Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 111 of 185
Found at i:34768895 original size:20 final size:20
Alignment explanation
Indices: 34768870--34768915 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
34768860 TGTTAATATT
*
34768870 TTGTTATTTATTCAAAGAGG
1 TTGTTACTTATTCAAAGAGG
* *
34768890 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAAGAGG
34768910 TTGTTA
1 TTGTTA
34768916 AGCTTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.50
Consensus pattern (20 bp):
TTGTTACTTATTCAAAGAGG
Found at i:34773463 original size:20 final size:21
Alignment explanation
Indices: 34773440--34773485 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
34773430 TGTTAATATT
34773440 TTGTTAT-TTATTCAAATAGG
1 TTGTTATCTTATTCAAATAGG
*
34773460 TTGTT-TCTTATTTAAATAGG
1 TTGTTATCTTATTCAAATAGG
34773480 TTGTTA
1 TTGTTA
34773486 AGCTTTACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (21 bp):
TTGTTATCTTATTCAAATAGG
Found at i:34773887 original size:27 final size:27
Alignment explanation
Indices: 34773845--34773987 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
34773835 TACGATTCGT
*
34773845 GGTAAAATTATTGAAATACCCTCGAAG
1 GGTAAAATTATCGAAATACCCTCGAAG
* *
34773872 GGTAAAATTATCGAAATACCCCCGAAA
1 GGTAAAATTATCGAAATACCCTCGAAG
* *
34773899 GATAAAATTATCAAAATACCCTCGAAG
1 GGTAAAATTATCGAAATACCCTCGAAG
** * *
34773926 AATAAAATTACCAAAATACCCTCGAAG
1 GGTAAAATTATCGAAATACCCTCGAAG
* *
34773953 GGTAAAATTACCGAAATACCCTTGAAG
1 GGTAAAATTATCGAAATACCCTCGAAG
34773980 GGTAAAAT
1 GGTAAAAT
34773988 GATTGTTATA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
GGTAAAATTATCGAAATACCCTCGAAG
Found at i:34774909 original size:20 final size:20
Alignment explanation
Indices: 34774884--34774926 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
34774874 TTCCAAACTT
34774884 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
34774904 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
34774924 AAG
1 AAG
34774927 TCTGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AAGAAACGAGTTTTATCAAC
Found at i:34776191 original size:24 final size:24
Alignment explanation
Indices: 34776157--34776211 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
34776147 AGTCGTTTTC
*
34776157 TTTTTTAGTCACCCAAATATGGAT
1 TTTTTTAGTCACCCAAATATGAAT
* * *
34776181 TTTTTTTGTCACTCAACTATGAAT
1 TTTTTTAGTCACCCAAATATGAAT
34776205 TTTTTTA
1 TTTTTTA
34776212 AAATTTGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTTTTAGTCACCCAAATATGAAT
Found at i:34780581 original size:20 final size:21
Alignment explanation
Indices: 34780538--34780582 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
34780528 AGTTGAGTTG
*
34780538 ATTTTTATATTTCATATATCT
1 ATTTTTATATTTAATATATCT
* *
34780559 ATTTTTATTTTTAATA-ATTT
1 ATTTTTATATTTAATATATCT
34780579 ATTT
1 ATTT
34780583 GCTTTGAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTATATTTAATATATCT
Found at i:34782106 original size:16 final size:16
Alignment explanation
Indices: 34782076--34782114 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34782066 ATTCAGATGA
*
34782076 AATGCTCATATCAAAAT
1 AATG-TCATAGCAAAAT
34782093 AATGTCATAGCAAAAT
1 AATGTCATAGCAAAAT
*
34782109 ATTGTC
1 AATGTC
34782115 TAATCAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (16 bp):
AATGTCATAGCAAAAT
Found at i:34784972 original size:16 final size:17
Alignment explanation
Indices: 34784936--34784972 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
34784926 TAGTTTGCAT
34784936 ATTTA-GGATAATTGGC
1 ATTTAGGGATAATTGGC
34784952 A-TTAGGGATAATT-GC
1 ATTTAGGGATAATTGGC
34784967 ATTTAG
1 ATTTAG
34784973 TTTAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (17 bp):
ATTTAGGGATAATTGGC
Found at i:34789624 original size:23 final size:23
Alignment explanation
Indices: 34789598--34789718 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
34789588 ATAAGTGCCA
34789598 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34789621 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34789644 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34789666 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34789689 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34789712 CACTGAT
1 CACTGAT
34789719 CAATAACACT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 20 0.22
23 72 0.78
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34789663 original size:45 final size:46
Alignment explanation
Indices: 34789598--34789718 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 46
34789588 ATAAGTGCCA
*
34789598 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
* * *
34789644 CACTG-GATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
34789689 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
34789719 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 42 0.62
46 26 0.38
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
Found at i:34798374 original size:20 final size:20
Alignment explanation
Indices: 34798345--34798401 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
34798335 TAACGATTTT
*
34798345 CATTAGAAATATTGATATCG
1 CATTAGAAATTTTGATATCG
* **
34798365 CATTAAAAATTTTGGGATCG
1 CATTAGAAATTTTGATATCG
34798385 -ATTAGAAATTTTGATAT
1 CATTAGAAATTTTGATAT
34798402 GCCAAAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTAGAAATTTTGATATCG
Found at i:34798930 original size:9 final size:9
Alignment explanation
Indices: 34798916--34798981 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
34798906 ATTTTTTCTA
34798916 TAAAAATAT
1 TAAAAATAT
34798925 TAAAAAT-T
1 TAAAAATAT
*
34798933 AGAAAAATAT
1 -TAAAAATAT
34798943 TAAAAAAATAT
1 T--AAAAATAT
34798954 TAAAAA-A-
1 TAAAAATAT
34798961 T-AAAATAT
1 TAAAAATAT
*
34798969 TTAAAATAT
1 TAAAAATAT
34798978 TAAA
1 TAAA
34798982 TTTGATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 3 0.06
9 28 0.60
10 1 0.02
11 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
TAAAAATAT
Found at i:34798949 original size:11 final size:11
Alignment explanation
Indices: 34798926--34798960 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
34798916 TAAAAATATT
*
34798926 AAAA-ATTAGA
1 AAAATATTAAA
34798936 AAAATATTAAA
1 AAAATATTAAA
34798947 AAAATATTAAA
1 AAAATATTAAA
34798958 AAA
1 AAA
34798961 TAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:34799009 original size:19 final size:17
Alignment explanation
Indices: 34798987--34799057 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 17
34798977 TTAAATTTGA
34798987 TATAAACTTATAAAAATAT
1 TATAAA-TTATAAAAAT-T
34799006 TATAAA-TATAATAAATCT
1 TATAAATTATAA-AAAT-T
*
34799024 AATAAATTATAAAAATT
1 TATAAATTATAAAAATT
34799041 TATAAAATTAATAAAAA
1 TAT-AAATT-ATAAAAA
34799058 CATATTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
17 8 0.18
18 19 0.42
19 18 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAATTATAAAAATT
Found at i:34799013 original size:37 final size:34
Alignment explanation
Indices: 34798962--34799051 Score: 96
Period size: 37 Copynumber: 2.6 Consensus size: 34
34798952 ATTAAAAAAT
*
34798962 AAAATATT-TAAAATATTAAATTTGATATAAACTTATA
1 AAAATATTAT-AAATATTAAATCT-A-ATAAA-TTATA
34798999 AAAATATTATAAATATAATAAATCTAATAAATTATA
1 AAAATATTATAAATAT--TAAATCTAATAAATTATA
34799035 AAAAT-TTATAAA-ATTAA
1 AAAATATTATAAATATTAA
34799052 TAAAAACATA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
32 3 0.06
34 2 0.04
35 7 0.14
36 10 0.20
37 19 0.39
38 2 0.04
39 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (34 bp):
AAAATATTATAAATATTAAATCTAATAAATTATA
Found at i:34799144 original size:19 final size:20
Alignment explanation
Indices: 34799122--34799174 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
34799112 TAAAAATTCA
*
34799122 TAAAAATT-TTAAAAAATAT
1 TAAAAATTGATAAAAAATAT
*
34799141 T-AAAATTGATATAAAATAT
1 TAAAAATTGATAAAAAATAT
*
34799160 TAAAAAAT-ATAAAAA
1 TAAAAATTGATAAAAA
34799175 GAATCATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAATTGATAAAAAATAT
Found at i:34799144 original size:29 final size:29
Alignment explanation
Indices: 34799112--34799189 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
34799102 TAACAACTTA
34799112 TAAAAATTCATAAAAATTTTAAAAAATAT
1 TAAAAATTCATAAAAATTTTAAAAAATAT
* *
34799141 T-AAAATTGATATAAAATATTAAAAAATAT
1 TAAAAATTCATA-AAAATTTTAAAAAATAT
* *
34799170 AAAAAGAATCATAAAAATTT
1 TAAAA-ATTCATAAAAATTT
34799190 GAACTGGACC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 9 0.22
29 17 0.43
30 9 0.22
31 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATTCATAAAAATTTTAAAAAATAT
Found at i:34799817 original size:27 final size:29
Alignment explanation
Indices: 34799774--34799832 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
34799764 TAATTTTTTA
34799774 ATATTTTAATAATTTA-TTA-GAATATTT
1 ATATTTTAATAATTTATTTATGAATATTT
* *
34799801 ATATTATTTATAA-TTATTTATGAATTTTT
1 ATATT-TTAATAATTTATTTATGAATATTT
34799830 ATA
1 ATA
34799833 AGTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 9 0.33
29 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
ATATTTTAATAATTTATTTATGAATATTT
Found at i:34799849 original size:10 final size:9
Alignment explanation
Indices: 34799762--34800139 Score: 103
Period size: 10 Copynumber: 39.6 Consensus size: 9
34799752 ACTATTTCTA
34799762 TATAATTTT
1 TATAATTTT
34799771 T-TAATATTT
1 TATAAT-TTT
34799780 TAATAATTTAT
1 T-ATAATTT-T
* *
34799791 TAGAATATT
1 TATAATTTT
34799800 TAT-ATTATT
1 TATAATT-TT
34799809 TATAATTATT
1 TATAATT-TT
34799819 TATGAATTTT
1 TAT-AATTTT
34799829 TATAAGTTTT
1 TATAA-TTTT
34799839 TATAATATTT
1 TATAAT-TTT
34799849 TA-AATATATCT
1 TATAAT-T-T-T
*
34799860 TATTAA-TTA
1 TA-TAATTTT
34799869 TAT-ATTTT
1 TATAATTTT
34799877 TAATAATTTAT
1 T-ATAATTT-T
*
34799888 TAAAATTTAT
1 TATAATTT-T
* *
34799898 TAGATTTTT
1 TATAATTTT
*
34799907 TATAATCTT
1 TATAATTTT
*
34799916 TACAAGTTTT
1 TATAA-TTTT
*
34799926 TATGATTTT
1 TATAATTTT
34799935 T-TAATATTT
1 TATAAT-TTT
* *
34799944 AATAATTTA
1 TATAATTTT
*
34799953 TATTATTTAT
1 TATAATTT-T
* *
34799963 AATATTTTT
1 TATAATTTT
*
34799972 TTTATATTTT
1 TATA-ATTTT
* **
34799982 TCTGGTTTT
1 TATAATTTT
*
34799991 TATAGGTTTT
1 TATA-ATTTT
* *
34800001 AAAGAATTTT
1 -TATAATTTT
*
34800011 TATATGTTTT
1 TATA-ATTTT
*
34800021 TAATAAAATTT
1 T-AT-AATTTT
34800032 TA-AATATTT
1 TATAAT-TTT
*
34800041 TAAACATGTTT
1 TATA-AT-TTT
*
34800052 TATTACTTTT
1 TA-TAATTTT
*
34800062 GTAAAATTTT
1 -TATAATTTT
34800072 TATAATTTAT
1 TATAATTT-T
*
34800082 TAT-A-GTT
1 TATAATTTT
*
34800089 TAT-ATATT
1 TATAATTTT
*
34800097 T-TAATATT
1 TATAATTTT
34800105 TATAAGTTTT
1 TATAA-TTTT
*
34800115 TATTACTTTT
1 TA-TAATTTT
*
34800125 TTTAATTTTT
1 TATAA-TTTT
34800135 TATAA
1 TATAA
34800140 GTTTATATTG
Statistics
Matches: 275, Mismatches: 55, Indels: 77
0.68 0.14 0.19
Matches are distributed among these distances:
7 7 0.03
8 25 0.09
9 81 0.29
10 122 0.44
11 36 0.13
12 2 0.01
13 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TATAATTTT
Found at i:34799878 original size:28 final size:25
Alignment explanation
Indices: 34799838--34799890 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 25
34799828 TTATAAGTTT
34799838 TTATAATATTTTAAATATATCTTATTAA
1 TTATAATATTTT-AATA-AT-TTATTAA
34799866 TTAT-ATATTTTTAATAATTTATTAA
1 TTATAATA-TTTTAATAATTTATTAA
34799891 AATTTATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 7 0.29
28 8 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATAATATTTTAATAATTTATTAA
Found at i:34799887 original size:25 final size:28
Alignment explanation
Indices: 34799838--34799890 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
34799828 TTATAAGTTT
34799838 TTATAATATTTTAAATATATCTTATTAA
1 TTATAATATTTTAAATATATCTTATTAA
*
34799866 TTAT-ATATTTTTAATA-AT-TTATTAA
1 TTATAATATTTTAAATATATCTTATTAA
34799891 AATTTATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 11 0.46
28 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATAATATTTTAAATATATCTTATTAA
Found at i:34799897 original size:28 final size:27
Alignment explanation
Indices: 34799837--34799966 Score: 72
Period size: 29 Copynumber: 4.6 Consensus size: 27
34799827 TTTATAAGTT
*
34799837 TTTATAATATTTTAAATATATCTTATTAA
1 TTTAT-ATATTTTTAATA-ATCTTATTAA
34799866 -TTATATATTTTTAATAAT-TTATTAAAA
1 TTTATATATTTTTAATAATCTTATT--AA
* * *
