Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 93 of 167
Found at i:30863030 original size:65 final size:65
Alignment explanation
Indices: 30862942--30863079 Score: 177
Period size: 65 Copynumber: 2.1 Consensus size: 65
30862932 AAAAGTTAGT
* * ** * *
30862942 TTTAGGGTTTGGGGTTTTAGGATTGGGGTTTAAGGGTTGGAGTTTTAAAGGTTTATGATTTGAGA
1 TTTAGGGTTTAGGGTGTTAGGATTAAGGTTTAACGGTTAGAGTTTTAAAGGTTTATGATTTGAGA
* * * * *
30863007 TTTAGGGTTTAGGGTGTTGGGATTAAGGTTTATCGTTTATAGTTTTAAGGGTTTATGATTTGAGA
1 TTTAGGGTTTAGGGTGTTAGGATTAAGGTTTAACGGTTAGAGTTTTAAAGGTTTATGATTTGAGA
30863072 TTTAGGGT
1 TTTAGGGT
30863080 CTGGCGTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (65 bp):
TTTAGGGTTTAGGGTGTTAGGATTAAGGTTTAACGGTTAGAGTTTTAAAGGTTTATGATTTGAGA
Found at i:30863075 original size:22 final size:22
Alignment explanation
Indices: 30862985--30863079 Score: 74
Period size: 21 Copynumber: 4.4 Consensus size: 22
30862975 GGGTTGGAGT
*
30862985 TTTAAAGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
30863007 TTT-AGGGTTTAGGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
30863029 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
30863050 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
30863072 TTT-AGGGT
1 TTTAAGGGT
30863080 CTGGCGTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
20 2 0.04
21 24 0.43
22 20 0.36
23 10 0.18
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:30863878 original size:40 final size:40
Alignment explanation
Indices: 30863841--30864052 Score: 318
Period size: 40 Copynumber: 5.3 Consensus size: 40
30863831 TAAAAAAGCA
* **
30863841 CCGCTAATGCTCAATCTTTAGCGGTGCTTTCTTAAAAGCG
1 CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAATG
* *
30863881 CCGCTAGTGCTCAGATCTTTAGCGACGCTTTCTTAAAAATG
1 CCGCTAATGCTCA-ATCTTTAGCGGCGCTTTCTTAAAAATG
*
30863922 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATG
1 CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAATG
*
30863962 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATG
1 CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAATG
* *
30864002 CCACTAATGCTCAGATCTTTAGCAGCGCTTTCTTAAAAATG
1 CCGCTAATGCTCA-ATCTTTAGCGGCGCTTTCTTAAAAATG
30864043 CC-CTAATGCT
1 CCGCTAATGCT
30864053 TGATCTTAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
40 97 0.61
41 62 0.39
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (40 bp):
CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAATG
Found at i:30863951 original size:81 final size:80
Alignment explanation
Indices: 30863841--30864059 Score: 323
Period size: 81 Copynumber: 2.7 Consensus size: 80
30863831 TAAAAAAGCA
* * * *
30863841 CCGCTAATGCTCAATCTTTAGCGGTGCTTTCTTAAAAGCGCCGCTAGTGCTCAGATCTTTAGCGA
1 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATCTTTAGCGA
30863906 CGCTTTCTTAAAAATG
65 CGCTTTCTTAAAAATG
* *
30863922 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATGCCGCTAATGCTCGATCTTTAGCGGC
1 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGCGAC
30863987 GCTTTCTTAAAAATG
66 GCTTTCTTAAAAATG
* * * *
30864002 CCACTAATGCTCAGATCTTTAGCAGCGCTTTCTTAAAAATGCC-CTAATGCTTGATCTT
1 CCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTT
30864060 AAAAACGCCG
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
80 52 0.41
81 76 0.59
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (80 bp):
CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATCTTTAGCGAC
GCTTTCTTAAAAATG
Found at i:30864031 original size:121 final size:120
Alignment explanation
Indices: 30863841--30864059 Score: 350
Period size: 121 Copynumber: 1.8 Consensus size: 120
30863831 TAAAAAAGCA
* * * *
30863841 CCGCTAATGCTCAATCTTTAGCGGTGCTTTCTTAAAAGCGCCGCTAGTGCTCAGATCTTTAGCGA
1 CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAACGCCACTAATGCTCAGATCTTTAGCGA
30863906 CGCTTTCTTAAAAATGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATG
66 CGCTTTCTTAAAAATGCC-CTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATG
* *
30863962 CCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATGCCACTAATGCTCAGATCTTTAGC-A
1 CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAACGCCACTAATGCTCAGATCTTTAGCGA
*
30864026 GCGCTTTCTTAAAAATGCCCTAATGCTTGATCTT
66 -CGCTTTCTTAAAAATGCCCTAATGCTCGATCTT
30864060 AAAAACGCCG
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
120 15 0.17
121 75 0.83
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (120 bp):
CCGCTAATGCTCAATCTTTAGCGGCGCTTTCTTAAAAACGCCACTAATGCTCAGATCTTTAGCGA
CGCTTTCTTAAAAATGCCCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAATG
Found at i:30864083 original size:25 final size:24
Alignment explanation
Indices: 30864032--30864083 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
30864022 AGCAGCGCTT
* * **
30864032 TCTTAAAAATGCCCTAATGCTTGA
1 TCTTAAAAACGCCCTAATACTCAA
30864056 TCTTAAAAACGCCGCTAATACTCAA
1 TCTTAAAAACGCC-CTAATACTCAA
30864081 TCT
1 TCT
30864084 ATTCGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.31
Consensus pattern (24 bp):
TCTTAAAAACGCCCTAATACTCAA
Found at i:30866199 original size:27 final size:27
Alignment explanation
Indices: 30866159--30866296 Score: 183
Period size: 27 Copynumber: 5.1 Consensus size: 27
30866149 AGGAAGCGTC
*
30866159 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTATGCCACATATATCTGAT
*
30866186 CTGGTGGCTCTGCCACATATATCT-AT
1 CTGGTGGCTATGCCACATATATCTGAT
*
30866212 CCTGGTGGCTATACCACA-ATTATCTGAT
1 -CTGGTGGCTATGCCACATA-TATCTGAT
*
30866240 CTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACATATATCTGAT
30866266 CCTGGTGGCTATGCCACATATATCTGTAT
1 -CTGGTGGCTATGCCACATATATCTG-AT
30866295 CT
1 CT
30866297 AGTGACTTCA
Statistics
Matches: 97, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.04
27 87 0.90
28 5 0.05
29 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:30866239 original size:54 final size:54
Alignment explanation
Indices: 30866157--30866296 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
30866147 AGAGGAAGCG
*
30866157 TCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTA
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
* * *
30866211 TCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
30866265 TCCTGGTGGCTATGCCAC-ATATATCTGTATCT
1 TCCTGGTGGCTATGCCACAAT-TATCTG-ATCT
30866297 AGTGACTTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 2 0.03
54 73 0.92
55 4 0.05
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
Found at i:30866316 original size:54 final size:52
Alignment explanation
Indices: 30866156--30866318 Score: 188
Period size: 54 Copynumber: 3.0 Consensus size: 52
30866146 TAGAGGAAGC
30866156 GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGC-TCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTTCT--CACATATATCT
* *
30866210 ATCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTT-TGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTTCT--CACATATATCT
