAGCTGGACAACTGTTTG
* * *
39418599 TTCCTATTATTGATTCTAGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAATTGAAAAAAGTTAT-GGTGATTCGATGTAGTTA
* * * **
39418664 ATTCAAATCTTCCTTTTTCTATGTGTCATACTTTGTT-TGAAATAGTGATTATGTCT-TTCAGAT
65 ATTCAAATATT-CTTTCTCTATATGTCATACTTT-TTCTGAAATAACGATTATGTCTATT-AGAT
** * * * *
39418727 CTTGGAACGTATCGTTCGTCTGATATAGAAACGATCGTAACCTGCACCTTAATTTTAATTCAATT
127 C-T-GAAC-TGCCATTCGTTTGATATAGATACGATCGTAACCTTCACCTTAATTTTAATTCAATT
* * * * ** *
39418792 GGGAACAAATTCTCTCCCTCTTCTCTAAAGGGTAATTTAAAATAAGGAAGATAATCGGTGT-TGA
189 GGGGACAAATTCTCTCCCTATTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGA
* * * * *
39418856 TGTATTTGTACAAAATT-TCGATTATATTGCTTAGATCTAAGAGCATGTCATGTGTTGGATACCT
254 TGTAATTATACAAAATTAT-GATTATATTGCTTAGATCTGAGAACGTGTCATGTGTTGGATA-CT
* * * *
39418920 AGACAATTGTTGTTCCCATTATGGATTCTAGTTCATTGAGGAAAGTGAAAAAAGTTATGGGTAAT
317 AGACAATTGTTGTTCCCATTATTGATTTTGGTTCATTGAGGAAAGTGAAAAAAGTTATGGGTGAT
* * * *
39418985 TCGATGTAGTTAATTCAAATATGTATTTCTCTATATGTCATACTTTGTCTAAAATAACGATTATT
382 TCAATGTAGTTAATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATT
* * *
39419050 TCTATCAAATCTAAGAACGTGCCATTTGTTTGATAAAGATACGACCATATCCTTCACAGTAATTT
447 TCTATCAAATCTAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTT
* *
39419115 TAATTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAATGATGATTTAGAGCAAGGAAAATAAT
512 TAATTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAATAAT
* * *
39419180 CGATGTATGATGTATTTCTACAAAATTATGATTATATCGCTTAGATATGAGAACGTGTCATGTTG
577 CGATGTATGAAGTATTTCTACAAAATTATGATTATATCACTTAGATATAAGAACGTGTCATG-TG
*
39419245 TTGGATAGTTGGACAACTG-TTG
641 TTGGATAGCTGGACAACTGTTTG
*
39419267 TTCCCATTATTGATTCTGGTTCTTTGAGGAAATTGAAAAAAGTTATAGGTGATTCGATGTTGTTA
1 TTCCCATTATTGATTCTGGTTCTTTGAGGAAATTGAAAAAAGTTAT-GGTGATTCGATGTAGTTA
39419332 ATTCAAATATGTCTTTCTCTATATGTCATACTTTTTCTGAAATAACGATTATGTCTATTAGATCT
65 ATTCAAATAT-TCTTTCTCTATATGTCATACTTTTTCTGAAATAACGATTATGTCTATTAGATCT
* * * *
39419397 AAGAACATGCCATTCGTTTG-TATAGATACGACCATATCCTTCACATTAATTTTAATTCAATTGG
129 --GAAC-TGCCATTCGTTTGATATAGATACGATCGTAACCTTCACCTTAATTTTAATTCAATTGG
* * *
39419461 GGACAAATTCTCTCCCTTTTCTCTAAAGGTTGATTTAAAGCAAGGAAGATAATCAATGTATGATG
191 GGACAAATTCTCTCCCTATTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGATG
* * *
39419526 TAATTCTACAAAATTATGATTATATTGCTTAGATTTGAGAACGTGTCATGTGTTGGATAGCTGGA
256 TAATTATACAAAATTATGATTATATTGCTTAGATCTGAGAACGTGTCATGTGTTGGATA-CTAGA
* * *
39419591 CAATTATTATTCCCATTATTGATTTTGGTTCTTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCA
320 CAATTGTTGTTCCCATTATTGATTTTGGTTCATTGAGGAAAGTGAAAAAAGTTATGGGTGATTCA
* * * *
39419656 ATATAGTTAATTCAAATATGTCTTTCTCTATATGTCATACTTTGCCTGGAA-AATGATTATGTCT
385 ATGTAGTTAATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATTTCT
39419720 ATCAAATCTAA-AACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAA
450 ATCAAATCTAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAA
* * * *
39419784 TTCAGTTGGCGACAAATCCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGA
515 TTCAATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGA
39419839 TGAGAAAAAT
Statistics
Matches: 1074, Mismatches: 133, Indels: 58
0.85 0.11 0.05
Matches are distributed among these distances:
656 3 0.00
657 65 0.06
658 28 0.03
659 2 0.00
661 3 0.00
663 2 0.00
664 1 0.00
665 1 0.00
666 100 0.09
667 116 0.11
668 555 0.52
669 98 0.09
670 98 0.09
671 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (663 bp):
TTCCCATTATTGATTCTGGTTCTTTGAGGAAATTGAAAAAAGTTATGGTGATTCGATGTAGTTAA
TTCAAATATTCTTTCTCTATATGTCATACTTTTTCTGAAATAACGATTATGTCTATTAGATCTGA
ACTGCCATTCGTTTGATATAGATACGATCGTAACCTTCACCTTAATTTTAATTCAATTGGGGACA
AATTCTCTCCCTATTCTCTAAAGGATGATTTAAAGCAAGGAAGATAATCGATGTATGATGTAATT
ATACAAAATTATGATTATATTGCTTAGATCTGAGAACGTGTCATGTGTTGGATACTAGACAATTG
TTGTTCCCATTATTGATTTTGGTTCATTGAGGAAAGTGAAAAAAGTTATGGGTGATTCAATGTAG
TTAATTCAAATATGTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATTTCTATCAAA
TCTAAGAACGTGCCATTCGTTTGATATAGATACGACCATATCCTTCACATTAATTTTAATTCAAT
TGGGGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAGCAAGGAAAATAATCGATGTATG
AAGTATTTCTACAAAATTATGATTATATCACTTAGATATAAGAACGTGTCATGTGTTGGATAGCT
GGACAACTGTTTG
Found at i:39424396 original size:18 final size:18
Alignment explanation
Indices: 39424373--39424409 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
39424363 TCAAATTCAA
*
39424373 ATTAATTACAAGTGGAGT
1 ATTAATTACAAGAGGAGT
39424391 ATTAATTACAAGAGGAGT
1 ATTAATTACAAGAGGAGT
39424409 A
1 A
39424410 GACTATGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (18 bp):
ATTAATTACAAGAGGAGT
Found at i:39431667 original size:6 final size:6
Alignment explanation
Indices: 39431656--39431682 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39431646 TGAGGACGGC
39431656 ACCTAT ACCTAT ACCTAT ACCTAT ACC
1 ACCTAT ACCTAT ACCTAT ACCTAT ACC
39431683 AGAAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (6 bp):
ACCTAT
Found at i:39435052 original size:99 final size:99
Alignment explanation
Indices: 39434846--39435034 Score: 254
Period size: 99 Copynumber: 1.9 Consensus size: 99
39434836 CAGGGAGCAC
* * *
39434846 AGGGTTAACTCAGTTGAAGCAAATCAATTTAATAGTAATATTGGAAGTAGCCTCCTAGAAGATGG
1 AGGGTTAACTCAGTTAAAGCAAATCAATTCAATAGTAATATTGGAAGCAGCCTCCTAGAAGATGG
* * *
39434911 AGTATATACAGCTCAATCGGTTTACTCAAAACGT
66 AGTATATAAAGCTAAATCAGTTTACTCAAAACGT
* * * * *
39434945 AGGGTTAACTTAGTTAAAGCCAAT-AATCTCAATGGTCATGTTGGAAGCAGCCTCCTAGAAGATG
1 AGGGTTAACTCAGTTAAAGCAAATCAAT-TCAATAGTAATATTGGAAGCAGCCTCCTAGAAGATG
*
39435009 GAGTTTATAAAGCTAAATCAGTTTAC
65 GAGTATATAAAGCTAAATCAGTTTAC
39435035 CTGGAGTGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
98 3 0.04
99 74 0.96