34799893 TTTATTAGATTTTTTATAATCTT-TACAA
1 TTTA-TATATTTTTAATAATCTTAT-TAA
* *
34799921 GTTTTTATGATTTTTTAAT-AT-TTAATAA
1 -TTTATAT-A-TTTTTAATAATCTTATTAA
*
34799949 TTTATATTATTTATAATA
1 TTTATA-TATTTTTAATA
34799967 TTTTTTTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 26
0.68 0.10 0.23
Matches are distributed among these distances:
25 5 0.06
26 9 0.12
27 19 0.24
28 16 0.21
29 20 0.26
30 9 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATATATTTTTAATAATCTTATTAA
Found at i:34799911 original size:29 final size:29
Alignment explanation
Indices: 34799872--34799937 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
34799862 TTAATTATAT
* *
34799872 ATTTTTAATAATTTATTA-AAATTTATTA-G
1 ATTTTTTATAATCT-TTACAAATTT-TTATG
*
34799901 ATTTTTTATAATCTTTACAAGTTTTTATG
1 ATTTTTTATAATCTTTACAAATTTTTATG
34799930 ATTTTTTA
1 ATTTTTTA
34799938 ATATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (29 bp):
ATTTTTTATAATCTTTACAAATTTTTATG
Found at i:34803982 original size:25 final size:25
Alignment explanation
Indices: 34803948--34803999 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34803938 ATAAGAGATG
34803948 AAGTAACTGTGATTGTTGGTTTTGT
1 AAGTAACTGTGATTGTTGGTTTTGT
34803973 AAGTAACTGTGATTGTTGGTTTTGT
1 AAGTAACTGTGATTGTTGGTTTTGT
34803998 AA
1 AA
34804000 TAGTGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (25 bp):
AAGTAACTGTGATTGTTGGTTTTGT
Found at i:34806342 original size:29 final size:27
Alignment explanation
Indices: 34806302--34806355 Score: 90
Period size: 29 Copynumber: 1.9 Consensus size: 27
34806292 AGCCCTTTTT
34806302 TTTTTTAAATTTACCGAAATGGGCCGG
1 TTTTTTAAATTTACCGAAATGGGCCGG
34806329 TTTTTTAATTATTTACCGAAATGGGCC
1 TTTTTTAA--ATTTACCGAAATGGGCC
34806356 ATTTTCCCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 8 0.32
29 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATGGGCCGG
Found at i:34806593 original size:22 final size:22
Alignment explanation
Indices: 34806568--34806634 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
34806558 AAACAAATCC
*
34806568 TATCTCAATTTCATTCAAAAAT
1 TATCTCAATTTCCTTCAAAAAT
* *
34806590 TATCTCAAATTCCTTCAAGAAT
1 TATCTCAATTTCCTTCAAAAAT
* *
34806612 TCTCTCAATTTCCTTCCAAAAT
1 TATCTCAATTTCCTTCAAAAAT
34806634 T
1 T
34806635 CTCTTAAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.01, T:0.40
Consensus pattern (22 bp):
TATCTCAATTTCCTTCAAAAAT
Found at i:34806669 original size:22 final size:22
Alignment explanation
Indices: 34806643--34806693 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
34806633 TTCTCTTAAA
*
34806643 CTCTCAAATTCCTTC-CAAAAT
1 CTCTCAAATTCCTTCAAAAAAT
*
34806664 CTTCTCAATTTCCTTCAAAAAAT
1 C-TCTCAAATTCCTTCAAAAAAT
34806687 CTCTCAA
1 CTCTCAA
34806694 CTCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.73
23 6 0.23
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAAAT
Found at i:34806670 original size:52 final size:52
Alignment explanation
Indices: 34806592--34806690 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
34806582 TCAAAAATTA
* *
34806592 TCTCAAATTCCTTCAAGAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAAATTCCTTCAAGAATTCTCTCAATTTCCTTCAAAAAATCTCTTAAAC
34806644 TCTCAAATTCCTTCCAA-AA-TCTTCTCAATTTCCTTCAAAAAATCTCT
1 TCTCAAATTCCTT-CAAGAATTC-TCTCAATTTCCTTCAAAAAATCTCT
34806691 CAACTCCATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 2 0.05
52 38 0.88
53 3 0.07
ACGTcount: A:0.31, C:0.29, G:0.01, T:0.38
Consensus pattern (52 bp):
TCTCAAATTCCTTCAAGAATTCTCTCAATTTCCTTCAAAAAATCTCTTAAAC
Found at i:34806762 original size:28 final size:28
Alignment explanation
Indices: 34806729--34806784 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
34806719 TCAATTTCAT
*
34806729 TTTTTTAAGAA-AATTTGAAATATTTTTA
1 TTTTTTAAAAATAATTTGAAA-ATTTTTA
*
34806757 TTTTTTAAAAATAATTTTAAAATTTTTA
1 TTTTTTAAAAATAATTTGAAAATTTTTA
34806785 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
TTTTTTAAAAATAATTTGAAAATTTTTA
Found at i:34806791 original size:29 final size:28
Alignment explanation
Indices: 34806731--34806791 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
34806721 AATTTCATTT
* *
34806731 TTTTAAGAAAATTTGAAATATTTTTATT
1 TTTTAAAAAAATTTGAAATATTTTTATA
*
34806759 TTTTAAAAATAATTTTAAA-ATTTTTAATA
1 TTTTAAAAA-AATTTGAAATATTTTT-ATA
34806788 TTTT
1 TTTT
34806792 CAACAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTTAAAAAAATTTGAAATATTTTTATA
Found at i:34806911 original size:14 final size:15
Alignment explanation
Indices: 34806882--34806915 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34806872 AAATTTTAAA
34806882 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
34806897 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
34806911 TTTTA
1 TTTTA
34806916 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:34809090 original size:23 final size:23
Alignment explanation
Indices: 34809060--34809177 Score: 155
Period size: 23 Copynumber: 4.8 Consensus size: 23
34809050 ATATTATTTG
*
34809060 ATTTAATTAAAAACCCTAGCCTA
1 ATTTAATTAAAAACCCTAACCTA
34809083 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
34809106 ATTTAATTAAAAACCCTAAACTTTAACCTA
1 ATTTAATTAAAAA-CC----C--TAACCTA
*
34809136 ATTTAATTAAAAATCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
34809159 ATTTAATTAAAAACCCTAA
1 ATTTAATTAAAAACCCTAA
34809178 ACCCTAACCT
Statistics
Matches: 85, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
23 60 0.71
24 2 0.02
25 1 0.01
28 1 0.01
29 1 0.01
30 20 0.24
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (23 bp):
ATTTAATTAAAAACCCTAACCTA
Found at i:34809133 original size:30 final size:30
Alignment explanation
Indices: 34809093--34809450 Score: 404
Period size: 30 Copynumber: 12.1 Consensus size: 30
34809083 ATTTAATTAA
34809093 AAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
**
34809123 AAACTTTAACCTAATTTAATTAAAAA---T
1 AAACCCTAACCTAATTTAATTAAAAACCCT
34809150 ----CCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
34809176 AAACCCTAACCTAATTTAATTAAAAA-CCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
* *
34809205 TAACCCTAACCTAATCTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
* *
34809235 -AACCCTAACCTAATTT-ATATAAAAGCCTT
1 AAACCCTAACCTAATTTAAT-TAAAAACCCT
34809264 AAACCCTAACCTAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAA--T--TT-AATTAAAAACCCT
*
34809299 AAACCCTAACATAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAA--T--TT-AATTAAAAACCCT
34809334 -AACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
** *
34809363 -AA-CCTAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
34809391 AAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
**
34809421 -AA-CCTAATTTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAACCCT
34809449 AA
1 AA
34809451 CCTAATTTGA
Statistics
Matches: 288, Mismatches: 21, Indels: 39
0.83 0.06 0.11
Matches are distributed among these distances:
23 20 0.07
26 1 0.00
27 1 0.00
28 49 0.17
29 70 0.24
30 87 0.30
32 2 0.01
34 14 0.05
35 42 0.15
36 2 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (30 bp):
AAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:34809159 original size:53 final size:53
Alignment explanation
Indices: 34809070--34809458 Score: 293
Period size: 53 Copynumber: 6.8 Consensus size: 53
34809060 ATTTAATTAA
* *
34809070 AAACCCTAGCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
**
34809123 AAACTTTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
*
34809176 AAACCCTAACCTAATTTAATTAAAAACCTTAACCCTAACCTAATCTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAA---T---CCTAACCTAATTTAATTAAAAACCCT
* *
34809235 -AACCCTAACCTAATTTATATAAAAGCCTTAAACCCTAACCTAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAATTTA-AT-TAA-----AAATCCTAACCTAA--T--TT-AATTAAAAACCCT
*
34809299 AAACCCTAACATAATTTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAA--T--TT-AATTAAAAA---T---CCTAACCTAATTTAATTAAAAACCCT
** *
34809363 -AA-CCTAATTTAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCTAATTTAATTAAAAA---T----CCTAACCTAATTTAATTAAAAACCCT
** *
34809421 -AA-CCTAATTTAATTTAATTAAAAACCCTAACCTAATTT
1 AAACCCTAACCTAATTTAATTAAAAATCCTAACCTAATTT
34809459 GATAATCTTA
Statistics
Matches: 287, Mismatches: 18, Indels: 64
0.78 0.05 0.17
Matches are distributed among these distances:
51 13 0.05
53 73 0.25
56 1 0.00
57 13 0.05
58 70 0.24
59 37 0.13
60 3 0.01
61 1 0.00
62 8 0.03
63 6 0.02
64 26 0.09
65 17 0.06
67 2 0.01
68 2 0.01
69 14 0.05
70 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.30
Consensus pattern (53 bp):
AAACCCTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
Found at i:34809189 original size:35 final size:30
Alignment explanation
Indices: 34809150--34809450 Score: 357
Period size: 29 Copynumber: 9.9 Consensus size: 30
34809140 AATTAAAAAT
34809150 CCTAACCTAATTTAATTAAAAACCCTAAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
*
34809180 CCTAACCTAATTTAATTAAAAA-CCTTAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
*
34809209 CCTAACCTAATCTAATTAAAAACCCT-AAC
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
* *
34809238 CCTAACCTAATTT-ATATAAAAGCCTTAAAC
1 CCTAACCTAATTTAAT-TAAAAACCCTAAAC
34809268 CCTAACCTAATTTAATTAAATTAAAAACCCTAAAC
1 CCTAACCTAA--T--TT-AATTAAAAACCCTAAAC
*
34809303 CCTAACATAATTTAATTAAATTAAAAACCCT-AAC
1 CCTAACCTAA--T--TT-AATTAAAAACCCTAAAC
34809337 CCTAACCTAATTTAATTAAAAACCCT-AA-
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
** *
34809365 CCTAATTTAATTAAATTAAAAACCCTAAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
34809395 CCTAACCTAATTTAATTAAAAACCCT-AA-
1 CCTAACCTAATTTAATTAAAAACCCTAAAC
**
34809423 CCTAATTTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
34809451 CCTAATTTGA
Statistics
Matches: 242, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
28 49 0.20
29 70 0.29
30 63 0.26
32 2 0.01
34 14 0.06
35 42 0.17
36 2 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (30 bp):
CCTAACCTAATTTAATTAAAAACCCTAAAC
Found at i:34809196 original size:58 final size:58
Alignment explanation
Indices: 34809081--34809456 Score: 320
Period size: 58 Copynumber: 6.5 Consensus size: 58
34809071 AACCCTAGCC
* * **
34809081 TAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTTTAACCTAA--
1 TAATTAAATTAAAAACCCTAACCTAATCTAATTAAAAACCCTAAACCCTAACCTAATT
* *
34809137 T--TT-AATTAAAAATCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAACCTAATCTAATTAAAAACCCTAAACCCTAACCTAATT
*
34809192 TAATTAAA--AACCTTAACCCTAACCTAATCTAATTAAAAACCCT-AACCCTAACCTAATT
1 TAATTAAATTAA---AAACCCTAACCTAATCTAATTAAAAACCCTAAACCCTAACCTAATT
* * *
34809250 TATATAAAAGCCTT--AAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAACCCTAACATAA
1 TA-ATTAAA---TTAAAAACCCTAACCTAA--T--CT-AATTAAAAACCCTAAACCCTAACCTAA
34809313 TT
57 TT
* *
34809315 TAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAA----AAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCTAA-CCTAATCTAA-TTAA-AAACCCTAAACCCTAACCTAATT
* *
34809372 TAATTAAATTAAAAACCCTAAACCCTAACCTAATTTAATTAA----AAACCCTAACCTAATT
1 TAATTAAATTAAAAACCCT-AA-CCTAATCTAA-TTAA-AAACCCTAAACCCTAACCTAATT
*
34809430 TAATTTAATTAAAAACCCTAACCTAAT
1 TAATTAAATTAAAAACCCTAACCTAAT
34809457 TTGATAATCT
Statistics
Matches: 277, Mismatches: 17, Indels: 52
0.80 0.05 0.15
Matches are distributed among these distances:
53 47 0.17
54 2 0.01
55 1 0.00
56 8 0.03
57 38 0.14
58 75 0.27
59 47 0.17
60 5 0.02
61 5 0.02
63 10 0.04
64 23 0.08
65 16 0.06
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.30
Consensus pattern (58 bp):
TAATTAAATTAAAAACCCTAACCTAATCTAATTAAAAACCCTAAACCCTAACCTAATT
Found at i:34809268 original size:36 final size:36
Alignment explanation
Indices: 34809228--34809414 Score: 133
Period size: 35 Copynumber: 5.7 Consensus size: 36
34809218 ATCTAATTAA
* * *
34809228 AAACCCTAACCCTAACCTAATT-TATATAAAAGCCTT
1 AAACCCTAACCCTAACCTAATTAAAT-TAAAAACCCT
**
34809264 AAACCCTAA-CCTAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTAAATTAAAAACCCT
* **
34809299 AAACCCTAA-CATAATTTAATTAAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTAAATTAAAAACCCT
34809334 -AACCCTAA-CCTAA--T--TT-AATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTAAATTAAAAACCCT
*
34809363 -AA-CCTAA---T---TTAATTAAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTAAATTAAAAACCCT
**
34809391 AAACCCTAA-CCTAATTTAATTAAA
1 AAACCCTAACCCTAACCTAATTAAA
34809415 AACCCTAACC
Statistics
Matches: 132, Mismatches: 7, Indels: 25
0.80 0.04 0.15
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 2 0.02
28 18 0.14
29 17 0.13
30 7 0.05
32 2 0.02
34 12 0.09
35 61 0.46
36 11 0.08
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.29
Consensus pattern (36 bp):
AAACCCTAACCCTAACCTAATTAAATTAAAAACCCT
Found at i:34809380 original size:92 final size:86
Alignment explanation
Indices: 34809074--34809458 Score: 423
Period size: 92 Copynumber: 4.4 Consensus size: 86
34809064 AATTAAAAAC
* ** *
34809074 CCTAGCCTAATTTAATTAAAAACCCTAACCTAA--T--TT-AATTAAAAACCCTAAACTTTAACC
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAACCCTAACA
34809134 TAATTTAATTAAAAA---T--
66 TAATTTAATTAAAAACCCTAA
** * *
34809150 CCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAA-CCTTAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCT-AA-CCTAATTTAATTAAATTAAAAACCCTAAACCCTAA
* *
34809214 CCTAATCTAATTAAAAACCCTAA
64 CATAATTTAATTAAAAACCCTAA
*
34809237 CCCTAACCTAATTTATATAAAAGCCTTAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAA
1 -CCTAACCTAATTTA-AT-TAA-----AAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAA
34809302 CCCTAACATAATTTAATTAAATTAAAAACCCTAA
58 CCCTAACATAA--T--TT-AATTAAAAACCCTAA
34809336 CCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAACCCTAAC
1 -CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAACCCTAAC
*
34809401 CTAATTTAATTAAAAACCCTAA
65 ATAATTTAATTAAAAACCCTAA
**
34809423 CCTAATTTAATTTAATTAAAAACCCTAACCTAATTT
1 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTT
34809459 GATAATCTTA
Statistics
Matches: 267, Mismatches: 16, Indels: 42
0.82 0.05 0.13
Matches are distributed among these distances:
76 25 0.09
77 2 0.01
78 5 0.02
80 1 0.00
82 27 0.10
83 9 0.03
85 1 0.00
86 34 0.13
87 15 0.06
88 16 0.06
89 2 0.01
90 3 0.01
92 48 0.18
93 19 0.07
94 17 0.06
95 7 0.03
96 1 0.00
97 2 0.01
98 3 0.01
99 30 0.11
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (86 bp):
CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAAACCCTAACA
TAATTTAATTAAAAACCCTAA
Found at i:34809455 original size:28 final size:28
Alignment explanation
Indices: 34809299--34809458 Score: 230
Period size: 28 Copynumber: 5.6 Consensus size: 28
34809289 TAAAAACCCT
* *
34809299 AAACCCTAACATAATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTTAATTAA
**
34809327 AAACCCTAACCCTAACCTAATTTAATTAA
1 AAACCCTAA-CCTAATTTAATTTAATTAA
*
34809356 AAACCCTAACCTAATTTAATTAAATTAA
1 AAACCCTAACCTAATTTAATTTAATTAA
**
34809384 AAACCCTAAACCCTAACCTAATTTAATTAA
1 AAACCCT-AA-CCTAATTTAATTTAATTAA
34809414 AAACCCTAACCTAATTTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTTAATTAA
34809442 AAACCCTAACCTAATTT
1 AAACCCTAACCTAATTT
34809459 GATAATCTTA
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
28 66 0.56
29 28 0.24
30 23 0.20
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (28 bp):
AAACCCTAACCTAATTTAATTTAATTAA
Found at i:34812865 original size:126 final size:125
Alignment explanation
Indices: 34812656--34812937 Score: 399
Period size: 126 Copynumber: 2.2 Consensus size: 125
34812646 CAAGAGGGCA
* * * *
34812656 CGATTTGACACTATTTGCTCAGAAATGTCAAAAAATAATTATTTCCTACATGACTAACTGTAGCG
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
34812721 AAATTGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCAG
66 AAATGGCGTCCACAAGGGCACAATTTCACAATTTCTTCTC-TGATAGCATCCTGGCAGAAG
*
34812781 CGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCTTACATGACCAACTGT-GT
1 CGATTTTATACTATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG-
*
34812845 CGAAATGGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGCAGAAG
64 CGAAATGGCGTCCACAAGGGCACAATTTCACAATTTCTTCTCTGATAGCATCCTGGCAGAAG
34812907 CGATTTTATACTATTTGAC-CAGAAACGTCAA
1 CGATTTTATACTATTTG-CTCAGAAACGTCAA
34812938 CTCGAAATAA
Statistics
Matches: 141, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
125 31 0.22
126 109 0.77
127 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (125 bp):
CGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGCG
AAATGGCGTCCACAAGGGCACAATTTCACAATTTCTTCTCTGATAGCATCCTGGCAGAAG
Found at i:34815112 original size:20 final size:21
Alignment explanation
Indices: 34815077--34815120 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
34815067 AAATTAATGA
*
34815077 AAACATAAATAAATAAAAAAT
1 AAACATAAAAAAATAAAAAAT
*
34815098 AAACA-AAAAAAATAAAGAAT
1 AAACATAAAAAAATAAAAAAT
34815118 AAA
1 AAA
34815121 GGTGCATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (21 bp):
AAACATAAAAAAATAAAAAAT
Found at i:34815180 original size:12 final size:11
Alignment explanation
Indices: 34815163--34815197 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
34815153 AATACACATG
34815163 AATTTATATATA
1 AATTTATATA-A
34815175 AATTTATA-AA
1 AATTTATATAA
34815185 AATTTATATAA
1 AATTTATATAA
34815196 AA
1 AA
34815198 AAATACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 5 0.23
12 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AATTTATATAA
Found at i:34815461 original size:20 final size:20
Alignment explanation
Indices: 34815426--34815467 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34815416 TTAGTTTGAA
* *
34815426 AAAAAAATACATATGTACAT
1 AAAAAAATACACATGTAAAT
*
34815446 AAAAAAATATACATGTAAAT
1 AAAAAAATACACATGTAAAT
34815466 AA
1 AA
34815468 TAATTACATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAAATACACATGTAAAT
Found at i:34817259 original size:44 final size:44
Alignment explanation
Indices: 34817211--34817440 Score: 189
Period size: 44 Copynumber: 5.3 Consensus size: 44
34817201 ACCATCCTCG
* *
34817211 ACCTACTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCA
1 ACCTACTCCACTACTGCTTAGGGAGATAAGAGCTGTAATTTTCA
* * * ** * *
34817255 ACCTACTCTACTACTGCTCAGGGAGACAAG-GCTGGGGA-CTTCG
1 ACCTACTCCACTACTGCTTAGGGAGATAAGAGCT-GTAATTTTCA
* * *
34817298 ATCTGCTCCACTACTGCTTAGGGAGATAAGAACTGTAATTTTCA
1 ACCTACTCCACTACTGCTTAGGGAGATAAGAGCTGTAATTTTCA
* * * ** * *
34817342 ACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGACTTT-G
1 ACCTACTCCACTACTGCTTAGGGAGATAAGAGCT-GTAATTTTCA
* * * * **
34817385 ATCTGCTTCACTACTGCTTAGGTAGATAAGATTTGTAATTTTCA
1 ACCTACTCCACTACTGCTTAGGGAGATAAGAGCTGTAATTTTCA
34817429 ACCTACTCCACT
1 ACCTACTCCACT
34817441 GCTGTCCAGG
Statistics
Matches: 135, Mismatches: 45, Indels: 12
0.70 0.23 0.06
Matches are distributed among these distances:
43 62 0.46
44 73 0.54
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ACCTACTCCACTACTGCTTAGGGAGATAAGAGCTGTAATTTTCA
Found at i:34817313 original size:43 final size:43
Alignment explanation
Indices: 34817264--34817483 Score: 165
Period size: 43 Copynumber: 5.1 Consensus size: 43
34817254 AACCTACTCT
34817264 ACTACTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
1 ACTACTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
* * * ** * * * *
34817307 ACTACTGCTTAGGGAGATAAGAACT-GTAATTTTCAACCTACTCC
1 ACTACTGCTCAGGGAGACAAG-GCTGGGGA-CTTCGATCTGCTCC
* * *
34817351 ACTGCTGCTCAGGGAGACAAGGCTGGGGACTTTGATCTGCTTC
1 ACTACTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
* * * ** * ** * * * *
34817394 ACTACTGCTTAGGTAGATAAGATTTGTAATTTTCAACCTACTCC
1 ACTACTGCTCAGGGAGACAAGGCTGGGGA-CTTCGATCTGCTCC
*
34817438 ACTGCTG-TCCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
1 ACTACTGCT-CAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
34817481 ACT
1 ACT
34817484 GTCAGTGCAG
Statistics
Matches: 123, Mismatches: 49, Indels: 10
0.68 0.27 0.05
Matches are distributed among these distances:
43 65 0.53
44 58 0.47
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (43 bp):
ACTACTGCTCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCC
Found at i:34817319 original size:87 final size:87
Alignment explanation
Indices: 34817216--34817483 Score: 448
Period size: 87 Copynumber: 3.1 Consensus size: 87
34817206 CCTCGACCTA
* * *
34817216 CTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCTACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
34817281 CAAGGCTGGGGACTTCGATCTG
66 CAAGGCTGGGGACTTCGATCTG
*
34817303 CTCCACTACTGCTTAGGGAGATAAGAACTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
*
34817368 CAAGGCTGGGGACTTTGATCTG
66 CAAGGCTGGGGACTTCGATCTG
* * *
34817390 CTTCACTACTGCTTAGGTAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTG-TCCAGGGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT-CAGGGAG
34817454 ACAAGGCTGGGGACTTCGATCTG
65 ACAAGGCTGGGGACTTCGATCTG
34817477 CTCCACT
1 CTCCACT
34817484 GTCAGTGCAG
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 1 0.01
87 168 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
CAAGGCTGGGGACTTCGATCTG
Found at i:34817563 original size:88 final size:88
Alignment explanation
Indices: 34817446--34818123 Score: 881
Period size: 88 Copynumber: 7.7 Consensus size: 88
34817436 CCACTGCTGT
* * * * * * * * *
34817446 CCAGGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTGTCAGTGCAGGAAGGCAAGATCTACTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
**
34817511 TTTTTAACCTATTCCGCTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * *
34817534 CCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGACTCAGGAAGGCAAGATCTGGTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
34817599 TTTTTAACCTGCTCCGCTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * * * *
34817622 CCAGGGAGGTAAGGCTGGTGTTTTCGATCTGCTTCGCTGTCGGCGTAGGAAGGCAAAATATGCTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
*
34817687 -TTTTAACCTGCTCCACTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * * * * *
34817709 CCAGGGAGGCAAGGTTGGTGTCTTTGATTTGTTTCGTTGTTGGCGCAGGAAGGCAAGATCTACTT
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
* *
34817774 TTTTTAACCTGCTCTGCTACAAC
66 TTTTTAACCTGCTCCGCTGCAAC
** * *
34817797 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTATTTCACTGTCGGCGCAGGAAAGCAAGATCTGCTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
*
34817862 TTTTTAACCTGCTCCACTGCAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * * *
34817885 CTAGGGAGGTAAGGTTGGTGTCTTCGATCTGCTTCGCTATCGGTGGAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
34817950 TTTTTAAACCTGCTCCGCTGCAAC
66 TTTTT-AACCTGCTCCGCTGCAAC
** ** * *
34817974 TTAGGGAGGCAAGGTTGGTGTCTTTTATCTGCTTTGCTGTCGACGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
* *
34818039 TTTTTAACCTGCTCCACTACAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* *
34818062 CTAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTG
34818124 TTATCTTCAC
Statistics
Matches: 507, Mismatches: 81, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
87 73 0.14
88 356 0.70
89 78 0.15
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
CCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGCAAC
Found at i:34817654 original size:43 final size:42
Alignment explanation
Indices: 34817523--34817660 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 42
34817513 TTTAACCTAT
*
34817523 TCCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGC
1 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-TTTGATCTGC
* * * * * * * *
34817566 TTCGCTGTCGACTCAGGAAGGCAAGATCTGGTATTTTTAACCTGC
1 TCCGCTG-CAACCCAGGGAGGCAAG-GCTGGT-GTTTTGATCTGC
*
34817611 TCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTTTTCGATCTGC
1 TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTTTT-GATCTGC
*
34817654 TTCGCTG
1 TCCGCTG
34817661 TCGGCGTAGG
Statistics
Matches: 72, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
42 4 0.06
43 22 0.31
44 27 0.38
45 18 0.25
46 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (42 bp):
TCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTTTTGATCTGC
Found at i:34817855 original size:263 final size:265
Alignment explanation
Indices: 34817490--34818123 Score: 932
Period size: 263 Copynumber: 2.4 Consensus size: 265
34817480 CACTGTCAGT
** *
34817490 GCAGGAAGGCAAGATCTACTATTTTTAACCTATTCCGCTGCAACCCAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
* * * * *
34817555 CTTTGATCTGCTTCGCTGTCGACTCAGGAAGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGCA
66 CTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCA
* * *