* *
30866264 GTCCTGGTGGCTATGCCACATATATCTGTATCTAGTGACTTCATCACA-ATATCT
1 GTCCTGGTGGCTATGCCACA-ATATCTG-ATCTGGTGGCTTC-TCACATATATCT
30866318 G
1 G
30866319 GCAGCCTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
53 2 0.02
54 78 0.80
55 16 0.16
57 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (52 bp):
GTCCTGGTGGCTATGCCACAATATCTGATCTGGTGGCTTCTCACATATATCT
Found at i:30869110 original size:21 final size:20
Alignment explanation
Indices: 30869085--30869132 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
30869075 GTATGTTTGT
*
30869085 ATTTATTTTATATTTTTATTG
1 ATTTATTTT-TATTTTTAATG
*
30869106 ATTTATAATTTATTTTTAATG
1 ATTTAT-TTTTATTTTTAATG
30869127 -TTTATT
1 ATTTATT
30869133 GAAGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTATTTTTATTTTTAATG
Found at i:30869871 original size:3 final size:3
Alignment explanation
Indices: 30869863--30869888 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30869853 CTTGCCGCCC
30869863 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
30869889 CATCGCAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:30870029 original size:24 final size:25
Alignment explanation
Indices: 30869993--30870049 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
30869983 TGTCAAATCC
30869993 TTTTTTT-TAAACAGATTTGTG-TT
1 TTTTTTTGTAAACAGATTTGTGCTT
*
30870016 TTTTTTTGTCAACAGATTTGTGCTT
1 TTTTTTTGTAAACAGATTTGTGCTT
30870041 TTTTTTTGT
1 TTTTTTTGT
30870050 TAAAAGACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 7 0.23
24 13 0.42
25 11 0.35
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.63
Consensus pattern (25 bp):
TTTTTTTGTAAACAGATTTGTGCTT
Found at i:30877337 original size:42 final size:43
Alignment explanation
Indices: 30877278--30877393 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
30877268 TAATGCCAAC
* * *
30877278 GTCCCAGACGTGGTCTTACATGT-AA-TCAGATACGATGC-TGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCTTG-T
30877320 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCTTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCTTGT
*
30877364 GTCCCAGACACGGTCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
30877394 GATTAGTACC
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 21 0.32
43 7 0.11
44 30 0.46
45 7 0.11
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCTTGT
Found at i:30881686 original size:22 final size:22
Alignment explanation
Indices: 30881653--30881704 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
30881643 ATTAAATTCT
* *
30881653 TCAAAAGG-CAATTGCATCAAA
1 TCAACAGGACAATAGCATCAAA
* *
30881674 TCAGCAGGACAATAGCATCAGA
1 TCAACAGGACAATAGCATCAAA
30881696 TCAACAGGA
1 TCAACAGGA
30881705 AACCAGGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.15
Consensus pattern (22 bp):
TCAACAGGACAATAGCATCAAA
Found at i:30884345 original size:42 final size:43
Alignment explanation
Indices: 30884286--30884401 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
30884276 TAATGCCAAC
* * *
30884286 GTCCCAGACGTGGTCTTACATGT-AA-TCAGATACGATGC-TGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCTTG-T
30884328 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCTTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCTTGT
*
30884372 GTCCCAGACACGGTCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
30884402 GATTAGTACC
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 21 0.32
43 7 0.11
44 30 0.46
45 7 0.11
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCTTGT
Found at i:30886074 original size:25 final size:24
Alignment explanation
Indices: 30886035--30886093 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
30886025 TAATTTAGCC
* *
30886035 ATTTTTATTTTATTTTATTTTTAT
1 ATTTTTATTTTATTTAAATTTTAT
*
30886059 ATTTTTGTTTTAATTTAAATTTTAT
1 ATTTTTATTTT-ATTTAAATTTTAT
30886084 A-TTTTATTTT
1 ATTTTTATTTT
30886094 TTCTTCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
ATTTTTATTTTATTTAAATTTTAT
Found at i:30886094 original size:25 final size:24
Alignment explanation
Indices: 30886037--30886094 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
30886027 ATTTAGCCAT
* *
30886037 TTTTA-TTTTATTTTATTTTTATA
1 TTTTATTTTTATTTAAATTTTATA
30886060 TTTT-TGTTTTAATTTAAATTTTATA
1 TTTTAT-TTTT-ATTTAAATTTTATA
30886085 TTTTATTTTT
1 TTTTATTTTT
30886095 TCTTCTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 20 0.69
26 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTATTTAAATTTTATA
Found at i:30887928 original size:45 final size:45
Alignment explanation
Indices: 30887864--30887954 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
30887854 TTCTCTAAAA
*
30887864 TAAACTGCCCAACAAACTAGAAGATCCAGGGAGTTTTAATATTCT
1 TAAACTACCCAACAAACTAGAAGATCCAGGGAGTTTTAATATTCT
30887909 TAAACTACCCAACAAACTAGAAGATCCAGGGAGTTTTAATATTCT
1 TAAACTACCCAACAAACTAGAAGATCCAGGGAGTTTTAATATTCT
30887954 T
1 T
30887955 TGTCTCATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (45 bp):
TAAACTACCCAACAAACTAGAAGATCCAGGGAGTTTTAATATTCT
Found at i:30892678 original size:31 final size:31
Alignment explanation
Indices: 30892643--30892706 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
30892633 AATAATAAAG
30892643 AAAATTAAGGGGTTATAACTCGATTAGAAAC
1 AAAATTAAGGGGTTATAACTCGATTAGAAAC
30892674 AAAATTAAGGGGTTATAACTCGATTAGAAAC
1 AAAATTAAGGGGTTATAACTCGATTAGAAAC
30892705 AA
1 AA
30892707 TCATGAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAATTAAGGGGTTATAACTCGATTAGAAAC
Found at i:30892776 original size:26 final size:26
Alignment explanation
Indices: 30892721--30892816 Score: 60
Period size: 26 Copynumber: 3.8 Consensus size: 26
30892711 GAATCTTTCA
* * * *
30892721 AAAAATAATAATAATAAATTGAAGAG
1 AAAAATAATAATAAAAAACTGAAAAC
30892747 AAAAATAATAATAAAACAACT-AAAAC
1 AAAAATAATAATAAAA-AACTGAAAAC
*
30892773 -AAAATAA-AA-AATAAAGA-T-AAAAA
1 AAAAATAATAATAA-AAA-ACTGAAAAC
*
30892796 ATAAAATAATAATAATAAACT
1 A-AAAATAATAATAAAAAACT
30892817 CAATAATATC
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
23 8 0.14
24 5 0.09
25 15 0.27
26 23 0.41
27 5 0.09
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAAATAATAATAAAAAACTGAAAAC
Found at i:30892794 original size:13 final size:12
Alignment explanation
Indices: 30892768--30892814 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
30892758 TAAAACAACT
*
30892768 AAAACAAAATAA
1 AAAATAAAATAA
30892780 AAAATAAAGATAA
1 AAAATAAA-ATAA
30892793 AAAATAAAATAA
1 AAAATAAAATAA
30892805 TAATAATAAA
1 -AA-AATAAA
30892815 CTCAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.35
13 14 0.45
14 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:30892893 original size:21 final size:21
Alignment explanation
Indices: 30892867--30892917 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
30892857 TAGTAAAAAT
30892867 AAATAAAAAATACGAAAGAA-A