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (99 bp):
AGGGTTAACTCAGTTAAAGCAAATCAATTCAATAGTAATATTGGAAGCAGCCTCCTAGAAGATGG
AGTATATAAAGCTAAATCAGTTTACTCAAAACGT
Found at i:39454606 original size:54 final size:53
Alignment explanation
Indices: 39454521--39454651 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 53
39454511 AAAATGATTG
* * **
39454521 AAATACCCCTGAAGGGTAAAATGGCCAAAATAACTTTGAAGAGTAAAATGACCA
1 AAATACCCC-GAAGGGTAAAATGACCAAAATAACCTCAAAGAGTAAAATGACCA
** * * * *
39454575 AAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAGATGACCG
1 AAATACCC-CGAAGGGTAAAATGACCAAAATAACCTCAAAGAGTAAAATGACCA
39454629 AAATACCCC-ATAGGGTAAAATGA
1 AAATACCCCGA-AGGGTAAAATGA
39454652 TTTTTATACC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
52 1 0.02
53 13 0.20
54 50 0.77
55 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (53 bp):
AAATACCCCGAAGGGTAAAATGACCAAAATAACCTCAAAGAGTAAAATGACCA
Found at i:39454651 original size:26 final size:26
Alignment explanation
Indices: 39454510--39454651 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 26
39454500 GTAATGGGCC
** *
39454510 TAAAATGATTGAAATACCCCTGAAGGG
1 TAAAATGACCGAAATA-CCCTCAAGGG
* * ** * *
39454537 TAAAATGGCCAAAATAACTTTGAAGAG
1 TAAAATGACCGAAAT-ACCCTCAAGGG
*
39454564 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTC-AAGGG
*
39454591 TAAAATGACTGAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTC-AAGGG
*
39454618 TAAGATGACCGAAATACCC-CATAGGG
1 TAAAATGACCGAAATACCCTCA-AGGG
39454644 TAAAATGA
1 TAAAATGA
39454652 TTTTTATACC
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 15 0.16
27 77 0.82
28 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (26 bp):
TAAAATGACCGAAATACCCTCAAGGG
Found at i:39457111 original size:330 final size:333
Alignment explanation
Indices: 39456419--39457203 Score: 1114
Period size: 330 Copynumber: 2.4 Consensus size: 333
39456409 AAATTCAATC
* * * * * *
39456419 ATTGTCCCCATTATTGTTTCTGGTTCTGTTCACGAAAGTGAAAAAAGTTATGGACAATTCGATGT
1 ATTGTCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAACTTATGGGCAATTAGATGT
* * * * *
39456484 AGTTAATTCAAATATTTATTTCTCTATATGTCATACTTTGTCTGAAATAACCATTATGTCATTCA
66 AGTTAATTCAAATCTGTCTTTCTCTATATGTCATACTTTCTCTGAAATAACAATTATGTCATTCA
* *
39456549 GATCTAAAAACATGCCATTCTTTTGATATAGATACGATCATAACCTTCACCTTAATTTTAATTCA
131 GATCTAAAAACATGCCATTCATTTGATATAGATACAATCATAACCTTCA-CTTAATTTTAATTCA
* * * *
39456614 ATTGGGGACAGATTCTCTCCCTCTTTTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTA
195 ATTGGGGACAAATTCTCTCCCTCTTCTCTAAAGAATGATTTAAAAAAAGGAAGATAATCGATGTA
* * *
39456679 TGATGTCTCTATAAAAAATTATGATTATATCGCTCATATCTGAAAACTTTTCATGTGTTGGATAG
260 TGATGTATCTATAAAAAATTATGATTATATCGCTCAGATCTGAAAAC-TTTCATGTGTTGGATAA
*
39456744 TGGGACAACT
324 TGGAACAACT
* * *
39456754 ATTGT-CCAATTATTTATTCTGGTTCTGTTGAGGAAAGTGAAAAAA-TTATGGGCAATTTGATGT
1 ATTGTCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAACTTATGGGCAATTAGATGT
* **
39456817 AGTTAATTCAAATCTGTCTTTCTCTATATGTCATAGTTTCTCTGAAATAACAATTATGTTTTTCA
66 AGTTAATTCAAATCTGTCTTTCTCTATATGTCATACTTTCTCTGAAATAACAATTATGTCATTCA
* *
39456882 GATCTAAGAACATGTCATTCATTTGATATAGATACAATCATAACCTT-A-TTAATTTTAATTCAA
131 GATCTAAAAACATGCCATTCATTTGATATAGATACAATCATAACCTTCACTTAATTTTAATTCAA
*
39456945 TTGGGGACAAATTCTCTCCTTCTTCTCTAAAGAATGATTTAAAAAAAGGAAGATAATCGATGTAT
196 TTGGGGACAAATTCTCTCCCTCTTCTCTAAAGAATGATTTAAAAAAAGGAAGATAATCGATGTAT
* * * * *
39457010 GATGTATTTGTACAAAATTATGATTATATCGCTTAGATCTTAGAAA-TTTCATGTGTTGGATAAT
261 GATGTATCTATAAAAAATTATGATTATATCGCTCAGATCTGA-AAACTTTCATGTGTTGGATAAT
39457074 GGAACAACT
325 GGAACAACT
* * *
39457083 GTTGTCCCCACTATTGATTCTAGTTCTGTTGAGGAAAGT-AAAAAACTTTATGGGCAATTAGATG
1 ATTGTCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAAC-TTATGGGCAATTAGATG
* * * *
39457147 CAGTTAATTCAAATCTGTCTTTCTCTACATGTCATACTTTTTCTGAAATAACGATTA
65 TAGTTAATTCAAATCTGTCTTTCTCTATATGTCATACTTTCTCTGAAATAACAATTA
39457204 GAGAGTGGAT
Statistics
Matches: 402, Mismatches: 44, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
329 35 0.09
330 139 0.35
331 71 0.18
332 1 0.00
333 116 0.29
334 35 0.09
335 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (333 bp):
ATTGTCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAACTTATGGGCAATTAGATGT
AGTTAATTCAAATCTGTCTTTCTCTATATGTCATACTTTCTCTGAAATAACAATTATGTCATTCA
GATCTAAAAACATGCCATTCATTTGATATAGATACAATCATAACCTTCACTTAATTTTAATTCAA
TTGGGGACAAATTCTCTCCCTCTTCTCTAAAGAATGATTTAAAAAAAGGAAGATAATCGATGTAT
GATGTATCTATAAAAAATTATGATTATATCGCTCAGATCTGAAAACTTTCATGTGTTGGATAATG
GAACAACT
Found at i:39457330 original size:145 final size:143
Alignment explanation
Indices: 39457066--39457348 Score: 329
Period size: 145 Copynumber: 2.0 Consensus size: 143
39457056 TTTCATGTGT
* **
39457066 TGGATAATGGAACAACTGTTGTCCCCACTATTGATTCTAGTTCTGTTGAGGAAAGTAAAAAACTT
1 TGGATAATGGAACAACTGTTGTCCCCACTATTGATTCTAGTTCTGTTGAAGAAAGTAAAAAAAGT
* ** *
39457131 TATGGGCAATTAGATGCAGTTAATTCAAATCTGTCTTTCTCTACATGTCATACTTTTTCTGAAAT
66 TATGGGCAATTAGATACAGTTAATTCAAATCTGTCTTTCTCTACATGTCATACTTCATCTAAAAT
39457196 AACGATTAGAGAG
131 AACGATTAGAGAG
* * * * *
39457209 TGGATAGTGGGACAATTGTTGTCCCC-CTTATTGATTCTGGTTTTGTTGAAGAAAGTGGAAAAAA
1 TGGATAATGGAACAACTGTTGTCCCCAC-TATTGATTCTAGTTCTGTTGAAGAAAGT--AAAAAA
** * * * *
39457273 AGTTATGGGTGATTCGATATAGTTAATTCAAAT-TGTTCTTTCTCT-CTATTTCCTACTTCATCT
63 AGTTATGGGCAATTAGATACAGTTAATTCAAATCTG-TCTTTCTCTAC-ATGTCATACTTCATCT
*
39457336 AAAATAATGATTA
126 AAAATAACGATTA
39457349 TATATTTCAG
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
142 1 0.01
143 48 0.41
144 3 0.03
145 64 0.55
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (143 bp):
TGGATAATGGAACAACTGTTGTCCCCACTATTGATTCTAGTTCTGTTGAAGAAAGTAAAAAAAGT
TATGGGCAATTAGATACAGTTAATTCAAATCTGTCTTTCTCTACATGTCATACTTCATCTAAAAT