34817620 ACCCAGGGAGGTAAGGCTGGTGTTTTCGATCTGCTTCGCTGTCGGCGTAGGAAGGCAAAATATGC
131 ACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGCGGAGGAAGGCAAAATATGC
* *
34817685 TA-TTTT-AACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGTCTTTGATTTG-TTTCGTT
196 TATTTTTAAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTT-GCT
* *
34817747 GTTGGC
260 GTCGAC
* *
34817753 GCAGGAAGGCAAGATCTACTTTTTTTAACCTGCTCTGCTACAACCCAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
** * *
34817818 CTTCGATCTATTTCACTGTCGGCGCAGGAAAGCAAGATCTGCTATTTTTAACCTGCTCCACTGCA
66 CTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCA
* * * * *
34817883 ACCTAGGGAGGTAAGGTTGGTGTCTTCGATCTGCTTCGCTATCGGTGGAGGAAGGCAAGATCTGC
131 ACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGCGGAGGAAGGCAAAATATGC
* ** *
34817948 TATTTTTAAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGTTGGTGTCTTTTATCTGCTTTGCTG
196 TATTTTTAAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTTGCTG
34818013 TCGAC
261 TCGAC
* * *
34818018 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCTAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
*
34818083 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
66 CTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTG
34818124 TTATCTTCAC
Statistics
Matches: 328, Mismatches: 40, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
263 175 0.53
264 4 0.01
265 146 0.45
266 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (265 bp):
GCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGT
CTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCA
ACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGCGGAGGAAGGCAAAATATGC
TATTTTTAAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTTGCTG
TCGAC
Found at i:34818052 original size:177 final size:176
Alignment explanation
Indices: 34817490--34818123 Score: 871
Period size: 177 Copynumber: 3.6 Consensus size: 176
34817480 CACTGTCAGT
* ** *
34817490 GCAGGAAGGCAAGATCTACTATTTTTAACCTATTCCGCTGCAACCCAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
* * *
34817555 CTTTGATCTGCTTCGCTGTCGACT-CAGGAAGGCAAGATCTGGTATTTTTAACCTGCTCCGCTGC
66 CTTCGATCTGCTTCGCTGTCG-GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGC
* * *
34817619 AACCCAGGGAGGTAAGGCTGGTGT-TTTCGATCTGCTTCGCTGTCGGC
130 AACCCAGGGAGGCAAGGTTGGTGTCTTT-GATCTGCTTTGCTGTCGGC
* * *
34817666 GTAGGAAGGCAAAATATGCTA-TTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
* * * * * * * * * *
34817730 CTTTGATTTGTTTCGTTGTTGGCGCAGGAAGGCAAGATCTACTTTTTTTAACCTGCTCTGCTACA
66 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCA
* * *
34817795 ACCCAGGGAGGCAAGGTTGGTGTCTTCGATCT-ATTTCACTGTCGGC
131 ACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTT-GCTGTCGGC
* * *
34817841 GCAGGAAAGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCTAGGGAGGTAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
* *
34817906 CTTCGATCTGCTTCGCTATCGGTGGAGGAAGGCAAGATCTGCTATTTTTAAACCTGCTCCGCTGC
66 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT-AACCTGCTCCGCTGC
** * *
34817971 AACTTAGGGAGGCAAGGTTGGTGTCTTTTATCTGCTTTGCTGTCGAC
130 AACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTTGCTGTCGGC
* *
34818018 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCTAGGGAGGCAAGGTTGGTGT
1 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
34818083 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
66 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
34818124 TTATCTTCAC
Statistics
Matches: 398, Mismatches: 54, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
174 2 0.01
175 144 0.36
176 99 0.25
177 150 0.38
178 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (176 bp):
GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGTTGGTGT
CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCA
ACCCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTTGCTGTCGGC
Found at i:34824240 original size:19 final size:19
Alignment explanation
Indices: 34824204--34824254 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
34824194 AACGAGCAAG
* ** *
34824204 ATAAAAAATTAATGAAAAC
1 ATAAAAAAATAAAAAAAAA
34824223 ATAAAAAAATAAAAAAAAA
1 ATAAAAAAATAAAAAAAAA
*
34824242 ACAAAAAAATAAA
1 ATAAAAAAATAAA
34824255 GGTACATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (19 bp):
ATAAAAAAATAAAAAAAAA
Found at i:34824314 original size:12 final size:11
Alignment explanation
Indices: 34824297--34824330 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
34824287 AATACACATG
34824297 AATTTATATATA
1 AATTTATATA-A
34824309 AATTTATA-AA
1 AATTTATATAA
34824319 AATTTATATAA
1 AATTTATATAA
34824330 A
1 A
34824331 CAAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 4 0.19
12 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTATATAA
Found at i:34824398 original size:18 final size:18
Alignment explanation
Indices: 34824357--34824395 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34824347 AAAAATAAAG
34824357 AAAA-ATATAGAAATATA
1 AAAATATATAGAAATATA
34824374 AAAATATATAGAAATTATA
1 AAAATATATAGAAA-TATA
34824393 AAA
1 AAA
34824396 TATGTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATATATAGAAATATA
Found at i:34824634 original size:17 final size:17
Alignment explanation
Indices: 34824594--34824640 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
34824584 AATACATATG
34824594 TACATA-AAAAAAT-A-
1 TACATATAAAAAATAAT
* *
34824608 TACATGTAAATAATAAT
1 TACATATAAAAAATAAT
34824625 TACATATAAAAAATAA
1 TACATATAAAAAATAA
34824641 AAAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.19
15 6 0.23
16 1 0.04
17 14 0.54
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (17 bp):
TACATATAAAAAATAAT
Found at i:34835410 original size:27 final size:26
Alignment explanation
Indices: 34835380--34835445 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
34835370 TATTACAAAA
*
34835380 TATGCCACAAAGACAATTCATATAGAG
1 TATGCCACAAAG-CAATTCATACAGAG
* *
34835407 TATGCCAAAAATGCGATTCATACAGAG
1 TATGCCACAAA-GCAATTCATACAGAG
34835434 TATGCCACAAAG
1 TATGCCACAAAG
34835446 GTTGACAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
TATGCCACAAAGCAATTCATACAGAG
Found at i:34841962 original size:67 final size:66
Alignment explanation
Indices: 34841862--34841986 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 66
34841852 AAATTTCATT
* *
34841862 AAATAATTGAAAAGGACCATGAATGATGCGGTGGG-AAGGATCCATAAAATAATTTCTCGTTTCG
1 AAATAATTGAAAAGGACCATAAATGATACGGTGGGAAAGG-TCCATAAAATAATTTCTCGTTTCG
34841926 AG
65 AG
*
34841928 AAATAATTGAAAAGGGACCATAAATGATATGGTGGGAAAGGTCCATAAAATAATTTCTC
1 AAATAATTGAAAA-GGACCATAAATGATACGGTGGGAAAGGTCCATAAAATAATTTCTC
34841987 TTTAAACAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
66 13 0.24
67 37 0.69
68 4 0.07
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (66 bp):
AAATAATTGAAAAGGACCATAAATGATACGGTGGGAAAGGTCCATAAAATAATTTCTCGTTTCGA
G
Found at i:34850354 original size:15 final size:14
Alignment explanation
Indices: 34850282--34850363 Score: 75
Period size: 15 Copynumber: 5.9 Consensus size: 14
34850272 AATAAAATGC
34850282 AATAATAAT-AATGAT
1 AATAATAATAAAT--T
34850297 AATAATAAT-AA-T
1 AATAATAATAAATT
34850309 AATAATAAT-AA-T
1 AATAATAATAAATT
*
34850321 AATAATAATAATAAT
1 AATAATAATAA-ATT
34850336 AATAATAATAAATT
1 AATAATAATAAATT
34850350 CAATAATAAATAAA
1 -AATAAT-AATAAA
34850364 ATGACAGGAT
Statistics
Matches: 61, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
12 22 0.36
13 1 0.02
14 3 0.05
15 29 0.48
16 6 0.10
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (14 bp):
AATAATAATAAATT
Found at i:34850358 original size:3 final size:3
Alignment explanation
Indices: 34850282--34850346 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
34850272 AATAAAATGC
*
34850282 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34850330 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
34850347 ATTCAATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34851992 original size:99 final size:97
Alignment explanation
Indices: 34851804--34852578 Score: 888
Period size: 99 Copynumber: 7.9 Consensus size: 97
34851794 AAAATATCAT
* * * * * *
34851804 GGAAGTGAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGTACCTGCTTAGGAA-TAAGATTTA
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC-GCTT-GGAAGTAAGA-TTG
* *
34851868 CCGTTGTGGCCTCAATCTTTT-AATTGCAATGTCAG
63 CCGTCGTGGCCTCGATCTTTTAAATTGCAATGTC-G
* * *
34851903 GGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTACGCTGCATTGCTTGGAAGTAAGATCTGCC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGAT-TGCC
*
34851968 GTCGTGGCCTCAATCTTTTAAATTGCAATGTCG
65 GTCGTGGCCTCGATCTTTTAAATTGCAATGTCG
* * * * *
34852001 AGGGAGTGAGATCCGCCATTGTAGCTTCAATCTGTTCCTCTAG-ATCGCTTGGAAGTAAGATCCG
1 -GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCT-GCATCGCTTGGAAGTAAGAT-TG
*
34852065 CCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGG
63 CCGTCGTGGCCTCGATCTTTTAAATTGCAATGTC-G
* ** * *
34852101 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTTTGCTGCATCGCTAAGTAAGTAAGATCTGC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCT-TGGAAGTAAGAT-TGC
34852166 CGTCGTGGCCTCGATCTTTTAAATTGCAATG--G
64 CGTCGTGGCCTCGATCTTTTAAATTGCAATGTCG
* * * * *
34852198 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCCTGAAAGTAAGATTTGTC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGA-TTGCC
* *
34852263 GTTGTGGCTTCGATCTTTTAAATTGCAATG--G
65 GTCGTGGCCTCGATCTTTTAAATTGCAATGTCG
* * *
34852294 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGATT-GCC
*
34852359 GTTGTGGCCTCGATCTTTTAAATTGCAATG--G
65 GTCGTGGCCTCGATCTTTTAAATTGCAATGTCG
* * * ** *
34852390 GGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GC-CAGAAGGTAAGATTCA
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCTTGGAA-GTAAGATT-G
** * *
34852453 CCGTTATGGCTTTGATCTTTTAAATTGCAATGTCGG
63 CCGTCGTGGCCTCGATCTTTTAAATTGCAATGTC-G
* *
34852489 GGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCC
1 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGATT-GCC
*
34852554 GTCGTGGCTTCGATCTTTTAAATTG
65 GTCGTGGCCTCGATCTTTTAAATTG
34852579 AAAACTATGG
Statistics
Matches: 601, Mismatches: 58, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
95 5 0.01
96 208 0.35
97 51 0.08
98 34 0.06
99 255 0.42
100 48 0.08
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (97 bp):
GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGATTGCCG
TCGTGGCCTCGATCTTTTAAATTGCAATGTCG
Found at i:34852549 original size:49 final size:49
Alignment explanation
Indices: 34851804--34852569 Score: 322
Period size: 49 Copynumber: 15.7 Consensus size: 49
34851794 AAAATATCAT
* * * * * **
34851804 GGAAGTGAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGTACCTGCTTA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-ATGC-CG
** * * ** * *
34851855 GGAA-TAAGATTTACCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCAG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATG-CCG
* * * * * **
34851903 GGAAGTGAGATTCGCCATTGTAGCTTCAATCTGTTACGCTGCATTGCTT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * * * ** * *
34851952 GGAAGTAAGA-TCTGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCG
1 GGAAGTAAGATTC-GCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * * * * **
34852001 AGGGAGTGAGATCCGCCATTGTAGCTTCAATCTGTTCCTCT--AGATCGCTT
1 -GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-AT-GCCG
* * * * * ** * *
34852051 GGAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATG-CCG
* * *** **
34852101 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTTTGCTGC-ATCGCTAA
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GC-CG
* * * * * * ** *
34852151 GTAAGTAAGA-TCTGCCGTCGTGGCCTCGATCTTTTAAATTGCAATG--G
1 GGAAGTAAGATTC-GCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * * * *
34852198 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCCT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * * * * * ** *
34852247 GAAAGTAAGATTTGTCGTTGTGGCTTCGATCTTTTAAATTGCAATG--G
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * *
34852294 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCG
* * * * ** *
34852343 GGAAGTAAGATTCGCCGTTGTGGCCTCGATCTTTTAAATTGCAATG--G
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * *
34852390 GGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCC-
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
* * * * ** * ** * *
34852438 AGAAGGTAAGATTCACCGTTATGGCTTTGATCTTTTAAATTGCAATGTCGG
1 GGAA-GTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATG-CCG
* * * *
34852489 GGAAGTGAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCG
* * *
34852538 GGAAGTAAGATTCGCCGTCGTGGCTTCGATCT
1 GGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
34852570 TTTAAATTGA
Statistics
Matches: 500, Mismatches: 187, Indels: 58
0.67 0.25 0.08
Matches are distributed among these distances:
46 2 0.00
47 99 0.20
48 14 0.03
49 226 0.45
50 148 0.30
51 11 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (49 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCG
Found at i:34865212 original size:3 final size:3
Alignment explanation
Indices: 34865157--34865200 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
34865147 AATAAAATGC
*
34865157 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34865201 ATTCAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34866467 original size:30 final size:30
Alignment explanation
Indices: 34866422--34866480 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
34866412 TGTTCACTTG
*
34866422 AGTCGCTGTTACTAAATTATTTATATCTTA
1 AGTCACTGTTACTAAATTATTTATATCTTA
*
34866452 AGTCACTGTTCCTAAATTATTTATATCTT
1 AGTCACTGTTACTAAATTATTTATATCTT
34866481 GAGCTACAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (30 bp):
AGTCACTGTTACTAAATTATTTATATCTTA
Found at i:34878665 original size:20 final size:20
Alignment explanation
Indices: 34878642--34878681 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34878632 ATGTGATATA
34878642 CACTATATGAATATGATTTG
1 CACTATATGAATATGATTTG
* *
34878662 CACTATCTGAATATGCTTTG
1 CACTATATGAATATGATTTG
34878682 AATCTATAAC
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:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
CACTATATGAATATGATTTG
Found at i:34883735 original size:24 final size:23
Alignment explanation
Indices: 34883708--34883770 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
34883698 ATTATATATT
34883708 AAATATTTATTTTTATTTTTAATC
1 AAATA-TTATTTTTATTTTTAATC
*
34883732 AAATA-TATATTTATTTTTAATC
1 AAATATTATTTTTATTTTTAATC
*
34883754 AAACATATATATTTTAT
1 AAATAT-TAT-TTTTAT
34883771 ATATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 20 0.61
24 8 0.24
25 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATATTATTTTTATTTTTAATC
Found at i:34883747 original size:22 final size:22
Alignment explanation
Indices: 34883719--34883790 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
34883709 AATATTTATT
34883719 TTTATTTTTAATCAAATATATA
1 TTTATTTTTAATCAAATATATA
34883741 TTTATTTTTAATCAAACATATATA
1 TTTATTTTTAATC-AA-ATATATA
* * *
34883765 TTT-TATATATATTAAATATATA
1 TTTATTTTTA-ATCAAATATATA
34883787 TTTA
1 TTTA
34883791 ATATGGGCCG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 23 0.53
23 8 0.19
24 12 0.28
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTATTTTTAATCAAATATATA
Found at i:34883774 original size:11 final size:11
Alignment explanation
Indices: 34883758--34883794 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
34883748 TTAATCAAAC
*
34883758 ATATATATTTT
1 ATATATATTTA
*
34883769 ATATATATTAA
1 ATATATATTTA
34883780 ATATATATTTA
1 ATATATATTTA
34883791 ATAT
1 ATAT
34883795 GGGCCGGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTTA
Found at i:34883785 original size:24 final size:23
Alignment explanation
Indices: 34883700--34883789 Score: 76
Period size: 24 Copynumber: 3.9 Consensus size: 23
34883690 CGGTATGAAT
* *
34883700 TATATATTAAATATTTATTTTTA
1 TATATATCAAATATATATTTTTA
* *
34883723 TTTTTAATCAAATATATATTTATT-
1 TATAT-ATCAAATATATATTT-TTA
* *
34883747 TTTA-ATCAAACATATATATTTTA
1 TATATATCAAATATATAT-TTTTA
*
34883770 TATATATTAAATATATATTT
1 TATATATCAAATATATATTT
34883790 AATATGGGCC
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 14 0.26
23 10 0.19
24 27 0.51
25 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATATCAAATATATATTTTTA
Found at i:34891903 original size:17 final size:17
Alignment explanation
Indices: 34891878--34891910 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34891868 TCCCTAAATA
34891878 AATAATAAATAATATAT
1 AATAATAAATAATATAT
*
34891895 AATAGTAAATAATATA
1 AATAATAAATAATATA
34891911 ATTAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AATAATAAATAATATAT
Found at i:34902865 original size:131 final size:131
Alignment explanation
Indices: 34902629--34902945 Score: 517
Period size: 131 Copynumber: 2.4 Consensus size: 131
34902619 AATATTACAT
* *
34902629 ATCTTATCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGAGTA
1 ATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTA
* * * *
34902694 GGGAATCAGATTTAAGCCACAAGTCCTATGTCCCTAACCAGTAGTGGAATAGGTTGGAAATTGCA
66 GGGAAACAGATTTAAGCCACAAGTCCCATGTCCCTAACCAGCAGTGGAATAGGCTGGAAATTGCA
34902759 G
131 G
* * * *
34902760 ATCTTGTCTCCCTAAGCAATAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCCCAGGAGTA
1 ATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTA
*
34902825 GGGAAACAGATTTAAGCCACAAGTCCCATGTCCCTGACCAGCAGTGGAATAGGCTGGAAATTGCA
66 GGGAAACAGATTTAAGCCACAAGTCCCATGTCCCTAACCAGCAGTGGAATAGGCTGGAAATTGCA
34902890 G
131 G
* *
34902891 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTACCTTC
1 ATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
34902946 AAGTGTAAGG
Statistics
Matches: 170, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 170 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (131 bp):
ATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTA
GGGAAACAGATTTAAGCCACAAGTCCCATGTCCCTAACCAGCAGTGGAATAGGCTGGAAATTGCA
G
Found at i:34903190 original size:216 final size:217
Alignment explanation
Indices: 34902924--34903351 Score: 687
Period size: 216 Copynumber: 2.0 Consensus size: 217
34902914 GGAGCAGATC
*
34902924 GAAGACGGCGAATCTTACCTTCAAGTGTAAGGAAGCAGATTGAAGCCGATAATCTTATCTCCCTG
1 GAAGACGGCGAATCTTACCTTCAAGTGTAAGGAAGCAGATTGAAGCCGATAATCCTATCTCCCTG
* *
34902989 AAGTTGTAGTTGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTACAGTAGAGTGGATCG
66 AAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCG
* * * * *
34903054 CATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAAGTCTTATGCCCCTGA
131 CATCAGGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGAAAACAAGTCTTATCCCCCTGA
34903119 AGTCACAGTGGGGCAGACTGAA
196 AGTCACAGTGGGGCAGACTGAA
* *
34903141 GAAG-CGGCGGATCTTATCTTCAAGTGTAAGGAAGCAGATTGAAGCCGATAATCCTATCTCCCTG
1 GAAGACGGCGAATCTTACCTTCAAGTGTAAGGAAGCAGATTGAAGCCGATAATCCTATCTCCCTG
* * * *
34903205 AAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGGATTG
66 AAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCG
* * *
34903270 CATCAGGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCAGGTCTTATCCCCCTGA
131 CATCAGGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGAAAACAAGTCTTATCCCCCTGA
*
34903335 AGTTACAGTGGGGCAGA
196 AGTCACAGTGGGGCAGA
34903352 TCAAAGATGA
Statistics
Matches: 193, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
216 189 0.98
217 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (217 bp):
GAAGACGGCGAATCTTACCTTCAAGTGTAAGGAAGCAGATTGAAGCCGATAATCCTATCTCCCTG
AAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCG
CATCAGGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGAAAACAAGTCTTATCCCCCTGA
AGTCACAGTGGGGCAGACTGAA
Found at i:34903326 original size:44 final size:42
Alignment explanation
Indices: 34903273--34903423 Score: 115
Period size: 44 Copynumber: 3.4 Consensus size: 42
34903263 TGGATTGCAT
* *
34903273 CAGGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAG
1 CAGGTCTTATCCCCCTAAAGTT-CAGAGGAGCAGACTAAG-AAG
* * * * *
34903317 CAGGTCTTATCCCCCTGAAGTTACAGTGGGGCAGATCAAAGATG
1 CAGGTCTTATCCCCCTAAAGTT-CAGAGGAGCAGA-CTAAGAAG
* * *
34903361 ACAAGTCTTATCCCCCTGAAG-TCATAGTGAGGCAGACTAAGGAAG
1 -CAGGTCTTATCCCCCTAAAGTTCAGAG-GA-GCAGACTAA-GAAG
* *
34903406 CAGATCTTATCTCCCTAA
1 CAGGTCTTATCCCCCTAA
34903424 GCACTAGCGG
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
43 3 0.04
44 51 0.60
45 31 0.36
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (42 bp):
CAGGTCTTATCCCCCTAAAGTTCAGAGGAGCAGACTAAGAAG
Found at i:34903542 original size:40 final size:40
Alignment explanation
Indices: 34903497--34903600 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
34903487 CCGGTAATCC
* *
34903497 TATCTCCCTGAGATTACAGTGGAGCAGAT-TAACAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAAATCCAACAGG-TCT
* * * * *
34903537 TATCTCTCTGAAATTACAGTAGAGTAAATCGCATCAGGTCT
1 TATCTCCCTGAGATTACAGTGGAGCAAATC-CAACAGGTCT
*
34903578 TATCTCCTTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
34903601 ATAGACCGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 24 0.47
41 22 0.43
42 5 0.10
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (40 bp):
TATCTCCCTGAGATTACAGTGGAGCAAATCCAACAGGTCT
Found at i:34904003 original size:18 final size:16
Alignment explanation
Indices: 34903980--34904021 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
34903970 TGCCCGGCCC
34903980 AAATTAAATAATAAACAA
1 AAATTAAA-AATAAA-AA
*
34903998 AAATTAAAAATTAAAA
1 AAATTAAAAATAAAAA
34904014 AAATTAAA
1 AAATTAAA
34904022 GGCCCAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTAAAAATAAAAA
Found at i:34925896 original size:195 final size:197
Alignment explanation
Indices: 34925582--34925964 Score: 495
Period size: 195 Copynumber: 2.0 Consensus size: 197
34925572 TCTCTGAAAT
* * * ** *
34925582 AAGGAGATTGGATCAAGATTGCATTGAAAACTTATCTGTAAGATCTTCACATTATCTTGGTATTT
1 AAGGAGATTAGACCAAGATTGCATTCAAAACTTATCCCTAAGATATTCACATTATCTTGGTATTT
* * * * *
34925647 ATTATTATATTGTATATATTATTTTAGCTGCAATTTCATATGTGATAGGATTGTAATTGATCTAG
66 ATTATTATATTATATATATTATTTTAGATACAATTTCATATGGGATAGGATTGTAATTGATCTAA
*** * *
34925712 TATGTTAGCAAGTCTTGATCTCTTAGATATTTAGAGAGACTTGTATAGGTTTTGTATAGAAGGTT
131 TATGTTAGCAAGTCGCAATCTCTTAGATATTTAGAGAGACTTGCATAGATTTTGTATAGAAGGTT
34925777 AC
196 AC
* * * *
34925779 AAGGAGATTAGACCAGGATTGCATTCAAGACTTA-CCCTAAGATATTCACTTTATCTTGGTCTTT
1 AAGGAGATTAGACCAAGATTGCATTCAAAACTTATCCCTAAGATATTCACATTATCTTGGTATTT
* **
34925843 A-TATTATATTATATAT-TCTATTTTAGATACAATTTTATA-GAGGATTTGATTGTAATTGATCT
66 ATTATTATATTATATATAT-TATTTTAGATACAATTTCATATG-GGATAGGATTGTAATTGATCT
* *
34925905 AATATGTTAGCAAGTCGCAATCTCTTATATATTTGGAGAGACTTGCATAGATTTTGTATA
129 AATATGTTAGCAAGTCGCAATCTCTTAGATATTTAGAGAGACTTGCATAGATTTTGTATA
34925965 AGCACTATAT
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
194 2 0.01
195 102 0.64
196 26 0.16
197 29 0.18
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (197 bp):
AAGGAGATTAGACCAAGATTGCATTCAAAACTTATCCCTAAGATATTCACATTATCTTGGTATTT
ATTATTATATTATATATATTATTTTAGATACAATTTCATATGGGATAGGATTGTAATTGATCTAA
TATGTTAGCAAGTCGCAATCTCTTAGATATTTAGAGAGACTTGCATAGATTTTGTATAGAAGGTT
AC
Found at i:34929757 original size:17 final size:17
Alignment explanation
Indices: 34929735--34929767 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34929725 TAATAAGATT
34929735 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
34929752 TAATATTAAATTTAAT
1 TAATATTAAATTTAAT
34929768 ATTAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:34930057 original size:110 final size:110
Alignment explanation
Indices: 34929856--34930081 Score: 407
Period size: 110 Copynumber: 2.0 Consensus size: 110
34929846 CACACACTTG
*
34929856 AATTCAAGAAAAAGTTGTAGAGAGAAAATTCACTGAAGAGATTATTTCAGAAAATTTTTAGAGAT
1 AATT-AAGAAAAAGTTGTAGAGAGAAAATTCACTGAAGAGATTATTTCAGAAAATTTTTAAAGAT
34929921 ATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAATTGCGA
65 ATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAATTGCGA
* *
34929967 AATTAAGAGAAAGTTGTAGAGAGAAAATTCACTGAAGAGATTATTTCAGAAAATTTTTAAATATA
1 AATTAAGAAAAAGTTGTAGAGAGAAAATTCACTGAAGAGATTATTTCAGAAAATTTTTAAAGATA
*
34930032 TTTTTTTGATTTACAACTTGACCCAAAAGTTTAGAGAAATTGCGA
66 TTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAATTGCGA
34930077 AATTA
1 AATTA
34930082 CTTCACTTGT
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 107 0.96
111 4 0.04
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (110 bp):