1 AAATAAAAAATA-GAAAGAAGA
*
30892888 AAATAAAAAATAGAAATAAGA
1 AAATAAAAAATAGAAAGAAGA
30892909 AAATAAAAA
1 AAATAAAAA
30892918 TAATAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
AAATAAAAAATAGAAAGAAGA
Found at i:30892895 original size:7 final size:7
Alignment explanation
Indices: 30892867--30892917 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
30892857 TAGTAAAAAT
30892867 AAATAAA
1 AAATAAA
**
30892874 AAATACG
1 AAATAAA
*
30892881 AAAGAAA
1 AAATAAA
30892888 AAATAAA
1 AAATAAA
*
30892895 AAAT-AG
1 AAATAAA
30892901 AAATAAGA
1 AAATAA-A
30892909 AAATAAA
1 AAATAAA
30892916 AA
1 AA
30892918 TAATAAAAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.15
7 23 0.68
8 6 0.18
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (7 bp):
AAATAAA
Found at i:30892911 original size:14 final size:13
Alignment explanation
Indices: 30892886--30892925 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
30892876 ATACGAAAGA
30892886 AAAAATAAAAAAT
1 AAAAATAAAAAAT
*
30892899 AGAAATAAGAAAAT
1 AAAAATAA-AAAAT
30892913 AAAAATAATAAAA
1 AAAAATAA-AAAA
30892926 GTATATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:30892933 original size:27 final size:26
Alignment explanation
Indices: 30892886--30892938 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
30892876 ATACGAAAGA
30892886 AAAAATAAAAAATAGAAATAAGAAAAT
1 AAAAATAAAAAATAGAAATAA-AAAAT
* *
30892913 AAAAATAATAAA-AGTATATAAAAAAT
1 AAAAATAAAAAATAG-AAATAAAAAAT
30892939 TAAGAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (26 bp):
AAAAATAAAAAATAGAAATAAAAAAT
Found at i:30896242 original size:6 final size:6
Alignment explanation
Indices: 30896230--30896277 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
30896220 AAAAATTAGT
* *
30896230 AATTAA AAATAA AATTAA AATTAA AATT-A AA-TAC AA-TAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
30896275 AAT
1 AAT
30896278 GGCTAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 1 0.03
5 9 0.25
6 26 0.72
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:30900172 original size:40 final size:40
Alignment explanation
Indices: 30900115--30900294 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
30900105 CCAGCATGAT
* * *
30900115 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
30900155 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * *
30900195 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
30900236 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
30900276 AGC-CTTCGGGACTTAGCCC
1 TGCTCTTCGGAACTTAGCCC
30900295 AGACATCATT
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 99 0.85
41 17 0.15
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:30900645 original size:29 final size:29
Alignment explanation
Indices: 30900611--30900683 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
30900601 AATCAACCAT
* *
30900611 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
30900640 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
30900669 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
30900684 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:30902631 original size:37 final size:37
Alignment explanation
Indices: 30902581--30902659 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30902571 TTATTACGAA
* * *
30902581 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
30902618 GTCTTACCTGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30902655 GTCTT
1 GTCTT
30902660 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30902856 original size:47 final size:47
Alignment explanation
Indices: 30902780--30902906 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
30902770 CTTCGGGACT
* * * * *
30902780 TATCACATTTATACACTTTCACACCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
30902827 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
*
30902874 TATCACATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
30902907 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:30906582 original size:40 final size:40
Alignment explanation
Indices: 30906538--30906725 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
30906528 GCTACTTGCT
30906538 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30906578 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30906618 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
30906658 CAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
30906697 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30906726 CATCCAAATA
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.02
39 32 0.23
40 100 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30906716 original size:119 final size:119
Alignment explanation
Indices: 30906505--30906725 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
30906495 AAACCAAGTA
* * * **
30906505 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGT
*
30906570 AACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
30906624 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATA-T
* *
30906686 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGAGACTTAGCCCGGTTAT
30906726 CATCCAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 60 0.67
120 29 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGT
AACTAGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:30918123 original size:25 final size:25
Alignment explanation
Indices: 30918095--30918151 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
30918085 TTCTCCTAAA
*
30918095 TTTTAATTTTATTTAATTATT-TAAT
1 TTTTAA-TTTATTGAATTATTATAAT
30918120 TTTTCAATTTATTGAATTATTAATAAT
1 TTTT-AATTTATTGAATTATT-ATAAT
30918147 TTTTA
1 TTTTA
30918152 TAATTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 17 0.61
26 3 0.11
27 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTAATTTATTGAATTATTATAAT
Found at i:30922691 original size:21 final size:22
Alignment explanation
Indices: 30922654--30922707 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
30922644 TAATAAGACT
* * *
30922654 ATATTAT-TTTATTATATTGTA
1 ATATTATATTAATGATATTATA
30922675 AT-TTATATTAATGATATTATA
1 ATATTATATTAATGATATTATA
*
30922696 ATATTATTTTAA
1 ATATTATATTAA
30922708 CAATTGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATTATATTAATGATATTATA
Found at i:30922854 original size:5 final size:5
Alignment explanation
Indices: 30922800--30922847 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
30922790 AAGAAATTGT
30922800 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
30922848 ATTATATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:30924641 original size:44 final size:45
Alignment explanation
Indices: 30924593--30924702 Score: 152
Period size: 44 Copynumber: 2.5 Consensus size: 45
30924583 ATGTATCGAC
*
30924593 TACTGTTACTGTTACTGTTACCAATT-TGACACTTTGTGTG-TCAA