AACGATTAGAGAG
Found at i:39463652 original size:21 final size:20
Alignment explanation
Indices: 39463603--39463652 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
39463593 TTCAATTATT
39463603 TAATTATAATAAATTAATTAA
1 TAATTA-AATAAATTAATTAA
39463624 TAATTTAAATAAATTAAATTAA
1 TAA-TTAAATAAATT-AATTAA
*
39463646 TCATTAA
1 TAATTAA
39463653 GTTATCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTAAATAAATTAATTAA
Found at i:39466741 original size:22 final size:22
Alignment explanation
Indices: 39466698--39466742 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39466688 GTCATGTGTT
* * * *
39466698 AAATATTTTATTATATATTTAA
1 AAATATATTAATATACAATTAA
39466720 AAATATATTAATATACAATTAA
1 AAATATATTAATATACAATTAA
39466742 A
1 A
39466743 CTGATAACAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATATTAATATACAATTAA
Found at i:39468527 original size:99 final size:98
Alignment explanation
Indices: 39468297--39468530 Score: 244
Period size: 99 Copynumber: 2.4 Consensus size: 98
39468287 AGAAATGCTC
* * * * * * *
39468297 CCAA-AAGATGGAGTTTATACAACTCAACTGGATTACTCAGAGCGTAGGATTAACTGGTTGAAAC
1 CCAAGAAGATGGAGTATATACAGCTAAACTAGTTTACTCAGAACGTAGGATTAACTAGTTGAAAC
* * *
39468361 AAATCAATTTAACTGTCCTATTGGACGTAGCCT
66 AAATCAATTCAACTGTCATATTGGAAGTAGCCT
* * *
39468394 CCTAGAAGATGGGGTATATACAGCTCAACTAGTTTACTCAGAACGTAGGATTAACTTAGTT-AAA
1 CCAAGAAGATGGAGTATATACAGCTAAACTAGTTTACTCAGAACGTAGGATTAAC-TAGTTGAAA
*
39468458 GCCAAT-AATCTCAA-TGGTCATATTGGAAGTAGCCT
65 -CAAATCAAT-TCAACT-GTCATATTGGAAGTAGCCT
* *
39468493 CCAAGAAGATGGAGTTTATATAGCTAAA-TCAGTTTACT
1 CCAAGAAGATGGAGTATATACAGCTAAACT-AGTTTACT
39468531 TGGAGTGTAC
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
97 3 0.03
98 52 0.46
99 59 0.52
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (98 bp):
CCAAGAAGATGGAGTATATACAGCTAAACTAGTTTACTCAGAACGTAGGATTAACTAGTTGAAAC
AAATCAATTCAACTGTCATATTGGAAGTAGCCT
Found at i:39477069 original size:76 final size:75
Alignment explanation
Indices: 39476943--39477149 Score: 180
Period size: 76 Copynumber: 2.7 Consensus size: 75
39476933 TTGTACCAAG
*** * * * * * ** * *
39476943 CTAGTCGGATAAACCGGTGATGATAATCGTGTACCCAACACTAGTTGAATAAATTGATAAAGGCT
1 CTAGTCGGATAAACCAACGATGATAATTGTGT-GCCAGCACTACTAGAATAAATCAAAAAAGACT
*
39477008 TGCTCCCAGCA
65 TGCGCCCAGCA
* * *
39477019 CTAGTTGTATAAACCAACGATGATAATTGTGTGCTCAGCACTACTAGAATAAATCAAAAAAGATT
1 CTAGTCGGATAAACCAACGATGATAATTGTGTGC-CAGCACTACTAGAATAAATCAAAAAAGACT
**
39477084 TGCGCCCAGTG
65 TGCGCCCAGCA
** * * *
39477095 CTAGTCGGATAAACTGACGATAATACTTGTGTGCCGAGCACTACTCGAATAAATC
1 CTAGTCGGATAAACCAACGATGATAATTGTGTGCC-AGCACTACTAGAATAAATC
39477150 GACAACACAA
Statistics
Matches: 104, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
75 2 0.02
76 102 0.98
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (75 bp):
CTAGTCGGATAAACCAACGATGATAATTGTGTGCCAGCACTACTAGAATAAATCAAAAAAGACTT
GCGCCCAGCA
Found at i:39481589 original size:335 final size:334
Alignment explanation
Indices: 39481088--39482287 Score: 1494
Period size: 335 Copynumber: 3.6 Consensus size: 334
39481078 TCTGTTCAGG
* *
39481088 AAAGTGAAAAAAGTTATGGATGATTCGATGTAGTTAATTCAAATATTTCTGTCTCTATATGTCAT
1 AAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCAT
* * * * * *
39481153 ATTTTGTTTGAAATAATGATTATGTCTTTCAGATATAAGAATATGACATTCTTTCGATATAGATA
66 ACTTTGTCTGAAATAATGATTATGTCTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATA
* * * * * *
39481218 GGATCTTAAACTTCACCTTAATTTTAATTCAATTGGGGACAGATTCTCTTCGTATTCTCTAAAGG
131 CGATCATAAACTTCACCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGG
* *
39481283 ATGATTTAAAACGAGGAAGATAATCGATGTATGATGTATCTATACAAAATTATGATTATATCGCT
196 ATGATTTAAAACAAGGAAGATAATCGATGTATGATGTATTTATACAAAATTATGATTATATCGCT
* * * ** ** * *
39481348 AAGATTTGAAAACATTTCATATGTTAAATAGTGGGACAACCGTTGTCCCCACTATTGATTTTGGT
261 TAGATTTGAGAACATTTCATGTGTTGGATAGTGGGACAATTGTTGTTCCCATTATTGATTTT-GT
39481413 TTTGTTGACG-
325 TTTGTTGA-GA
* * * *
39481423 AAACTGAAAAAAGTTATGGGCGATTCGATGTAGTTAATTCAAATATGTCTTTCTCTATACGTCAT
1 AAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCAT
* *
39481488 ACTTTGTCTAAAATAATGATTATGTCTATCAGATCTAAGAACATGCCATTCATTCGATATAGATA
66 ACTTTGTCTGAAATAATGATTATGTCTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATA
** * * * * *
39481553 CG-TCCATACCCTTTACATTAATTTTAATTTAATTGGGTACAAATTCTCTCCCTCTTCTCTAAAG
131 CGAT-CATAAACTTCACCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAG
* * * *
39481617 GATGATTTAAAACAAGGAAGACAATTGATGTATGATGCATTTATACAAAATTATGATTGTATCGC
195 GATGATTTAAAACAAGGAAGATAATCGATGTATGATGTATTTATACAAAATTATGATTATATCGC
* * * *
39481682 TTAGATTTGAGAACATGTCATGTGTTGGATAGCT-AGACAATTATTTTTCCCATTATTGATTCTT
260 TTAGATTTGAGAACATTTCATGTGTTGGATAG-TGGGACAATTGTTGTTCCCATTATTGATT-TT
*
39481746 GTTTTGTTGAGC
323 GTTTTGTTGAGA
* * * *
39481758 AAAGTGAAAAACGTAATGGGTGATTCGATGTAGTTAATTCAAATATTTC-TTCTTTATATGCCAT
1 AAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCAT
* * * * * * ** * *
39481822 AATTTGTTTGAAATAATGTTTATGTCTTTCATATTTTAGAACGCGCCATTCATCCAATATAGATA
66 ACTTTGTCTGAAATAATGATTATGTCTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATA
* * * **
39481887 CCATCGTAACCTTCACCTTAATTTTAATTCAATTGGGAATGGATTCTCTCCCTCTTCTCTAAAGG
131 CGATCATAAACTTCACCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGG
* * * *** *
39481952 ATGACTTAAAACAAGAAAGATAATC-AGTGTATGATGTATTTGTACAAAATTCCAATTATATTGC
196 ATGATTTAAAACAAGGAAGATAATCGA-TGTATGATGTATTTATACAAAATTATGATTATATCGC
* *
39482016 TTAGATTTGAGAACATTTCATGTGTTGGATAGTGGGACAATTGATGTTCCCATTATTAATTTTAG
260 TTAGATTTGAGAACATTTCATGTGTTGGATAGTGGGACAATTGTTGTTCCCATTATTGATTTT-G
*
39482081 TTCTGTTGAGA
324 TTTTGTTGAGA
* * * *
39482092 AAAGTGAAAAAAAGTTATGGGTGATCCGATGTAGTTAATACAAATCTTTGTTTCTCTATATGTCA