AATTAAGAAAAAGTTGTAGAGAGAAAATTCACTGAAGAGATTATTTCAGAAAATTTTTAAAGATA
TTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAATTGCGA
Found at i:34932030 original size:820 final size:820
Alignment explanation
Indices: 34930888--34933380 Score: 4644
Period size: 820 Copynumber: 3.0 Consensus size: 820
34930878 GCTTCATAGC
*
34930888 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTGTTATCATTT
1 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
*
34930953 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTTAGTTGATTTTAA
66 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
34931018 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
131 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
34931083 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
196 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
34931148 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
261 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
*
34931213 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCGAAATTAAG
326 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
34931278 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
391 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
34931343 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
456 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
34931408 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
521 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
34931473 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAGTGGTCTGT
586 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAGTGGTCTGT
*
34931538 GGGGGGCTTAGGTGATCAATTCATCTAATCTAAGTCCAGGAGTAAGTGTTCTTACTTGAGCTTTG
651 GGGGGGCTTAGATGATCAATTCATCTAATCTAAGTCCAGGAGTAAGTGTTCTTACTTGAGCTTTG
34931603 TTATTTTGCAAATAAGCTTACATGTGTTGTGATATGTTTAAGTTTGTAATGTGAATATATGTGTT
716 TTATTTTGCAAATAAGCTTACATGTGTTGTGATATGTTTAAGTTTGTAATGTGAATATATGTGTT
34931668 GAATATATATCTGAATATGTTTTGTGAACAGTTGGTTTTA
781 GAATATATATCTGAATATGTTTTGTGAACAGTTGGTTTTA
34931708 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
1 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
34931773 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
66 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
34931838 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
131 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
34931903 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
196 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
34931968 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
261 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
34932033 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
326 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
34932098 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
391 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
34932163 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
456 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
34932228 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
521 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
34932293 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAGTGGTCTGT
586 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAGTGGTCTGT
34932358 GGGGGGCTTAGATGATCAATTCATCTAATCTAAGTCCAGGAGTAAGTGTTCTTACTTGAGCTTTG
651 GGGGGGCTTAGATGATCAATTCATCTAATCTAAGTCCAGGAGTAAGTGTTCTTACTTGAGCTTTG
34932423 TTATTTTGCAAATAAGCTTACATGTGTTGTGATATGTTTAAGTTTGTAATGTGAATATATGTGTT
716 TTATTTTGCAAATAAGCTTACATGTGTTGTGATATGTTTAAGTTTGTAATGTGAATATATGTGTT
34932488 GAATATATATCTGAATATGTTTTGTGAACAGTTGGTTTTA
781 GAATATATATCTGAATATGTTTTGTGAACAGTTGGTTTTA
34932528 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
1 TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
34932593 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
66 CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
34932658 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
131 GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
34932723 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
196 TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
*
34932788 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAAAAAAATGATATTCATGTAATT
261 AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
34932853 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
326 GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
34932918 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
391 GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
34932983 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
456 GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
34933048 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
521 CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
*
34933113 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGCAAGTTACTAAGGTGAGTCATCTGT
586 CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAG-----TG-
34933178 GCTATAATTAATGCATAAAACAGTGAATTAAAGGGGGCTTAGATGATCAATTCATCTAATCTAAG
645 G----------T-C-T------GTG-------GGGGGCTTAGATGATCAATTCATCTAATCTAAG
34933243 TCCAGGAGTAAGTGTTCTTACTTGAGCTTTGTTATTTTGCAAATAAGCTTACATGTGTTGTGATA
685 TCCAGGAGTAAGTGTTCTTACTTGAGCTTTGTTATTTTGCAAATAAGCTTACATGTGTTGTGATA
*
34933308 TGTTTAAGTTTGTAATGTGAATATATGTGTTGAATATATATCTGAATATGCTTTGTGAACAGTTG
750 TGTTTAAGTTTGTAATGTGAATATATGTGTTGAATATATATCTGAATATGTTTTGTGAACAGTTG
34933373 GTTTTA
815 GTTTTA
34933379 TG
1 TG
34933381 CACACATATC
Statistics
Matches: 1635, Mismatches: 7, Indels: 31
0.98 0.00 0.02
Matches are distributed among these distances:
820 1456 0.89
825 2 0.00
826 1 0.00
836 1 0.00
837 1 0.00
838 1 0.00
844 3 0.00
851 170 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (820 bp):
TGATCGATTTTGCAATTAAGGTAACATTCTAACTTTTCTTGATCAAATGGAGTGTTTTATCATTT
CAAATTGCTTTTTAATTGATTAAATCAAGATTTCAATAGATCGTTAGATTTTAAGTTGATTTTAA
GCTTGAAAATGGCGAATCTCGTATTATTAAGTTAAAGTATTGTTTCAAAGCTCTTTTAAACTTAT
TTTGATCCTATTAAAAGGTTTTTAACCTTAATTTAACAAGTCTTTAAGTAATTTTGAAGAACTTG
AATGTTTTCTTCTCTTTAAAGTTTATTTGGCCTGATTTTTCCAGAAAAATGATATTCATGTAATT
GGACAAAAATGAAGGTTTAAATATGTAATTAAATGATGTTTAAGAAGATTAGGATCAAAATTAAG
GTTTAGAAACAAAATTTGAGTGGTAAAATCATACTTTCGGCAAAACTAGCTAAGTTTTTAGTATA
GAGATATAGAGGCTTTGATCTATAATTTTAGAATGAATTAATCTTGTTTGTTGTGGTTTGTAATG
CCTTTGTATTTTATTTGATGTGTATGTAAAGTGCCAATTCATTTGGGAGCATCCACAAGCAAGTA
CAAAGGCAAGTAAAAGCTTACTTGAGCTTTGTCATTGAAGTAAGTTACTAAGGTGAGTGGTCTGT
GGGGGGCTTAGATGATCAATTCATCTAATCTAAGTCCAGGAGTAAGTGTTCTTACTTGAGCTTTG
TTATTTTGCAAATAAGCTTACATGTGTTGTGATATGTTTAAGTTTGTAATGTGAATATATGTGTT
GAATATATATCTGAATATGTTTTGTGAACAGTTGGTTTTA
Found at i:34935969 original size:15 final size:16
Alignment explanation
Indices: 34935949--34935979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34935939 TGACGGTTGG
34935949 ATTGTT-AAAATATTA
1 ATTGTTGAAAATATTA
34935964 ATTGTTGAAAATATTA
1 ATTGTTGAAAATATTA
34935980 TGAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
ATTGTTGAAAATATTA
Found at i:34942457 original size:21 final size:20
Alignment explanation
Indices: 34942424--34942484 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
34942414 AAGATTTTTT
*
34942424 AAATAATTATTAAAAATAAAA
1 AAATAAATATT-AAAATAAAA
* *
34942445 AAATAAATCTTAAATTAAAAA
1 AAATAAATATTAAAAT-AAAA
34942466 ATAACTAAA-ATTAAAATAA
1 A-AA-TAAATATTAAAATAA
34942485 CCATCACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.12
21 16 0.50
22 8 0.25
23 4 0.12
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAAATATTAAAATAAAA
Found at i:34942464 original size:19 final size:17
Alignment explanation
Indices: 34942436--34942481 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
34942426 ATAATTATTA
*
34942436 AAAATAAAAAAATAAATCT
1 AAAATTAAAAAAT-AA-CT
*
34942455 TAAATTAAAAAATAACT
1 AAAATTAAAAAATAACT
34942472 AAAATTAAAA
1 AAAATTAAAA
34942482 TAACCATCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 2 0.08
19 11 0.46
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTAAAAAATAACT
Found at i:34942780 original size:13 final size:13
Alignment explanation
Indices: 34942737--34942781 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
34942727 ACTAGTTGTT
34942737 ATAA-TTTTTA-A
1 ATAATTTTTTATA
34942748 ATAATTTTTTAT-
1 ATAATTTTTTATA
34942760 ATCAATTTTTTATA
1 AT-AATTTTTTATA
*
34942774 ATTATTTT
1 ATAATTTT
34942782 AAAAAAACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 4 0.14
12 8 0.28
13 15 0.52
14 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
ATAATTTTTTATA
Found at i:34944512 original size:6 final size:6
Alignment explanation
Indices: 34944498--34944530 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
34944488 TCTTTTAATA
*
34944498 TTTAGC TTTACC TTTAGC TTTAGC TTTAGC TTT
1 TTTAGC TTTAGC TTTAGC TTTAGC TTTAGC TTT
34944531 GGCTCTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.55
Consensus pattern (6 bp):
TTTAGC
Found at i:34949452 original size:18 final size:18
Alignment explanation
Indices: 34949429--34949466 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
34949419 TATATTAAAA
34949429 TATAAAT-TTTAGAATTTT
1 TATAAATATTT-GAATTTT
34949447 TATAAATACTTTGAATTTT
1 TATAAATA-TTTGAATTTT
34949466 T
1 T
34949467 TTGTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTGAATTTT
Found at i:34957522 original size:18 final size:17
Alignment explanation
Indices: 34957510--34957542 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34957500 ATAATTATTA
34957510 AGGA-TTATTTAATTTT
1 AGGATTTATTTAATTTT
34957526 AGGATTTTATTTAATTT
1 AGGA-TTTATTTAATTT
34957543 ATCTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
AGGATTTATTTAATTTT
Found at i:34963746 original size:5 final size:5
Alignment explanation
Indices: 34963732--34963785 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
34963722 GTAACCCAAT
* *
34963732 TTTTA TTTTTA TTTTA TTTTA TTTTA -TTTA CTTTA TTTATTA CTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA
34963779 TTTTA TT
1 TTTTA TT
34963786 ATTTATTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
4 4 0.10
5 28 0.67
6 7 0.17
7 3 0.07
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:34963753 original size:16 final size:16
Alignment explanation
Indices: 34963732--34963792 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
34963722 GTAACCCAAT
34963732 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
34963748 TTTTA-TTTTA-TTTA
1 TTTTATTTTTATTTTA
* *
34963762 CTTTATTTATTACTTTA
1 TTTTATTT-TTATTTTA
34963779 TTTTATTATTTATT
1 TTTTATT-TTTATT
34963793 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.21
15 7 0.18
16 8 0.21
17 14 0.37
18 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:34963766 original size:9 final size:9
Alignment explanation
Indices: 34963739--34963789 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
34963729 AATTTTTATT
34963739 TTTATTTTA
1 TTTATTTTA
34963748 TTTTATTTTA
1 -TTTATTTTA
*
34963758 TTTACTTTA
1 TTTATTTTA
34963767 TTTA--TTA
1 TTTATTTTA
34963774 CTTTATTTTA
1 -TTTATTTTA
34963784 -TTATTT
1 TTTATTT
34963790 ATTACTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
7 3 0.08
8 10 0.27
9 12 0.32
10 12 0.32
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:34963776 original size:12 final size:13
Alignment explanation
Indices: 34963749--34963792 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
34963739 TTTATTTTAT
34963749 TTTATTTTATTTAC
1 TTTATTTTA-TTAC
34963763 TTTA-TTTATTAC
1 TTTATTTTATTAC
34963775 TTTATTTTATTA-
1 TTTATTTTATTAC
34963787 TTTATT
1 TTTATT
34963793 ACTTATTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.48
13 11 0.38
14 4 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTAC
Found at i:34963996 original size:22 final size:21
Alignment explanation
Indices: 34963947--34964006 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
34963937 GTGCAGAATG
* *
34963947 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
34963969 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
34963991 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
34964007 ACTCCTCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:34965105 original size:101 final size:100
Alignment explanation
Indices: 34964915--34965103 Score: 227