1 TACTGTTACTGTTACTGTTACCAATTCAG-CACTTTGTGTGTTCAA
* * * *
30924637 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTGTTCAA
30924682 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
30924703 TGTTCCGGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 34 0.60
45 23 0.40
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTGTTCAA
Found at i:30924693 original size:6 final size:6
Alignment explanation
Indices: 30924682--30924706 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30924672 GTGTGTTGAA
30924682 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
30924707 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:30924893 original size:18 final size:18
Alignment explanation
Indices: 30924870--30925071 Score: 176
Period size: 18 Copynumber: 11.3 Consensus size: 18
30924860 AAAGGTATAA
*
30924870 AATAATTGATTATTTCTG
1 AATAATTGATTATTACTG
* *
30924888 AATAATTGACTGTTACTG
1 AATAATTGATTATTACTG
* *
30924906 AATAATTGACTGTTACTG
1 AATAATTGATTATTACTG
* *
30924924 AATAATAGATTGTTACTG
1 AATAATTGATTATTACTG
* *
30924942 AATAACTGAATATTACTG
1 AATAATTGATTATTACTG
* *
30924960 -ATAAATGATCATTACTG
1 AATAATTGATTATTACTG
* * *
30924977 AATAACTGATTGTCACTG
1 AATAATTGATTATTACTG
* *
30924995 AATAAATGACTATTACTG
1 AATAATTGATTATTACTG
* *
30925013 AATAACTTAATTACTACTG
1 AATAA-TTGATTATTACTG
*
30925032 AAT-ATCTGATT-TTACTA
1 AATAAT-TGATTATTACTG
*
30925049 AATAATTGACTATTACTG
1 AATAATTGATTATTACTG
*
30925067 GATAA
1 AATAA
30925072 CCGATCAATT
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
17 26 0.17
18 111 0.74
19 12 0.08
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAATTGATTATTACTG
Found at i:30924979 original size:71 final size:72
Alignment explanation
Indices: 30924885--30925071 Score: 191
Period size: 71 Copynumber: 2.6 Consensus size: 72
30924875 TTGATTATTT
* * * *
30924885 CTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGAAT-AATAGATTGTTACTGAATAACT
1 CTGAATAAATGA-TATTACTGAATAATTGACTGTTACTGAATAAAT-GACTATTACTGAATAACT
*
30924949 GAA-TATTA
64 GAATTACTA
* * * *
30924957 CTG-ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTT
1 CTGAATAAATGAT-ATTACTGAATAATTGACTGTTACTGAATAAATGACTATTACTGAATAACTG
30925021 AATTACTA
65 AATTACTA
** * * * *
30925029 CTGAATATCTGATTTTACTAAATAATTGACTATTACTGGATAA
1 CTGAATAAATGATATTACTGAATAATTGACTGTTACTGAATAA
30925072 CCGATCAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
70 1 0.01
71 49 0.53
72 36 0.39
73 7 0.08
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (72 bp):
CTGAATAAATGATATTACTGAATAATTGACTGTTACTGAATAAATGACTATTACTGAATAACTGA
ATTACTA
Found at i:30924988 original size:53 final size:54
Alignment explanation
Indices: 30924918--30925072 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 54
30924908 TAATTGACTG
* * *
30924918 TTACTGAATAA-TAGATTGTTACTGAATAACTGAATATTACTGATAA-ATGATCA
1 TTACTGAATAACT-GATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
* * *
30924971 TTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTAATTA
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTG-ATAACATAATCA
* * * *
30925026 CTACTGAATATCTGATT-TTACTAAATAATTGACTATTACTGGATAAC
1 TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACT-GATAAC
30925073 CGATCAATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 37 0.43
54 30 0.34
55 20 0.23
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (54 bp):
TTACTGAATAACTGATTGTTACTGAATAAATGACTATTACTGATAACATAATCA
Found at i:30925047 original size:89 final size:89
Alignment explanation
Indices: 30924871--30925040 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 89
30924861 AAGGTATAAA
* * * * * * * *
30924871 ATAATTGATTATTTCTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGAATAATAGATTG
1 ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAATAGATTA
*
30924936 TTACTGAATAACTGAATATTACTG
66 CTACTGAATAACTGAATATTACTG
*
30924960 ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTA-AT
1 ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAA--TAGAT
*
30925024 TACTACTGAATATCTGA
64 TACTACTGAATAACTGA
30925041 TTTTACTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 50 0.74
90 16 0.24
91 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (89 bp):
ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAATAGATTA
CTACTGAATAACTGAATATTACTG
Found at i:30925160 original size:18 final size:18
Alignment explanation
Indices: 30924870--30925164 Score: 175
Period size: 18 Copynumber: 16.1 Consensus size: 18
30924860 AAAGGTATAA
* * *
30924870 AATAATTGATTATTTCTG
1 AATAACTGATTGTTACTG
* *
30924888 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
30924906 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
30924924 AATAA-TAGATTGTTACTG
1 AATAACT-GATTGTTACTG
* *
30924942 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
30924960 -ATAAATGATCATTACTG
1 AATAACTGATTGTTACTG
*
30924977 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* * *
30924995 AATAAATGACTATTACTG
1 AATAACTGATTGTTACTG
* **
30925013 AATAACTTAATTACTACTG
1 AATAAC-TGATTGTTACTG
* *
30925032 AATATCTGATT-TTACTA
1 AATAACTGATTGTTACTG
* * *
30925049 AATAATTGACTATTACTG
1 AATAACTGATTGTTACTG
* *
30925067 GATAACCGATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
30925093 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
*
30925111 AATAACTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
30925129 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
30925147 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
30925164 A
1 A
30925165 TTGTTAATGA
Statistics
Matches: 216, Mismatches: 48, Indels: 27
0.74 0.16 0.09
Matches are distributed among these distances:
17 31 0.14
18 152 0.70
19 15 0.07
21 2 0.01
22 4 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:30933171 original size:55 final size:53
Alignment explanation
Indices: 30933016--30933216 Score: 177
Period size: 53 Copynumber: 3.7 Consensus size: 53
30933006 TTCCTTTTTA
* * *
30933016 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* * * * *
30933069 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* *** * * * * *
30933122 ATATTTTGTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-C
* ** * *
30933178 AACTTACCAATGCCATACCTTGGCATGGTCTTACTTGGT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGT
30933217 GTCCTTAAAC
Statistics
Matches: 117, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 48 0.41
54 30 0.26
55 38 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
Found at i:30935454 original size:96 final size:96
Alignment explanation
Indices: 30935290--30935470 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 96
30935280 TGGTCACACA
* * *
30935290 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCTGTGTAGCTCTTTGTTTATGATGTCATC
1 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCATC
30935355 AACAAAACTAAGGTCACACGGCCAAGTCACT
66 AACAAAACTAAGGTCACACGGCCAAGTCACT
* *
30935386 CGCTCGTGTGGCTTGGGACATGC-CCGTGTCCTCAGCCCGTGTATCTCTCTGATTATGATGTCAT
1 CGCTCGTGTGGCTTGGGACA-CCTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCAT
* * *
30935450 CAACACAATTAGGGTCACACG
65 CAACAAAACTAAGGTCACACG
30935471 CCCGTGTGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
96 75 0.99
97 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (96 bp):
CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCATC
AACAAAACTAAGGTCACACGGCCAAGTCACT
Found at i:30936927 original size:48 final size:48
Alignment explanation
Indices: 30936698--30936928 Score: 240
Period size: 48 Copynumber: 4.9 Consensus size: 48
30936688 CACATAGTAA
* * *
30936698 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATT
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * * *** *
30936746 GAAGCCAAT---A-G-CCCGGCTATGGTCTTACACCATG-TCTCATATC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACA-TGGGATCACATATC
* ** *
30936789 AATGCCAATGCCACATCCCAGATATGGTCTTACATGGGATCAAATATC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* * *
30936837 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATTTC
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
* *
30936885 GGTGCCAATGCCATGTCCCAGATATGGTCTTATATGGGATCACA
1 GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACA
30936929 CATAACCCTA
Statistics
Matches: 145, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
43 29 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 112 0.77
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:30941162 original size:28 final size:28
Alignment explanation
Indices: 30941118--30941175 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
30941108 AGGACTCATG
30941118 TTAGAAATTAGAACCATGCATCAGATGA
1 TTAGAAATTAGAACCATGCATCAGATGA
* * *
30941146 TTAGAAATTTGACCCATTCATCAGATGA
1 TTAGAAATTAGAACCATGCATCAGATGA
30941174 TT
1 TT
30941176 GTTCTTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (28 bp):
TTAGAAATTAGAACCATGCATCAGATGA
Found at i:30950133 original size:46 final size:48
Alignment explanation
Indices: 30950075--30950188 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
30950065 ACAGGAGAGA
*
30950075 AATGAGCCATGTAAGTCCATATCA-A-ATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
* *
30950121 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
* **
30950169 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
30950189 GTCGAAGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 22 0.37
47 1 0.02
48 36 0.61
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
Found at i:30950171 original size:48 final size:46
Alignment explanation
Indices: 30950075--30950207 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
30950065 ACAGGAGAGA
* *
30950075 AATGAGCCATGTAAGTCCATATCAAATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGGAGACAGG
*
30950121 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCA-A-ATATATGGCATTGGAGACAGG
* ** * * * * *
30950169 AATAATTCATGTAAGTCCATGTCGAAGACATGGCATTGG
1 AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGG
30950208 CAGGATATTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
46 34 0.47
47 2 0.03
48 37 0.51
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (46 bp):
AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGGAGACAGG
Found at i:30960403 original size:22 final size:22
Alignment explanation
Indices: 30960373--30960417 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
30960363 ACAATGAATA
*
30960373 TTCGGCTATGAAGGTTATAGGT
1 TTCGACTATGAAGGTTATAGGT
30960395 TTCGACTATGAAGGTTATAGGT
1 TTCGACTATGAAGGTTATAGGT
30960417 T
1 T
30960418 AAGTCATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (22 bp):
TTCGACTATGAAGGTTATAGGT
Found at i:30967715 original size:30 final size:30
Alignment explanation
Indices: 30967681--30967778 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
30967671 AGCTCACTCC
30967681 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
30967711 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* *
30967741 TAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
30967771 TAGCTCAT
1 TAGCTCAT
30967779 TTTAGTTTAA
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:30969058 original size:6 final size:6
Alignment explanation
Indices: 30969047--30969218 Score: 129
Period size: 6 Copynumber: 27.8 Consensus size: 6
30969037 TATCATAACT
* *
30969047 AGAATC AGAATC AGAATC AGAATC AGGTGAT- AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * * *
30969096 AG-GTGAC AGAATC AAAATC AGAACC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * * *
30969146 AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATT AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
30969195 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
30969219 GTGAATGTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
5 9 0.07
6 102 0.78
7 13 0.10
8 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:30969081 original size:25 final size:25
Alignment explanation
Indices: 30969052--30969218 Score: 164
Period size: 25 Copynumber: 6.7 Consensus size: 25
30969042 TAACTAGAAT
*
30969052 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
30969077 TAGAATCAAAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
30969102 CAGAATCAAAATCAGAACCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
*
30969125 TCAGTATCAGGTAA-CAGAATCA-G-AA
1 -CAGAATCA-G-AATCAGAATCAGGTAA
* *
30969150 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
* *
30969176 CAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
30969201 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
30969219 GTGAATGTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
23 3 0.03
24 16 0.13
25 96 0.81
26 4 0.03
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:30969127 original size:37 final size:37
Alignment explanation
Indices: 30969047--30969217 Score: 64
Period size: 37 Copynumber: 4.3 Consensus size: 37
30969037 TATCATAACT
* * *
30969047 AGAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAACCAGAATCAGAATCAGGTAACAGAATC
* *
30969084 AAAATCAGAATCAGGTGACAGAATCAAAATCA-G-AACCAGAATC
1 AGAATCAGAA-C------CAGAATCAGAATCAGGTAA-CAGAATC
*
30969127 AGTATCAGGTAA-CAGAATCAGAATCA-G-AACCAGAATC
1 AGAATCA-G-AACCAGAATCAGAATCAGGTAA-CAGAATC
** *
30969164 AGAATTAGGTAACAGAATTAGAATCAGTATCAGGTAACAGAATC
1 AG-A--A--T--CAGAACCAGAATCAGAATCAGGTAACAGAATC
30969208 AGAATCAGAA
1 AGAATCAGAA
30969218 TGTGAATGTA
Statistics
Matches: 103, Mismatches: 11, Indels: 40
0.67 0.07 0.26
Matches are distributed among these distances:
37 40 0.39
39 1 0.01
40 1 0.01
41 1 0.01
42 4 0.04
43 26 0.25
44 26 0.25
45 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (37 bp):
AGAATCAGAACCAGAATCAGAATCAGGTAACAGAATC