1 AAAGTG-AAAAAAGTTATGGGTGATTCGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCA
* * * *
39482157 TACTTTGTCTGAAATAATGAGTATATCTTTCAGATCTAAGAACGTGTCATTCATTCGATATAGAT
65 TACTTTGTCTGAAATAATGATTATGTCTTTCAGATCTAAGAACATGCCATTCATTCGATATAGAT
* * *
39482222 ACGATCAT-AACTTTCGCCTTAATTGTAATTCAATTGGGAATAGATTCTCTCCCTCTTCTCTAAA
130 ACGATCATAAAC-TTCACCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAA
39482286 GG
194 GG
39482288 GGAAAAAAGT
Statistics
Matches: 734, Mismatches: 120, Indels: 21
0.84 0.14 0.02
Matches are distributed among these distances:
333 4 0.01
334 240 0.33
335 365 0.50
336 125 0.17
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (334 bp):
AAAGTGAAAAAAGTTATGGGTGATTCGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCAT
ACTTTGTCTGAAATAATGATTATGTCTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATA
CGATCATAAACTTCACCTTAATTTTAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGG
ATGATTTAAAACAAGGAAGATAATCGATGTATGATGTATTTATACAAAATTATGATTATATCGCT
TAGATTTGAGAACATTTCATGTGTTGGATAGTGGGACAATTGTTGTTCCCATTATTGATTTTGTT
TTGTTGAGA
Found at i:39482271 original size:670 final size:670
Alignment explanation
Indices: 39481060--39482287 Score: 1683
Period size: 669 Copynumber: 1.8 Consensus size: 670
39481050 AATCATTGTG
* *
39481060 CCCATTACTGATTCTGGCTCTGTTCAGGAAAGTGAAAAAAGTTATGGATGATTCGATGTAGTTAA
1 CCCATTACTGATTCTGGCTCTGTTCAGCAAAGTGAAAAAAGTAATGGATGATTCGATGTAGTTAA
* *
39481125 TTCAAATATTTCTGTCTCTATATGTCATATTTTGTTTGAAATAATGATTATGTCTTTCAGATATA
66 TTCAAATATTTCTGTCTCTATATGCCATAATTTGTTTGAAATAATGATTATGTCTTTCAGATATA
* * * * * ** *
39481190 AGAATATGACATTCTTTCGATATAGATAGGATCTTAAACTTCACCTTAATTTTAATTCAATTGGG
131 AGAACACGACATTCATCCAATATAGATACCATCGTAAACTTCACCTTAATTTTAATTCAATTGGG
* * * * * *
39481255 GACAGATTCTCTTCGTATTCTCTAAAGGATGATTTAAAACGAGGAAGATAATCGATGTATGATGT
196 AACAGATTCTCTCCCTATTCTCTAAAGGATGACTTAAAACAAGAAAGATAATCGATGTATGATGT
**
39481320 ATCTATACAAAATTATGATTATATCGCTAAGATTTGAAAACATTTCATATGTTAAATAGTGGGAC
261 ATCTATACAAAATTACAATTATATCGCTAAGATTTGAAAACATTTCATATGTTAAATAGTGGGAC
* * * * *
39481385 AACCGTTGTCCCCACTATTGATTTTGGTTTTGTTGACGAAACTGAAAAAAGTTATGGGCGATTCG
326 AACCGATGTCCCCACTATTAATTTTAGTTCTGTTGACGAAACTGAAAAAAGTTATGGGCGATCCG
* * *
39481450 ATGTAGTTAATTCAAATATGTCTTTCTCTATACGTCATACTTTGTCTAAAATAATGATTATGTCT
391 ATGTAGTTAATACAAATATGTCTTTCTCTATACGTCATACTTTGTCTAAAATAATGAGTATATCT
* *
39481515 ATCAGATCTAAGAACATGCCATTCATTCGATATAGATACGTCCATACCCTTTACATTAATTTTAA
456 ATCAGATCTAAGAACATGCCATTCATTCGATATAGATACGTCCATACACTTTACATTAATTGTAA
* *
39481580 TTTAATTGGGTACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGACAATTGA
521 TTCAATTGGGAACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGACAATTGA
39481645 TGTATGATGCATTTATACAAAATTATGATTGTATCGCTTAGATTTGAGAACATGTCATGTGTTGG
586 TGTATGATGCATTTATACAAAATTATGATTGTATCGCTTAGATTTGAGAACATGTCATGTGTTGG
39481710 ATAGCTAGACAATTATTTTT
651 ATAGCTAGACAATTATTTTT
* * * * * * *
39481730 CCCATTATTGATTCTTGTTTTGTTGAGCAAAGTGAAAAACGTAATGGGTGATTCGATGTAGTTAA
1 CCCATTACTGATTCTGGCTCTGTTCAGCAAAGTGAAAAAAGTAATGGATGATTCGATGTAGTTAA
* * * * *
39481795 TTCAAATATTTCT-TCTTTATATGCCATAATTTGTTTGAAATAATGTTTATGTCTTTCATATTTT
66 TTCAAATATTTCTGTCTCTATATGCCATAATTTGTTTGAAATAATGATTATGTCTTTCAGATATA
* * *
39481859 AGAACGCGCCATTCATCCAATATAGATACCATCGTAACCTTCACCTTAATTTTAATTCAATTGGG
131 AGAACACGACATTCATCCAATATAGATACCATCGTAAACTTCACCTTAATTTTAATTCAATTGGG
** *
39481924 AATGGATTCTCTCCCTCTTCTCTAAAGGATGACTTAAAACAAGAAAGATAATC-AGTGTATGATG
196 AACAGATTCTCTCCCTATTCTCTAAAGGATGACTTAAAACAAGAAAGATAATCGA-TGTATGATG
* * * * * * * **
39481988 TATTTGTACAAAATTCCAATTATATTGCTTAGATTTGAGAACATTTCATGTGTTGGATAGTGGGA
260 TATCTATACAAAATTACAATTATATCGCTAAGATTTGAAAACATTTCATATGTTAAATAGTGGGA
** * * * *
39482053 CAATTGATGTTCCCATTATTAATTTTAGTTCTGTTGA-GAAAAGTGAAAAAAAGTTATGGGTGAT
325 CAACCGATGTCCCCACTATTAATTTTAGTTCTGTTGACG-AAACTG-AAAAAAGTTATGGGCGAT
* * * * *
39482117 CCGATGTAGTTAATACAAATCTTTGTTTCTCTATATGTCATACTTTGTCTGAAATAATGAGTATA
388 CCGATGTAGTTAATACAAATATGTCTTTCTCTATACGTCATACTTTGTCTAAAATAATGAGTATA
* * * * *
39482182 TCTTTCAGATCTAAGAACGTGTCATTCATTCGATATAGATACGAT-CATA-ACTTTCGCCTTAAT
453 TCTATCAGATCTAAGAACATGCCATTCATTCGATATAGATACG-TCCATACACTTT-ACATTAAT
* *
39482245 TGTAATTCAATTGGGAATAGATTCTCTCCCTCTTCTCTAAAGG
516 TGTAATTCAATTGGGAACAAATTCTCTCCCTCTTCTCTAAAGG
39482288 GGAAAAAAGT
Statistics
Matches: 476, Mismatches: 77, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
668 2 0.00
669 243 0.51
670 230 0.48
671 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (670 bp):
CCCATTACTGATTCTGGCTCTGTTCAGCAAAGTGAAAAAAGTAATGGATGATTCGATGTAGTTAA
TTCAAATATTTCTGTCTCTATATGCCATAATTTGTTTGAAATAATGATTATGTCTTTCAGATATA
AGAACACGACATTCATCCAATATAGATACCATCGTAAACTTCACCTTAATTTTAATTCAATTGGG
AACAGATTCTCTCCCTATTCTCTAAAGGATGACTTAAAACAAGAAAGATAATCGATGTATGATGT
ATCTATACAAAATTACAATTATATCGCTAAGATTTGAAAACATTTCATATGTTAAATAGTGGGAC
AACCGATGTCCCCACTATTAATTTTAGTTCTGTTGACGAAACTGAAAAAAGTTATGGGCGATCCG
ATGTAGTTAATACAAATATGTCTTTCTCTATACGTCATACTTTGTCTAAAATAATGAGTATATCT
ATCAGATCTAAGAACATGCCATTCATTCGATATAGATACGTCCATACACTTTACATTAATTGTAA
TTCAATTGGGAACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGACAATTGA
TGTATGATGCATTTATACAAAATTATGATTGTATCGCTTAGATTTGAGAACATGTCATGTGTTGG
ATAGCTAGACAATTATTTTT
Found at i:39485594 original size:189 final size:189
Alignment explanation
Indices: 39485274--39485651 Score: 711
Period size: 189 Copynumber: 2.0 Consensus size: 189
39485264 GCAATGTTTG
* *
39485274 GGATCGATCTTGGGTTTCAAGATTTCAGATTTGGGGCTTATTTAGATAAGGATAAATTTCAGAAA
1 GGATCGATCTTGGGGTTCAAGATTTCAGATTTGGGGCTTATTTAGATAAGGATAAATTGCAGAAA
39485339 TATAATAAAGAAGATAATGCACTATCTTGACACAAAAAGAAAAAGAAAGAGATTGTAAAATGGGA
66 TATAATAAAGAAGATAATGCACTATCTTGACACAAAAAGAAAAAGAAAGAGATTGTAAAATGGGA