Period size: 101 Copynumber: 1.8 Consensus size: 100
34964905 AAGAACATGT
* * * * *
34964915 TGGGCTGAGTAACTGGGGTGTGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTAGATATG
* *
34964980 TTCTTAAGAAAAAATTATAATAAATTAGAAGTCTGC
66 TCCTAAAGAAAAAA-TATAATAAATTAGAAGTCTGC
* * *
34965016 TGGGCTTAGTAACCGAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTAGTATA
1 TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGG-TTAG-ATA
34965081 T-TCCTAAAGCATAAAAAATATAA
64 TGTCCTAAAG---AAAAAATATAA
34965104 ATAATAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
101 50 0.68
102 9 0.12
103 3 0.04
104 5 0.07
105 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (100 bp):
TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTAGATATG
TCCTAAAGAAAAAATATAATAAATTAGAAGTCTGC
Found at i:34965114 original size:20 final size:19
Alignment explanation
Indices: 34965091--34965164 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
34965081 TTCCTAAAGC
*
34965091 ATAAAAAATATAAATAATAA
1 ATAAAAAAAATAAA-AATAA
*
34965111 ATAAATAAAAATCAAAATAA
1 ATAAA-AAAAATAAAAATAA
*
34965131 ATAAAAAAGAA-AAAAAGAA
1 ATAAAAAA-AATAAAAATAA
* *
34965150 A-AAGAAAAAGAAAAA
1 ATAAAAAAAATAAAAA
34965165 GAAAAAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.04
18 10 0.22
19 10 0.22
20 17 0.37
21 7 0.15
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (19 bp):
ATAAAAAAAATAAAAATAA
Found at i:34965120 original size:23 final size:23
Alignment explanation
Indices: 34965094--34965144 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
34965084 CTAAAGCATA
*
34965094 AAAAAT-ATAAAT-AATAAATAAAT
1 AAAAATCA-AAATAAATAAA-AAAG
34965117 AAAAATCAAAATAAATAAAAAAG
1 AAAAATCAAAATAAATAAAAAAG
34965140 AAAAA
1 AAAAA
34965145 AAGAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAAATCAAAATAAATAAAAAAG
Found at i:34965143 original size:16 final size:16
Alignment explanation
Indices: 34965109--34965157 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
34965099 TATAAATAAT
**
34965109 AAATAAATAAAAATCA
1 AAATAAATAAAAAAGA
34965125 AAATAAATAAAAAAGA
1 AAATAAATAAAAAAGA
*
34965141 AAA-AAA-GAAAAAGA
1 AAATAAATAAAAAAGA
34965155 AAA
1 AAA
34965158 AGAAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 10 0.33
15 3 0.10
16 17 0.57
ACGTcount: A:0.82, C:0.02, G:0.06, T:0.10
Consensus pattern (16 bp):
AAATAAATAAAAAAGA
Found at i:34965171 original size:6 final size:6
Alignment explanation
Indices: 34965142--34965173 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34965132 TAAAAAAGAA
34965142 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
34965174 TATAATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:34965752 original size:15 final size:15
Alignment explanation
Indices: 34965727--34965761 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34965717 AACTCTATTT
*
34965727 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
34965741 TAATTAATATTAAGA
1 TAATTAATATTAAGA
34965756 TAATTA
1 TAATTA
34965762 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:34969129 original size:79 final size:79
Alignment explanation
Indices: 34968974--34969122 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
34968964 TTAACAACAG
* * * * *
34968974 AAATCGAATAAATCTTGTTGAACGATAGGAATAGAATCCTGAAACAGAATTGTTGAATTGATTTC
1 AAATCGAACAAAACCTGTTGAACGACAGGAATAGAATCCTGAAACAGAATTGTTCAATTGATTTC
34969039 TGTTTGAAAACAAA
66 TGTTTGAAAACAAA
*
34969053 AAATCGAACAAAACCTGTTGAACGACAGGAATA-AGATCTTGAAACAGAATTGTTCAATTGATTT
1 AAATCGAACAAAACCTGTTGAACGACAGGAATAGA-ATCCTGAAACAGAATTGTTCAATTGATTT
34969117 CTGTTT
65 CTGTTT
34969123 ACAAACAGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.02
79 62 0.98
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (79 bp):
AAATCGAACAAAACCTGTTGAACGACAGGAATAGAATCCTGAAACAGAATTGTTCAATTGATTTC
TGTTTGAAAACAAA
Found at i:34969691 original size:25 final size:24
Alignment explanation
Indices: 34969655--34969713 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
34969645 TTTGACTAAT
*
34969655 GGAGCCAATAACATCCGTGAATT-AA
1 GGAGCCATTAACAT-C-TGAATTAAA
*
34969680 GGAGCCATTAACGTCTGAATTAAA
1 GGAGCCATTAACATCTGAATTAAA
34969704 GGAGCCATTA
1 GGAGCCATTA
34969714 GCCTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 6 0.19
24 13 0.42
25 12 0.39
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
GGAGCCATTAACATCTGAATTAAA
Found at i:34971900 original size:51 final size:52
Alignment explanation
Indices: 34971840--34971943 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
34971830 TTTTTTAAAA
*
34971840 AGATGTTTTGTGC-TTTTTTATCTATTTATTCATACAAACAAAATCATAATT
1 AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
*
34971891 AGATGTTTTGTGCTTTTTTTATCTATTTCTTCATACAAACAAAATCACAATT
1 AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
34971943 A
1 A
34971944 AGTTTTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 13 0.26
52 37 0.74
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (52 bp):
AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
Found at i:34971964 original size:52 final size:52
Alignment explanation
Indices: 34971840--34971964 Score: 148
Period size: 52 Copynumber: 2.4 Consensus size: 52
34971830 TTTTTTAAAA
** *
34971840 AGATGTTTTGTGC-TTTTTTATCTATTTATTCATACAAACAAAATCATAATT
1 AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
* ** *
34971891 AGATGTTTTGTGCTTTTTTTATCTATTTCTTCATACAAACAAAATCACAATT
1 AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
34971943 A-A-GTTTTTGTTGCATGATTTAT
1 AGATG-TTTTG-TGCATGATTTAT
34971965 GTGAATGAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
50 1 0.02
51 19 0.29
52 46 0.70
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (52 bp):
AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
Found at i:34982094 original size:22 final size:24
Alignment explanation
Indices: 34982044--34982094 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
34982034 TTGCAATGCT
34982044 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
34982069 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
34982090 TTTAT
1 TTTAT
34982095 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:34982306 original size:34 final size:35
Alignment explanation
Indices: 34982252--34982318 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
34982242 CAAACACCAG
*
34982252 AAAATATTTTCCAGTAAATCATTGTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
* * *
34982287 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAA
34982319 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
Found at i:34984686 original size:26 final size:26
Alignment explanation
Indices: 34984655--34984711 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
34984645 CCCTTTGGAG
*
34984655 AGAACCCGAAAAGTTAGAGTGGAGAA
1 AGAACCCGAAAAGTTAGAGCGGAGAA
*
34984681 AGAACCCGAAGAGTTAGAGCGGAGAA
1 AGAACCCGAAAAGTTAGAGCGGAGAA
34984707 AGAAC
1 AGAAC
34984712 AAGGATTCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.32, T:0.09
Consensus pattern (26 bp):
AGAACCCGAAAAGTTAGAGCGGAGAA
Found at i:34991474 original size:17 final size:18
Alignment explanation
Indices: 34991439--34991474 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34991429 CCATATGGTT
*
34991439 CACTCGTGTGGGTCCATA
1 CACTCGTGTGGGCCCATA
34991457 CACTCGTGT-GGCCCATA
1 CACTCGTGTGGGCCCATA
34991474 C
1 C
34991475 GGCCTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (18 bp):
CACTCGTGTGGGCCCATA
Found at i:34994745 original size:19 final size:19
Alignment explanation
Indices: 34994723--34994783 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
34994713 CACTCCAAAC
34994723 ATTAAAAGAAATATATACA
1 ATTAAAAGAAATATATACA
*
34994742 ATT--AAGAAATAAAATTAC-
1 ATTAAAAGAAAT-ATA-TACA
*
34994760 ATTAAAATAAATATATACA
1 ATTAAAAGAAATATATACA
34994779 ATTAA
1 ATTAA
34994784 GAAATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 13 0.38
20 6 0.18
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
ATTAAAAGAAATATATACA
Found at i:34994750 original size:17 final size:17
Alignment explanation
Indices: 34994728--34994789 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
34994718 CAAACATTAA
34994728 AAGAAATATATACAATT
1 AAGAAATATATACAATT
*
34994745 AAGAAATAAAATTAC-ATT
1 AAGAAAT-ATA-TACAATT
*
34994763 AAAATAAATATATACAATT
1 --AAGAAATATATACAATT
34994782 AAGAAATA
1 AAGAAATA
34994790 AAATTAAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 14 0.39
18 8 0.22
19 8 0.22
20 6 0.17
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
AAGAAATATATACAATT
Found at i:34994772 original size:37 final size:37
Alignment explanation
Indices: 34994721--34994795 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
34994711 GACACTCCAA
34994721 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
1 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
*
34994758 ACATTAAAATAAATATATACAATTAAGAAATAAAATT
1 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
34994795 A
1 A
34994796 AGCAAGCCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (37 bp):
ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
Found at i:34995622 original size:28 final size:28
Alignment explanation
Indices: 34995582--34995775 Score: 196
Period size: 28 Copynumber: 7.0 Consensus size: 28
34995572 AGTCGTGTGT
* **
34995582 CCACTGTTTTTCAAAACTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
34995610 CCACAGTTTTTCAAATTTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
* *
34995638 CCACAATTTTTCAGATTTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
** * *
34995666 CCATTGCTTTTCAAATTTT-CAAATTTTA
1 CCACAGTTTTTCAAATTTTAC-AATTTTG
* * * *
34995694 CCACTG-TTTTGAGATTTTACAGTTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
* * *
34995721 CCACAATTTTTCAGATTTTACAGTTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
*
34995749 CCAC-GATTTTTCAGATTTTACAATTTT
1 CCACAG-TTTTTCAAATTTTACAATTTT
34995776 CCTCTATTTT
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 20 0.14
28 121 0.86
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
CCACAGTTTTTCAAATTTTACAATTTTG
Found at i:34995794 original size:83 final size:83
Alignment explanation
Indices: 34995589--34995803 Score: 240
Period size: 83 Copynumber: 2.6 Consensus size: 83
34995579 TGTCCACTGT
** * *
34995589 TTTTCAAAACTTACAATTTTGCCAC-AGTTTTTCAAATTTTACAATTTTGCCACAATTTTTCAGA
1 TTTTCAAATTTTACAATTTTACCACTA--TTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGA
*
34995653 TTTTACAATTTTGCCATTGC
64 TTTTACAATTTTGCCATCGC
* * *
34995673 TTTTCAAATTTT-CAAATTTTACCACTGTTTTGAGATTTTACAGTTTTGCCACAATTTTTCAGAT
1 TTTTCAAATTTTAC-AATTTTACCACTATTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGAT
* *
34995737 TTTACAGTTTTGCCA-CGAT
65 TTTACAATTTTGCCATCG-C
* * *
34995756 TTTTCAGATTTTACAATTTT-CCTCTATTTTACAAATTTTATAGTTTTG
1 TTTTCAAATTTTACAATTTTACCACTATTTT-CAAATTTTACAGTTTTG
34995804 ACCTAAGATT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
82 9 0.08
83 80 0.73
84 21 0.19
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (83 bp):
TTTTCAAATTTTACAATTTTACCACTATTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGATT
TTACAATTTTGCCATCGC
Found at i:34995803 original size:55 final size:55
Alignment explanation
Indices: 34995599--34995795 Score: 222
Period size: 55 Copynumber: 3.6 Consensus size: 55
34995589 TTTTCAAAAC
34995599 TTACAATTTTGCCAC-AGTTTTTCAAATTTTACAATTTTGCCACAATTTTTCAGATT
1 TTACAATTTTGCCACTA-TTTTTCAAATTTTACAATTTTGCCAC-ATTTTTCAGATT
* ** * *
34995655 TTACAATTTTGCCATTGCTTTTCAAATTTT-CAAATTTTACCAC-TGTTTTGAGATT
1 TTACAATTTTGCCACTATTTTTCAAATTTTAC-AATTTTGCCACAT-TTTTCAGATT
* * * *
34995710 TTACAGTTTTGCCACAATTTTTCAGATTTTACAGTTTTGCCACGATTTTTCAGATT
1 TTACAATTTTGCCACTATTTTTCAAATTTTACAATTTTGCCAC-ATTTTTCAGATT
* *
34995766 TTACAATTTT-CCTCTATTTTACAAATTTTA
1 TTACAATTTTGCCACTATTTTTCAAATTTTA
34995796 TAGTTTTGAC
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
54 1 0.01
55 59 0.51
56 55 0.47
57 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.48
Consensus pattern (55 bp):
TTACAATTTTGCCACTATTTTTCAAATTTTACAATTTTGCCACATTTTTCAGATT
Found at i:34996211 original size:21 final size:21
Alignment explanation
Indices: 34996187--34996252 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
34996177 AGTTTATTTG