Found at i:30969379 original size:27 final size:26
Alignment explanation
Indices: 30969337--30969388 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
30969327 GCGAGGCTGC
*
30969337 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
30969363 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
30969389 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:30969665 original size:27 final size:27
Alignment explanation
Indices: 30969635--30969853 Score: 181
Period size: 27 Copynumber: 8.1 Consensus size: 27
30969625 GAAAAATGGC
* * *
30969635 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
30969662 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
30969689 ATTTCTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
30969716 AATTCTACCCTACAGGGGTA-TTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * ** *
30969742 AATTCTACCTTACTAGGGTATTTTAGA
1 AATTCTACCCTACAAGGGTATTTCGGT
* * **
30969769 AATTCTACCTTACTAGGGTATTTTAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
** * * *
30969796 AATTCTA-CAAACTAGGGGTGTTTTGGT
1 AATTCTACCCTAC-AAGGGTATTTCGGT
* * *
30969823 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
30969850 AATT
1 AATT
30969854 TCACAATCGA
Statistics
Matches: 158, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 24 0.15
27 132 0.84
28 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:30969704 original size:54 final size:54
Alignment explanation
Indices: 30969636--30969855 Score: 214
Period size: 54 Copynumber: 4.1 Consensus size: 54
30969626 AAAAATGGCA
* * *
30969636 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* *
30969689 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTA-TTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * ** * * *
30969742 AATTCTACCTTACTAGGGTATTTTAGAAATTCTACCTTACTA-GGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-TAGGGGTATTTCAGT
* ** * * *
30969796 AATTCTA-CAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTAC-AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
30969850 AATTTC
1 -ATTTC
30969856 ACAATCGAGG
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
53 50 0.37
54 82 0.60
55 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
Found at i:30969799 original size:80 final size:81
Alignment explanation
Indices: 30969635--30969853 Score: 203
Period size: 80 Copynumber: 2.7 Consensus size: 81
30969625 GAAAAATGGC
* * * * *
30969635 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCT
*
30969700 ACAAGGGTATTTCGAT
66 ACAAGGGTATTTAGAT
* * * * *
30969716 AATTCTACCCTACAGGGGTAT-TCAGTAATTCTACCTTACTA-GGGTATTTTAGAAATTCTACCT
1 AATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTA-TAGGGGTATTTCAGAAATTCTACCC
*
30969779 TACTAGGGTATTTTAG-T
65 TACAAGGGTA-TTTAGAT
** * * * ** *
30969796 AATTCTA-CAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATT
1 AATTCTACCCCAC-AAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATT
30969854 TCACAATCGA
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
79 3 0.03
80 58 0.51
81 52 0.46
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
AATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCT
ACAAGGGTATTTAGAT
Found at i:30969888 original size:27 final size:27
Alignment explanation
Indices: 30969858--30970651 Score: 962
Period size: 27 Copynumber: 29.4 Consensus size: 27
30969848 GTAATTTCAC
*
30969858 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
30969885 AATCAAGGGTAAAAC-GATAATTTTGTA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
* *
30969912 AA-CTAAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * * **
30969939 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
30969966 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30969993 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970020 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
30970047 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970074 AA-CTGAGGGTAAAAC-GATAATTCTGTA
1 AATC-GAGGGTAAAACAG-TAATTCTGTA
*
30970101 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
**
30970128 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970155 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970182 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
30970209 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970236 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **
30970263 AATCGAGGGTAAAACAATAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
30970290 AATCGAGGGTAAAAC-GATAATTCTATA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
*
30970317 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * *
30970344 AA-CTAAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * *
30970371 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
30970398 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* *
30970425 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** *
30970452 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* **
30970479 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** *
30970506 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
30970533 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * *
30970560 ATTCAAGGGTAAAATAGTAACTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
30970587 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
** * *
30970614 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
30970641 AATCGAGGGTA
1 AATCGAGGGTA
30970652 CTTTTGTAAT
Statistics
Matches: 689, Mismatches: 56, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
26 9 0.01
27 670 0.97
28 10 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:30972424 original size:16 final size:16
Alignment explanation
Indices: 30972403--30972434 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30972393 GTAGGATCCG
30972403 GAAAAAAAAGAGTATA
1 GAAAAAAAAGAGTATA
*
30972419 GAAAAAAAATAGTATA
1 GAAAAAAAAGAGTATA
30972435 CCGAAGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
GAAAAAAAAGAGTATA
Found at i:30973663 original size:11 final size:12
Alignment explanation
Indices: 30973633--30973662 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30973623 TGAGAGAACG
30973633 TGAAAAAGCCTT
1 TGAAAAAGCCTT
*
30973645 TGAAAAAGTCTT
1 TGAAAAAGCCTT
30973657 TGAAAA
1 TGAAAA
30973663 GCAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (12 bp):
TGAAAAAGCCTT
Found at i:30973673 original size:12 final size:12
Alignment explanation
Indices: 30973665--30973689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30973655 TTTGAAAAGC
30973665 AAAAAGAAAATG
1 AAAAAGAAAATG
30973677 AAAAAGAAAATG
1 AAAAAGAAAATG
30973689 A
1 A
30973690 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:30973686 original size:18 final size:18
Alignment explanation
Indices: 30973659--30973714 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