39485404 GGTGTAGGCGACGACATTCATGGAGGAAAGGAAAAAAAATAAAATCAAAGAGAGGGAAA
131 GGTGTAGGCGACGACATTCATGGAGGAAAGGAAAAAAAATAAAATCAAAGAGAGGGAAA
*
39485463 GGATCGATCTTGGGGTTCAAGATTTCAGATTTGGGGCTTATTTAGATGAGGATAAATTGCAGAAA
1 GGATCGATCTTGGGGTTCAAGATTTCAGATTTGGGGCTTATTTAGATAAGGATAAATTGCAGAAA
**
39485528 TATAATAAAGAAGATGGTGCACTATCTTGACACAAAAAGAAAAAGAAAGAGATTGTAAAATGGGA
66 TATAATAAAGAAGATAATGCACTATCTTGACACAAAAAGAAAAAGAAAGAGATTGTAAAATGGGA
39485593 GGTGTAGGCGACGACATTCATGGAGGAAAGGAAAAAAAATAAAATCAAAGAGAGGGAAA
131 GGTGTAGGCGACGACATTCATGGAGGAAAGGAAAAAAAATAAAATCAAAGAGAGGGAAA
39485652 AGAGGAGATA
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 184 1.00
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.22
Consensus pattern (189 bp):
GGATCGATCTTGGGGTTCAAGATTTCAGATTTGGGGCTTATTTAGATAAGGATAAATTGCAGAAA
TATAATAAAGAAGATAATGCACTATCTTGACACAAAAAGAAAAAGAAAGAGATTGTAAAATGGGA
GGTGTAGGCGACGACATTCATGGAGGAAAGGAAAAAAAATAAAATCAAAGAGAGGGAAA
Found at i:39486948 original size:27 final size:28
Alignment explanation
Indices: 39486918--39486970 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
39486908 CTATTGCCAA
39486918 AAATATTATT-ATTTAATCAATTAAAAG
1 AAATATTATTAATTTAATCAATTAAAAG
* * *
39486945 AAATTTTATTAATTTACTTAATTAAA
1 AAATATTATTAATTTAATCAATTAAA
39486971 TTAATTTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATATTATTAATTTAATCAATTAAAAG
Found at i:39487136 original size:22 final size:23
Alignment explanation
Indices: 39487109--39487159 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
39487099 TTGAAACTTC
39487109 AATTAATTAA-TTATAATAAATT-
1 AATTAATTAATTTA-AATAAATTA
39487131 AATTAA-TAATTTAAATAAATTA
1 AATTAATTAATTTAAATAAATTA
39487153 AATTAAT
1 AATTAAT
39487160 CATTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAATTAATTTAAATAAATTA
Found at i:39490346 original size:20 final size:20
Alignment explanation
Indices: 39490321--39490360 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39490311 CGTAAAATGA
*
39490321 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
39490341 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
39490361 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:39495410 original size:27 final size:27
Alignment explanation
Indices: 39495371--39495441 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
39495361 AACATGTTAG
* *
39495371 GAAATAAATGCCTTTGTAGCGAATCAT
1 GAAAGAAAAGCCTTTGTAGCGAATCAT
* *
39495398 GAAAGAAAAGCCTTTGTGGTGAATCAT
1 GAAAGAAAAGCCTTTGTAGCGAATCAT
*
39495425 GAAAGAAAAGCCCTTGT
1 GAAAGAAAAGCCTTTGT
39495442 GGTGAGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTAGCGAATCAT
Found at i:39495442 original size:27 final size:27
Alignment explanation
Indices: 39495391--39495446 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
39495381 CCTTTGTAGC
*
39495391 GAATCATGAAAGAAAAGCCTTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
39495418 GAATCATGAAAGAAAAGCCCTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
39495445 GA
1 GA
39495447 GAATTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (27 bp):
GAATCATGAAAGAAAAGCCCTTGTGGT
Found at i:39504074 original size:151 final size:146
Alignment explanation
Indices: 39503729--39504196 Score: 566
Period size: 151 Copynumber: 3.1 Consensus size: 146
39503719 GCTAAAAGTC
* * * * * ** *
39503729 ATTACTTTTCTTAAAAATCAAA-ACTTTATTTCGAAATAGATGAAAACGATCAAAATTTTGTTTT
1 ATTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAG-TTAAAAAAATCAAAACTTTGTTTT
* * * *
39503793 AAAAAATTCAAACTTTTCCTTTAAAATGACTAAAAAACAT-TTTTTTATTTTAAAAATCTAAATT
65 -AAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAAA-ATAATTTTTATTTTTAAAATCTAAAAT
*
39503857 TTCTC-TTTTTAAAAAAAAC
127 TTCTCTTTTTTAAAAAAAAA
* *
39503876 ATTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTTGAAAAAACTCAAAACTTTATTTT
1 ATTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTT-AAAAAAATCAAAACTTTGTTTT
* *
39503941 AAAAATTTAAACTTTCATTTGAAATGACTAAAAAAATAGATTTTTATTTTCTAAAATCTAAAATT
65 AAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATA-ATTTTTATTTT-TAAAATCTAAAATT
39504006 TCTCTTTTTTAAAAAAAAA
128 TCTCTTTTTTAAAAAAAAA
* *
39504025 ATACTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTTAAAAAAAATCAAAAGTATGTT
1 AT--TATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTT-AAAAAAATCAAAACTTTGTT
* *
39504090 TTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAATAATTTTTTATTTTTCAAAATCTAAAC
63 TTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAA-TTTTTATTTTT-AAAATCTAAAA
**
39504155 TTTCTCTTTTTATAAAAAATTA
126 TTTCTCTTTTT-TAAAAAAAAA
* *
39504177 ATTTTTTTTC-CAAAGATCAA
1 ATTATTTTTCTTAAAGATCAA
39504197 GCCTTTTTTT
Statistics
Matches: 280, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
145 2 0.01
146 21 0.08
147 42 0.15
148 48 0.17
149 24 0.09
150 9 0.03
151 124 0.44
152 10 0.04
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (146 bp):
ATTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTA
AAAATTTAAACTTTCCTTTAAAATGACTAAAAAAATAATTTTTATTTTTAAAATCTAAAATTTCT
CTTTTTTAAAAAAAAA
Found at i:39505027 original size:42 final size:42
Alignment explanation
Indices: 39504969--39505273 Score: 342
Period size: 42 Copynumber: 7.3 Consensus size: 42
39504959 CTTTATATAC
* * * *
39504969 AATGCAATGAACAGTAAATGGACCTCCACACCTAGGTCTTTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
** * ** * *
39505011 AATGTTATGAAAAGTAAATGGACCTTTACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
* * *
39505053 AATGCAACGAAAAGTCAAT-GAACCTCCACACCTAGGTCTCTA
1 AATGCAATGAAAAGTAAATAG-ACCTCCACACCTAGGCCTCTA
* * *
39505095 AATGCAATTAAAAGTGAACAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
* * * * *
39505137 ATTGCAATGAAAAGTAAACAGACTTCTACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