34996187 CATCGTTTAGTGGTTTATCCA
1 CATCGTTTAGTGGTTTATCCA
* ***
34996208 CATCATTTGAGCAATTTA-CCTA
1 CATCGTTT-AGTGGTTTATCC-A
* *
34996230 CACCGTTGAGTGGTTTATCCA
1 CATCGTTTAGTGGTTTATCCA
34996251 CA
1 CA
34996253 CCTTATTAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
CATCGTTTAGTGGTTTATCCA
Found at i:35008486 original size:12 final size:13
Alignment explanation
Indices: 35008462--35008490 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35008452 GAGTTATAAC
35008462 TATTGCATTTATT
1 TATTGCATTTATT
35008475 TATTGC-TTTATT
1 TATTGCATTTATT
35008487 TATT
1 TATT
35008491 CATATATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:35015077 original size:31 final size:30
Alignment explanation
Indices: 35015042--35015100 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
35015032 TTTAAAAAAA
*
35015042 ATACATGGAAATG-ATTTTACATGATATATAG
1 ATACAT-GAAATGAATGTTACATG-TATATAG
*
35015073 ATACATGATATGAATGTTACATGTATAT
1 ATACATGAAATGAATGTTACATGTATAT
35015101 GGAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (30 bp):
ATACATGAAATGAATGTTACATGTATATAG
Found at i:35019819 original size:3 final size:3
Alignment explanation
Indices: 35019806--35019872 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
35019796 ATTTAGTCTT
* * *
35019806 TTA TTA TTTA TTA TTA TTA -AA TT- TTA TT- TTC TTG TTA TTAA GTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
35019851 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
35019873 ACATACGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 5 0.09
3 42 0.78
4 5 0.09
5 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:35020016 original size:17 final size:17
Alignment explanation
Indices: 35019985--35020028 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
35019975 CATAACTTTT
*
35019985 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
35020001 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
35020018 ATATACATTTT
1 ATATACATTTT
35020029 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:35025228 original size:14 final size:15
Alignment explanation
Indices: 35025202--35025234 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35025192 TTCCAAGCTG
35025202 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
35025217 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
35025231 GGAA
1 GGAA
35025235 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:35026727 original size:88 final size:88
Alignment explanation
Indices: 35026575--35027310 Score: 791
Period size: 88 Copynumber: 8.4 Consensus size: 88
35026565 AGAACAGATC
* * * * * *
35026575 ATTGAAGATAGCAGATCTTGTCTTCCTGTAC-CAGTAGCGAAGCAGACCAAAGACACCAGCCTTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAGCCTTG
* * *
35026639 CCTCCCTGGGTTACAGCGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * *
35026663 GTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGTCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
35026728 CTCCCTAGGTTGCAGTGGAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * *
35026751 ACT-AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTG
1 ATTGAAAA-TAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
35026815 CCTCCCTAGGTTGCATTGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * * *
35026839 ACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC-AAGGGCACCAGCCTTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAA-GACACCAGCCTTG
* *
35026903 CC-CCCTGGGTTGCAGCGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * * * * *
35026926 GTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTAGATCGAAGACACCAGTCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
35026991 CTCCCAAGGTTGCAGTAGAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * * ** *
35027014 ACTGAAGATAGTAGATCTTGCCTTCCTGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
35027079 CTCCCT-GGATTGCAGCGGAGTAG
66 CTCCCTAGG-TTGCAGTGGAGCAG
* * * * *** ** *
35027102 GTTGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTAC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
35027167 CTCTCTAGGTTGCAGTGTAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * * * * * *
35027190 ACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGCAGATCGAAAACTCCAGCCTTGT
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
** *
35027255 CTCCCT-GAGCAGCAGTGGAGTAG
66 CTCCCTAG-GTTGCAGTGGAGCAG
* * *
35027278 GTTAAAAATAGCAGATCTTGCCTTCCTATACTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
35027311 GTAGTGAAGT
Statistics
Matches: 533, Mismatches: 106, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
87 80 0.15
88 447 0.84
89 6 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
CTCCCTAGGTTGCAGTGGAGCAG
Found at i:35026846 original size:43 final size:44
Alignment explanation
Indices: 35026703--35026861 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 44
35026693 CTGACAGCGA
* *
35026703 AGCAGATCGAAGACACTAG-TCTTGCCTCCCTAGGTTGCAGTGG
1 AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
* * * ** * *
35026746 AGCAGA-CTAAAAGTAGTAGATCTTGCCTTCCT--GTACTG-ATAGCG
1 AGCAGATCGAAGA-CACCAGATCTTGCCTCCCTAGGT--TGCATTG-G
35026790 AAGCAGATCGAAGACACCAG-TCTTGCCTCCCTAGGTTGCATTGG
1 -AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
* *
35026834 AGCAGA-CTGAAGATAGCAGATCTTGCCT
1 AGCAGATC-GAAGACACCAGATCTTGCCT
35026862 TCCTGTACCG
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
42 7 0.08
43 27 0.31
44 36 0.41
45 12 0.14
46 6 0.07
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
Found at i:35026881 original size:176 final size:175
Alignment explanation
Indices: 35026576--35027340 Score: 890
Period size: 176 Copynumber: 4.4 Consensus size: 175
35026566 GAACAGATCA
* * * * * *
35026576 TTGAAGATAGCAGATCTTGTCTTCCTGTAC-CAGTAGCGAAGCAGACCAAAGACACCAGCCTTGC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGA-TAGCGAAGCAGATCGAAGACACCAGTCTTGC
* * * ** * *
35026640 CTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAG
65 CTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
* * * *
35026705 CAGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGA
130 CAGATCGAAGACACCAGCCTTGCCTCCCT-GGTTGCAGCGGAGCAGG
* *
35026752 CT-AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGC
1 TTGAAAA-TAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGC
*
35026816 CTCCCTAGGTTGCATTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
65 CTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
*
35026881 CAGATC-AAGGGCACCAGCCTTGCC-CCCTGGGTTGCAGCGGAGCAGG
130 CAGATCGAA-GACACCAGCCTTGCCTCCCT-GGTTGCAGCGGAGCAGG
* * * * *
35026927 TTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTAGATCGAAGACACCAGTCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * * **
35026992 TCCCAAGGTTGCAGTAGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACCGGTAGCGAAGC
66 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* *
35027057 AGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAGTAGG
131 AGATCGAAGACACCAGCCTTGCCTCCCTGG-TTGCAGCGGAGCAGG
* * * * *** * *
35027103 TTGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTACC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * * *
35027168 TCTCTAGGTTGCAGTGTAGCAGACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGC
66 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* * * ** * *
35027233 AGATCGAAAACTCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGG
131 AGATCGAAGACACCAGCCTTGCCTCCCTG-GTTGCAGCGGAGCAGG
* * * * * * * *
35027279 TTAAAAATAGCAGATCTTGCCTTCCTATACTGGTAGTGAAGTAGATTGAAGAAATCAGTCTT
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTT
35027341 ATTTCCTTGA
Statistics
Matches: 507, Mismatches: 74, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
175 157 0.31
176 348 0.69
177 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (175 bp):
TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
AGATCGAAGACACCAGCCTTGCCTCCCTGGTTGCAGCGGAGCAGG
Found at i:35027054 original size:263 final size:264
Alignment explanation
Indices: 35026577--35027148 Score: 846
Period size: 263 Copynumber: 2.2 Consensus size: 264
35026567 AACAGATCAT
* * *
35026577 TGAAGATAGCAGATCTTGTCTTCCTGTACC-AGTAGCGAAGCAGACCAAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGA-CAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* * *
35026641 TCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
65 TCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGC
* * *
35026706 AGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGACTAAAAGTAGTAGATCTTG
130 AGATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAGTAGTAGATCTTG
* * * **
35026771 CCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGG-TTGCATTGGA
195 CCTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT-GGATTGCAGCGGA
35026835 GCAGAC
259 GCAGAC
* *
35026841 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAGGGCACCAGCCTTGCC-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* *
35026905 CCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTA
66 CCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGCA
*
35026970 GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACT-GAAGATAGTAGATCTTG
131 GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAG-TAGTAGATCTTG
*
35027034 CCTTCCTGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAG
195 CCTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAG
* **
35027099 TAGGT
260 CAGAC
* * * *
35027104 TGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGAT
35027149 TGAAGGTGCC
Statistics
Matches: 278, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
262 5 0.02
263 215 0.77
264 57 0.21
265 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (264 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGCA
GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAGTAGTAGATCTTGC
CTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAGC
AGAC
Found at i:35027230 original size:351 final size:352
Alignment explanation
Indices: 35026624--35027310 Score: 923
Period size: 351 Copynumber: 2.0 Consensus size: 352
35026614 AAGCAGACCA
** * **
35026624 AAGACACCAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
1 AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
* * * * *
35026689 TGTACTGACAGCGAAGCAGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGACT
66 TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGACT
* *
35026754 AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCCTC
131 AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACCTC
*
35026819 CCTAGGTTGCATTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
196 CCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
** * ** *
35026884 ATC-AAGGGCACCAGCCTTG-CCCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGC
261 ATCGAA-AACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGC
35026947 CTTCATATACTGACACCGAAGTAGATCG
325 CTTCATATACTGACACCGAAGTAGATCG
* * * * *
35026975 AAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTGAAGATAGTAGATCTTGCCTTCC
1 AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
** * **
35027040 TGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT-GGATTGCAGCGGAGTAGGT
66 TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGG-TTGCAGCGGAGCAGAC
* * *** *
35027104 TGAAAA-TAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTACC
130 T-AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACC
* * * *
35027168 TCTCTAGGTTGCAGTGTAGCAGACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGC
194 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* * * *
35027233 AGATCGAAAACTCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTG
259 AGATCGAAAACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
*
35027298 CCTTCCTATACTG
324 CCTTCATATACTG
35027311 GTAGTGAAGT
Statistics
Matches: 288, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
350 2 0.01
351 232 0.81
352 54 0.19
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (352 bp):
AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGACT
AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACCTC
CCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
ATCGAAAACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCC
TTCATATACTGACACCGAAGTAGATCG
Done.