30973649 AAAGTCTTTG
*
30973659 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
30973678 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
*
30973696 AAAAGAGAATGAAAA-GA
1 AAAAGAAAATGAAAATGA
30973713 AA
1 AA
30973715 TTTGAGAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:30973699 original size:30 final size:31
Alignment explanation
Indices: 30973665--30973746 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
30973655 TTTGAAAAGC
*
30973665 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* *
30973695 AAAAAGAGAATG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
30973725 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
30973747 TGAAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.18
30 28 0.62
31 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:30975993 original size:30 final size:30
Alignment explanation
Indices: 30975959--30976056 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
30975949 AGCTCACTCC
30975959 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
30975989 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
30976019 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
30976049 TAGCTCAT
1 TAGCTCAT
30976057 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:30977066 original size:40 final size:40
Alignment explanation
Indices: 30977011--30977089 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
30977001 TGAGGACTTC
30977011 GTTGGCTTATCTAGGAAGCCTAGTGGCGTCAACCCTGTTA
1 GTTGGCTTATCTAGGAAGCCTAGTGGCGTCAACCCTGTTA
*
30977051 GTTGGCTTATCTAGGAAGCGTAGTGGCGTCAACCCTGTT
1 GTTGGCTTATCTAGGAAGCCTAGTGGCGTCAACCCTGTT
30977090 CTTCACTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (40 bp):
GTTGGCTTATCTAGGAAGCCTAGTGGCGTCAACCCTGTTA
Found at i:30981250 original size:40 final size:40
Alignment explanation
Indices: 30981195--30981412 Score: 368
Period size: 40 Copynumber: 5.5 Consensus size: 40
30981185 CGGATGATAA
30981195 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
30981235 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
30981275 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30981315 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
30981355 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
30981395 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30981413 TACTTGGTTT
Statistics
Matches: 171, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 16 0.09
40 155 0.91
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30983362 original size:58 final size:58
Alignment explanation
Indices: 30983272--30983385 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
30983262 GTGATTCTGC
30983272 CTACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCAGAAAGCAAGTAACTTGGGGG
1 CTACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCAGAAAGCAAGTAACTTGGGGG
* *
30983330 CTACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCCGAGAGCAAGTAACTTGGG
1 CTACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCAGAAAGCAAGTAACTTGGG
30983386 AGTTTTTCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (58 bp):
CTACTATTGGTGGAATACGTTGACTTCTGTTGTGCCCAGAAAGCAAGTAACTTGGGGG
Found at i:30983911 original size:300 final size:301
Alignment explanation
Indices: 30983368--30983966 Score: 1146
Period size: 300 Copynumber: 2.0 Consensus size: 301
30983358 GTTGTGCCCC
30983368 GAGAGCAAGTAACTTGGGAGTTTTTCCAAACCGAGTTTCGGAAAAAGTATATCAGTCAGAGATTC
1 GAGAGCAAGTAACTTGGGAGTTTTTCCAAACCGAGTTTCGGAAAAAGTATATCAGTCAGAGATTC
*
30983433 ATGGATCAAAAACGGAAGGAATTTCTTGAACTTAAACAGGGTTCCATGTCGGTTACCGATTATGA
66 ATGGATCAAAAACGGAAGGAATTTCTTGAACTTAAACAAGGTTCCATGTCGGTTACCGATTATGA
30983498 ACGAAAGTTTGTAAGGCTTAGCCATTACGCTCGAGAATGCATTTCTTCAGAAGCCGTGATGTGTA
131 ACGAAAGTTTGTAAGGCTTAGCCATTACGCTCGAGAATGCATTTCTTCAGAAGCCGTGATGTGTA
*
30983563 AACGTTTCGAGGATGGACTGAATGATGATATAAAGCTGTATGTTGGCATTTTAGAAATCCGAGAA
196 AACATTTCGAGGATGGACTGAATGATGATATAAAGCTGTATGTTGGCATTTTAGAAATCCGAGAA
30983628 TTTGTGGTACTTGTCGAGCGAGCTTGCAAAGCCGAGGAGCA
261 TTTGTGGTACTTGTCGAGCGAGCTTGCAAAGCCGAGGAGCA
30983669 GAGAGCAAGTAACTTGGGAGTTTTTCCAAACCGAGTTTCGGAAAAAGTATATCAGTCAGAGATTC
1 GAGAGCAAGTAACTTGGGAGTTTTTCCAAACCGAGTTTCGGAAAAAGTATATCAGTCAGAGATTC
30983734 ATGGATCAAAAACGGAAGGAATTTCTTGAACTTAAACAAGGTTCCA-GTCGGTTACCGATTATGA
66 ATGGATCAAAAACGGAAGGAATTTCTTGAACTTAAACAAGGTTCCATGTCGGTTACCGATTATGA
* *
30983798 ACGGAAGTTTGTAAGGCTTAGCCGTTACGCTCGAGAATGCATTTCTTCAGAAGCCGTGATGTGTA
131 ACGAAAGTTTGTAAGGCTTAGCCATTACGCTCGAGAATGCATTTCTTCAGAAGCCGTGATGTGTA
*
30983863 AACATTTTGAGGATGGACTGAATGATGATATAAAGCTGTATGTTGGCATTTTAGAAATCCGAGAA
196 AACATTTCGAGGATGGACTGAATGATGATATAAAGCTGTATGTTGGCATTTTAGAAATCCGAGAA
30983928 TTTGTGGTACTTGTCGAGCGAGCTTGCAAAGCCGAGGAG
261 TTTGTGGTACTTGTCGAGCGAGCTTGCAAAGCCGAGGAG
30983967 ATCATTATGG
Statistics
Matches: 293, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
300 183 0.62
301 110 0.38
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (301 bp):
GAGAGCAAGTAACTTGGGAGTTTTTCCAAACCGAGTTTCGGAAAAAGTATATCAGTCAGAGATTC
ATGGATCAAAAACGGAAGGAATTTCTTGAACTTAAACAAGGTTCCATGTCGGTTACCGATTATGA
ACGAAAGTTTGTAAGGCTTAGCCATTACGCTCGAGAATGCATTTCTTCAGAAGCCGTGATGTGTA
AACATTTCGAGGATGGACTGAATGATGATATAAAGCTGTATGTTGGCATTTTAGAAATCCGAGAA
TTTGTGGTACTTGTCGAGCGAGCTTGCAAAGCCGAGGAGCA
Found at i:30984284 original size:83 final size:83
Alignment explanation
Indices: 30984145--30984312 Score: 309
Period size: 83 Copynumber: 2.0 Consensus size: 83
30984135 CGAGTCACTT
* *
30984145 CAGTCGCCAGTGTTGGAAATGATCGTCGAGACAGAACGGAGTGTCATTATTGTGGTAAATGGCAT
1 CAGTCGCCAGTGTTGGAAATGATCGTCGAGACAGAAAGGAGTGTCAGTATTGTGGTAAATGGCAT
*
30984210 TCGGGTAGTTGTAGATTC
66 TCGGGGAGTTGTAGATTC
30984228 CAGTCGCCAGTGTTGGAAATGATCGTCGAGACAGAAAGGAGTGTCAGTATTGTGGTAAATGGCAT
1 CAGTCGCCAGTGTTGGAAATGATCGTCGAGACAGAAAGGAGTGTCAGTATTGTGGTAAATGGCAT
30984293 TCGGGGAGTTGTAGATTC
66 TCGGGGAGTTGTAGATTC
30984311 CA
1 CA
30984313 TGACCGCTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (83 bp):
CAGTCGCCAGTGTTGGAAATGATCGTCGAGACAGAAAGGAGTGTCAGTATTGTGGTAAATGGCAT
TCGGGGAGTTGTAGATTC
Found at i:30984840 original size:59 final size:59
Alignment explanation
Indices: 30984748--30984868 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
30984738 TGTGCAAGAA
30984748 ATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCTGGCCGATTTGATGCTTTTACCGTTTG
1 ATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCTGGCCGATTTGATGCTTTTACCGTTTG
30984807 ATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCTGGCCGATTTGATGCTTTTACCGTTTG
1 ATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCTGGCCGATTTGATGCTTTTACCGTTTG
30984866 ATG
1 ATG
30984869 AATTTGATGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.40
Consensus pattern (59 bp):
ATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCTGGCCGATTTGATGCTTTTACCGTTTG