* *
39505179 AATGCAATGAAAAGTAAATTGAGCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
* * * *
39505221 AATGAAATGAAAAGTAAATAGACCTCTACACCTGGGACTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
39505263 AATGCAATGAA
1 AATGCAATGAA
39505274 TGTTTTCCTT
Statistics
Matches: 218, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.00
42 216 0.99
43 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
Found at i:39505710 original size:16 final size:16
Alignment explanation
Indices: 39505691--39505730 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
39505681 TTTTGGTTTC
39505691 TTTTTTATTTTATTTT
1 TTTTTTATTTTATTTT
39505707 TTTTTCT-TTTTATTTT
1 TTTTT-TATTTTATTTT
39505723 TTTATTTA
1 TTT-TTTA
39505731 AGCAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTATTTTATTTT
Found at i:39505729 original size:24 final size:23
Alignment explanation
Indices: 39505675--39505722 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
39505665 TTGCTCTCTC
39505675 TTTATTTTTTGGTTTCTTTTTTAT
1 TTTATTTTTT-GTTTCTTTTTTAT
39505699 TTTATTTTTT-TTTC-TTTTTAT
1 TTTATTTTTTGTTTCTTTTTTAT
39505720 TTT
1 TTT
39505723 TTTATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
24 10 0.42
ACGTcount: A:0.08, C:0.04, G:0.04, T:0.83
Consensus pattern (23 bp):
TTTATTTTTTGTTTCTTTTTTAT
Found at i:39507275 original size:61 final size:61
Alignment explanation
Indices: 39507139--39507277 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 61
39507129 ATTTATTCAC
* * * *
39507139 ATGTGGTTAGAATGTATGTTCAAATTCTTTGAGCTGAAATTTATGTATGAATCTTATACATAT
1 ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAA-CTTATACA-AT
* *
39507202 ATGTGGTTCGAATATAGGTTACAAATTCCTTGAGCT-ATATTTAATGTTGTGAA-TTATAC-AT
1 ATGTGGTTCGAATATAGGTT-CAAATTCCTTGAGCTGAAATTT-ATG-TATGAACTTATACAAT
39507263 ATGTGGTTCGAATAT
1 ATGTGGTTCGAATAT
39507278 GTGTTTACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
61 17 0.25
63 28 0.42
64 17 0.25
65 5 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (61 bp):
ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAACTTATACAAT
Found at i:39507508 original size:41 final size:41
Alignment explanation
Indices: 39507404--39507508 Score: 183
Period size: 41 Copynumber: 2.6 Consensus size: 41
39507394 CAAGCTCTAT
*
39507404 GTCTAGCAGGCTTAATGCCGGTAAAATATTTCAGACTTTAC
1 GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAC
*
39507445 TTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAC
1 GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAC
*
39507486 GTCTAGCAGGCTTATTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG
39507509 TTCTGAATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAC
Found at i:39509708 original size:34 final size:35
Alignment explanation
Indices: 39509670--39509752 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
39509660 CTCCCAATCA
39509670 CTTTTTTTTGTTCTTACTC-C-TTC-CTATTTCCTT
1 CTTTTTTTTGTTCTTACTCGCTTTCACTATTT-CTT
*
39509703 -TCTTTTTTTGTTCCTTATTCGCTTTCACTATTTCTT
1 CT-TTTTTTTGTT-CTTACTCGCTTTCACTATTTCTT
39509739 CTTTTTTTT-TTCTT
1 CTTTTTTTTGTTCTT
39509753 TTTTCAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
32 1 0.02
33 10 0.23
34 9 0.21
35 3 0.07
36 13 0.30
37 7 0.16
ACGTcount: A:0.06, C:0.23, G:0.04, T:0.67
Consensus pattern (35 bp):
CTTTTTTTTGTTCTTACTCGCTTTCACTATTTCTT
Found at i:39509741 original size:35 final size:33
Alignment explanation
Indices: 39509672--39509752 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 33
39509662 CCCAATCACT
39509672 TTTTTTTGTTCTTACTCCTTCCTATTTCCTTTC
1 TTTTTTTGTTCTTACTCCTTCCTATTTCCTTTC
*
39509705 TTTTTTTGTTCCTTATTCGCTTTCACTATTT-C-TTC
1 TTTTTTTGTT-CTTACTC-C-TTC-CTATTTCCTTTC
*
39509740 TTTTTTTTTTCTT
1 TTTTTTTGTTCTT
39509753 TTTTCAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 10 0.24
34 9 0.21
35 13 0.31
36 4 0.10
37 6 0.14
ACGTcount: A:0.06, C:0.22, G:0.04, T:0.68
Consensus pattern (33 bp):
TTTTTTTGTTCTTACTCCTTCCTATTTCCTTTC
Found at i:39514655 original size:50 final size:50
Alignment explanation
Indices: 39514527--39514769 Score: 181
Period size: 50 Copynumber: 4.8 Consensus size: 50
39514517 TGATAATAAC
* * * *
39514527 ATACCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTTTTCGATA-C-
1 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTC-ATATCG
* * * * *
39514577 -TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCG
* *
39514626 ATACCCATGCCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCG
1 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCG
* * * * * * * *
39514676 GTGCCAATGCCATGTCTCAGACATGATCTTACGTGGGACCTCTTATAACCTCA
1 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TCG
*
39514729 ATAATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 AT-A--CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
39514770 TCTCATTCCC
Statistics
Matches: 151, Mismatches: 29, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
47 3 0.02
48 11 0.07
49 31 0.21
50 68 0.45
52 4 0.03
53 3 0.02
56 31 0.21
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCG
Found at i:39516491 original size:22 final size:22
Alignment explanation
Indices: 39516447--39516491 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39516437 GAAATAGTTG
* *
39516447 AAAAAGTTCAAAATTTTATTTT
1 AAAAAATTCAAAATTTTACTTT
* *
39516469 AAAAAATTCAAACTTTTCCTTT
1 AAAAAATTCAAAATTTTACTTT
39516491 A
1 A
39516492 GAATGACTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAAATTCAAAATTTTACTTT
Found at i:39516839 original size:153 final size:149
Alignment explanation
Indices: 39516386--39516839 Score: 544
Period size: 153 Copynumber: 3.0 Consensus size: 149
39516376 AAAATCAAAG
* * * * * *
39516386 TTTTATTTTTAAAAAAACTATTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAA
1 TTTTTTTTTTAAAAAAAC-ACTATTTTTCTTAAAGATCAAAATTTTATTTTGAAATAGTTGAAAA
** * * * * ** *
39516451 AGTTCAAAATTTTATTTTAAAAAATTCAAACTTTTCCTTTAGAATGACTAAAAAGCATATTTTTA
65 AAATCAAAACTTTGTTTT-AAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAAATAGATTTTTA
*
39516516 -TTTTAAAAATCTAAACTCTC-
128 TTTTTTAAAATCTAAACTCTCT
** * *
39516536 -----TTTAAAAAAAAAAACTATTTTTCTTAAAGATCAATACTTTTATTTTGAAATAGTTGAAAA
1 TTTTTTTTTTAAAAAAACACTATTTTTCTTAAAGATCAA-AATTTTATTTTGAAATAGTTGAAAA
*
39516596 AAATCAAAACTTTGTTTTAAAAATTTAAACTTCCCTTTAAAATGACTAAAAAATAGATTTTTATT
65 AAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATAGATTTTTATT
* *
39516661 TTTTAAAATCTAAAATTTCT
130 TTTTAAAATCTAAACTCTCT
39516681 CTTTTTTTTTTAAAAAAACACTATTTTTCTTAAAGATCAAAGATTTTATTTTGAAATAGTTGAAA
1 -TTTTTTTTTTAAAAAAACACTATTTTTCTTAAAGATCAAA-ATTTTATTTTGAAATAGTTG--A
* **
39516746 AAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTCCAATGACTAAAAATATAGATTTT
62 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAA-ATAGATTTT
39516811 TATTTTTTAAAATCTAAACTCTCT
126 TATTTTTTAAAATCTAAACTCTCT
39516835 TTTTT
1 TTTTT
39516840 AAAAAAAACA
Statistics
Matches: 259, Mismatches: 32, Indels: 23
0.82 0.10 0.07
Matches are distributed among these distances:
143 28 0.11
144 46 0.18
145 46 0.18
150 1 0.00
151 50 0.19
153 57 0.22
154 31 0.12
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (149 bp):
TTTTTTTTTTAAAAAAACACTATTTTTCTTAAAGATCAAAATTTTATTTTGAAATAGTTGAAAAA
AATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATAGATTTTTATTT
TTTAAAATCTAAACTCTCT
Found at i:39525568 original size:3 final size:3
Alignment explanation
Indices: 39525551--39525671 Score: 69
Period size: 3 Copynumber: 40.3 Consensus size: 3
39525541 TATATTTCTA
*
39525551 TAT TATT TAT T-T TAT TAT T-C TAT CTAT TAT TA- TAT TAT CTAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
* * *
39525596 TAT CTAT TAT TA- TAT TAT TCT TA- TAA TAT TCT TA- TAT ATAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
39525640 TAT T-T CTATT TAGT TAT TAT T-T AAT TAT TAT T
1 TAT TAT -TA-T TA-T TAT TAT TAT TAT TAT TAT T
39525672 TATATTTAGT
Statistics
Matches: 93, Mismatches: 10, Indels: 30
0.70 0.08 0.23
Matches are distributed among these distances:
2 13 0.14
3 59 0.63
4 20 0.22
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:39525598 original size:10 final size:10
Alignment explanation
Indices: 39525562--39525608 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
39525552 ATTATTTATT
39525562 TTATTATTCTA
1 TTATTA-TCTA
39525573 TCTATTAT-TA
1 T-TATTATCTA
39525583 -TATTATCTA
1 TTATTATCTA
39525592 TTATTATCTA
1 TTATTATCTA
39525602 TTATTAT
1 TTATTAT
39525609 ATTATTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
10 18 0.55
11 2 0.06
12 5 0.15
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTATCTA
Found at i:39525677 original size:17 final size:16
Alignment explanation
Indices: 39525541--39525720 Score: 67
Period size: 17 Copynumber: 11.0 Consensus size: 16
39525531 TTTATAAGTC
*
39525541 TATATTTCTATATTATT
1 TATATTTAT-TATTATT
*
39525558 TAT-TTTATTATTCTATC
1 TATATTTATTA-T-TATT
39525575 TATTATTATATTATCTA-T
1 TA-TATT-TATTAT-TATT
*
39525593 TATTATCTATTATTATAT
1 TA-TATTTATTATTAT-T
*
39525611 TAT-TCTTATAATATT-CT
1 TATAT-TTAT--TATTATT
*
39525628 TATATATATTATTATT
1 TATATTTATTATTATT
*
39525644 TCTATTTAGTTATTA-T
1 TATATTTA-TTATTATT
39525660 T-TA---ATTATTATT
1 TATATTTATTATTATT
*
39525672 TATATTTAGTA-TATT
1 TATATTTATTATTATT
* *
39525687 TAGAATTTTTTATTATT
1 TA-TATTTATTATTATT
39525704 TA-ATTTAAGTTATTATT
1 TATATTT-A-TTATTATT
39525721 ATTTAATTTA
Statistics
Matches: 126, Mismatches: 15, Indels: 44
0.68 0.08 0.24
Matches are distributed among these distances:
11 6 0.05
12 3 0.02
13 2 0.02
15 18 0.14
16 26 0.21
17 45 0.36
18 11 0.09
19 10 0.08
20 5 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TATATTTATTATTATT
Found at i:39525678 original size:28 final size:27
Alignment explanation
Indices: 39525634--39525735 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 27
39525624 TTCTTATATA
*
39525634 TATTATTATTTCTATTTAGTTATTATT
1 TATTATTATTTATATTTAGTTATTATT
39525661 TAATTATTATTTATATTTAG-TA-TATT
1 T-ATTATTATTTATATTTAGTTATTATT
** * * * *
39525687 TAGAATTTTTTATTATTTAATT-TAAGT
1 TATTATTATTTA-TATTTAGTTATTATT
39525714 TATTATTATTTA-ATTTAAGTTA
1 TATTATTATTTATATTT-AGTTA
39525736 AAGTTAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
25 12 0.21
26 14 0.24
27 15 0.26
28 17 0.29
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTATTATTTATATTTAGTTATTATT
Found at i:39525721 original size:20 final size:20
Alignment explanation
Indices: 39525696--39525735 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39525686 TTAGAATTTT
39525696 TTATTATTTAATTTAAGTTA
1 TTATTATTTAATTTAAGTTA
39525716 TTATTATTTAATTTAAGTTA
1 TTATTATTTAATTTAAGTTA
39525736 AAGTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATTATTTAATTTAAGTTA
Found at i:39525792 original size:20 final size:21
Alignment explanation
Indices: 39525763--39525814 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
39525753 TAATAATTTA
*
39525763 ATTTAATTATTTA-GAATTTC-
1 ATTTTATTATTTATG-ATTTCG
*
39525783 ATTTTTTTA-TTATGATTTCG
1 ATTTTATTATTTATGATTTCG
39525803 ATTTTATTATTT
1 ATTTTATTATTT
39525815 TCTTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (21 bp):
ATTTTATTATTTATGATTTCG
Found at i:39533922 original size:19 final size:20
Alignment explanation
Indices: 39533898--39533945 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
39533888 GATCAGTTGG
39533898 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
39533917 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
39533940 ACCTTT
1 ACCTTT
39533946 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 16 0.64
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:39533930 original size:23 final size:23
Alignment explanation
Indices: 39533904--39533948 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
39533894 TTGGACCTTT
39533904 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
39533927 GATTAATTAACATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
39533949 TGACTGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:39541541 original size:19 final size:20
Alignment explanation
Indices: 39541517--39541564 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
39541507 GATCAGTTGG
39541517 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
39541536 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
39541559 ACCTTT
1 ACCTTT
39541565 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 16 0.64
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:39541549 original size:23 final size:23
Alignment explanation
Indices: 39541523--39541567 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
39541513 TTGGACCTTT
39541523 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
39541546 GATTAATTAACATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
39541568 TGACTGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:39549069 original size:8 final size:8
Alignment explanation
Indices: 39549058--39549234 Score: 54
Period size: 8 Copynumber: 21.9 Consensus size: 8
39549048 TTAATAATAT
39549058 TTATATTA
1 TTATATTA
39549066 TTATA-T-
1 TTATATTA
39549072 TTATATTA
1 TTATATTA
*
39549080 ATATATTTCGA
1 TTATA-TT--A
*
39549091 TT-TATAAA
1 TTATAT-TA
39549099 TCTATATT-
1 T-TATATTA
39549107 TCTATATTA
1 T-TATATTA
39549116 TT-TATT-
1 TTATATTA
*
39549122 TTATTATTC
1 TTA-TATTA
*
39549131 TATCTATTA
1 T-TATATTA
*
39549140 TTGTATTA
1 TTATATTA
39549148 TCTATTATTA
1 T-TA-TATTA
*
39549158 -TCTATTA
1 TTATATTA
39549165 TTATATTA
1 TTATATTA
*
39549173 -T-TCTTA
1 TTATATTA
*
39549179 TAATATTA
1 TTATATTA
39549187 TTATATATA
1 TTATAT-TA
*
39549196 TTATTTCTA
1 TTATAT-TA
39549205 TT-TAGTTA
1 TTATA-TTA
39549213 TTAT-TTA
1 TTATATTA
*
39549220 GT-TATTA
1 TTATATTA
39549227 TTTATATT
1 -TTATATT
39549235 TAGTCTATTT
Statistics
Matches: 126, Mismatches: 19, Indels: 47
0.66 0.10 0.24
Matches are distributed among these distances:
6 12 0.10
7 19 0.15
8 53 0.42
9 29 0.23
10 11 0.09
11 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:39549071 original size:14 final size:14
Alignment explanation
Indices: 39549047--39549087 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
39549037 ATATTAAGTA
39549047 ATTAATAATATTTAT
1 ATTAAT-ATATTTAT
*
39549062 ATTATTATATTTAT
1 ATTAATATATTTAT
39549076 ATTAATATATTT
1 ATTAATATATTT
39549088 CGATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATATATTTAT
Found at i:39549128 original size:3 final size:3
Alignment explanation
Indices: 39549111--39549228 Score: 61
Period size: 3 Copynumber: 38.3 Consensus size: 3
39549101 TATATTTCTA
* *
39549111 TAT TATT TAT T-T TAT TAT T-C TAT CTAT TAT T-G TAT TAT CTAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
* *
39549156 TAT CTAT TAT TA- TAT TAT TCT TA- TAA TAT TAT TA- TAT ATAT TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
39549200 T-T CTATT TAGT TAT TATT TAGT TAT TAT T
1 TAT -TA-T TA-T TAT TA-T TA-T TAT TAT T
39549229 TATATTTAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
2 11 0.12
3 53 0.58
4 26 0.29
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:39549129 original size:15 final size:15
Alignment explanation
Indices: 39549111--39549228 Score: 51
Period size: 17 Copynumber: 7.3 Consensus size: 15
39549101 TATATTTCTA
39549111 TATTATTTATTTTAT
1 TATTATTTATTTTAT
* *
39549126 TATTCTATCTATTATT-G
1 TA-T-TATTTATT-TTAT
*
39549143 TATTATCTATTATTAT
1 TATTATTTATT-TTAT
*
39549159 CTATTATTATATTATTCT
1 -TATTATT-TATT-TTAT
* *
39549177 TATAATATTATTATAT
1 TATTAT-TTATTTTAT
*
39549193 ATATTATTTCTATTTAGT
1 -TATTATTTAT-TTTA-T
*
39549211 TATTATTTA-GTTAT
1 TATTATTTATTTTAT
39549225 TATT
1 TATT
39549229 TATATTTAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
14 5 0.06
15 16 0.20
16 7 0.09
17 40 0.50
18 12 0.15
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:39549140 original size:20 final size:19
Alignment explanation
Indices: 39549111--39549206 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 19
39549101 TATATTTCTA
39549111 TATTATTTATTTTATTATTC
1 TATTA-TTATTTTATTATTC
*
39549131 TATCTATTATTGTATTA-TC
1 TAT-TATTATTTTATTATTC
39549150 TATTATTATCTATTATTATAT-
1 TATTATTAT-T-TTATTAT-TC
* ** *
39549171 TATTCTTATAATATTATTA
1 TATTATTATTTTATTATTC
39549190 TATATATTATTTCTATT
1 TAT-TATTATTT-TATT
39549207 TAGTTATTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
18 7 0.12
19 15 0.25
20 23 0.38
21 14 0.23
22 1 0.02
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (19 bp):
TATTATTATTTTATTATTC
Found at i:39549159 original size:25 final size:25
Alignment explanation
Indices: 39549111--39549228 Score: 88
Period size: 25 Copynumber: 4.7 Consensus size: 25
39549101 TATATTTCTA
39549111 TATTATTTATT-TTATTATTCTATC
1 TATTATTTATTATTATTATTCTATC
39549135 TATTATTGTATTATCTATTA-T-TATC
1 TATTATT-TATTAT-TATTATTCTATC
* **
39549160 TATTATTATATTATTCTTATAATAT-
1 TATTATT-TATTATTATTATTCTATC
39549185 TATTATATATATTATT-TCTATT-TAGT-
1 TATTAT-T-TATTATTAT-TATTCTA-TC
39549211 TATTATTTAGTTATTATT
1 TATTATTTA-TTATTATT
39549229 TATATTTAGT
Statistics
Matches: 80, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
24 13 0.16
25 37 0.46
26 25 0.31
27 5 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (25 bp):
TATTATTTATTATTATTATTCTATC
Done.