Found at i:30989786 original size:39 final size:41
Alignment explanation
Indices: 30989717--30989871 Score: 203
Period size: 40 Copynumber: 3.9 Consensus size: 41
30989707 TATTCGGATG
* * *
30989717 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA
* * *
30989758 AT-TCTGGGCGAAG-CCCGAAGGCATTTGTGCAAGTTACT-
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA
*
30989796 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-A
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA
30989836 ATAACCGGGCTAAGTCCCGAAGGCATTT-TAGCAAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGT-GCAAGT
30989872 AGCTATCTCC
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.32
40 63 0.64
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA
Found at i:30989887 original size:79 final size:78
Alignment explanation
Indices: 30989717--30989871 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 78
30989707 TATTCGGATG
* * *
30989717 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCGAAGCCCGAAGGCAT
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCGAAGCCCGAAGGCAT
30989782 TTGTGCAAGTTACT
65 TTGTGCAAGTTACT
* *
30989796 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AATAACCGGGCTAAGTCCCGAAGGC
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCGAAG-CCCGAAGGC
30989860 ATTT-TAGCAAGT
63 ATTTGT-GCAAGT
30989872 AGCTATCTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
78 3 0.04
79 43 0.64
80 21 0.31
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (78 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCGAAGCCCGAAGGCATT
TGTGCAAGTTACT
Found at i:30993347 original size:48 final size:48
Alignment explanation
Indices: 30993291--30993627 Score: 575
Period size: 48 Copynumber: 7.0 Consensus size: 48
30993281 CAAGATAAAT
*
30993291 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
30993339 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGGGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
30993387 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
30993435 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
30993483 TTATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
30993531 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
30993579 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
30993627 A
1 A
30993628 CGTGTGTATA
Statistics
Matches: 273, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 273 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:30993830 original size:37 final size:37
Alignment explanation
Indices: 30993769--30993913 Score: 200
Period size: 37 Copynumber: 3.9 Consensus size: 37
30993759 GGAAATATAT
* * *
30993769 TCCGGGTAAGACCTGAAGATTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
30993806 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
30993843 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
30993880 TCCGGGTAAGGCCAGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
30993914 TCATCTGAGC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31002970 original size:40 final size:39
Alignment explanation
Indices: 31002915--31003090 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 39
31002905 GATGATAATG
* *
31002915 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-TCC
*
31002955 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCC
*
31002995 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTATATCC
* **
31003035 GGGCTAAGTCCCGAAGGCATTTGAGTGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATATCC
* *
31003075 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
31003091 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 17 0.14
40 102 0.84
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCC
Found at i:31003048 original size:80 final size:80
Alignment explanation
Indices: 31002915--31003090 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
31002905 GATGATAATG
* * * *
31002915 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
31002980 CGAGTTA-CTATATCC
66 CGAG-TAGCTATATCC
31002995 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
31003058 AGTGAGTAGCTATATCC
64 AGCGAGTAGCTATATCC
* *
31003075 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
31003091 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
79 18 0.21
80 66 0.77
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTAGCTATATCC
Found at i:31006465 original size:24 final size:24
Alignment explanation
Indices: 31006436--31006497 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
31006426 CAACCGTATT
* * *
31006436 TGCACACATAGTGCTA-ATTACAC
1 TGCACACATAGTGCCATAGTAAAC
31006459 TCGCACACATAGTGCCATAGTAAAC
1 T-GCACACATAGTGCCATAGTAAAC
31006484 TGCACACATAGTGC
1 TGCACACATAGTGC
31006498 ATTGGATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.79
25 6 0.18
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (24 bp):
TGCACACATAGTGCCATAGTAAAC
Found at i:31022607 original size:43 final size:43
Alignment explanation
Indices: 31022497--31022609 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 43
31022487 TATAAGTTCT
*
31022497 GTTTAATGTAA-TAGCACTAAGTGTGCGATACAATTATAGCTTT
1 GTTTAAT-TAATTAGCACTAAGTGTGCGATACAATTATAGCTTC
* * *
31022540 G-CTAATTAATTGGCACTAAATGTGCGATACAATTATAGCTTC
1 GTTTAATTAATTAGCACTAAGTGTGCGATACAATTATAGCTTC
31022582 GTTTAATTAATTAGCACTAAGTGTGCGA
1 GTTTAATTAATTAGCACTAAGTGTGCGA
31022610 GTTCGTTGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 34 0.56
43 24 0.39
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (43 bp):
GTTTAATTAATTAGCACTAAGTGTGCGATACAATTATAGCTTC
Found at i:31025628 original size:19 final size:20
Alignment explanation
Indices: 31025601--31025643 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31025591 GGTCGGTGGT
*
31025601 TTTTCGGTTGT-TTTAGGGG
1 TTTTAGGTTGTGTTTAGGGG
*
31025620 TTTTAGGTTTTGTTTAGGGG
1 TTTTAGGTTGTGTTTAGGGG
31025640 TTTT
1 TTTT
31025644 CGTGACCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.07, C:0.02, G:0.33, T:0.58
Consensus pattern (20 bp):
TTTTAGGTTGTGTTTAGGGG
Found at i:31026393 original size:15 final size:15
Alignment explanation
Indices: 31026373--31026403 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31026363 CATTACGGTG
*
31026373 TTTTATTATATATTA
1 TTTTATCATATATTA
31026388 TTTTATCATATATTA
1 TTTTATCATATATTA
31026403 T
1 T
31026404 CTAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATCATATATTA
Found at i:31045783 original size:37 final size:37
Alignment explanation
Indices: 31045728--31045799 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
31045718 TAGCTCGAAT
31045728 AATCCCCACACGTAGTCATCGGGTCTTACCCGGAAAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGAAAA
* *
31045765 AATCTCCACACGTAGTCATCGGGTCTTACTCGGAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGAA
31045800 TATATTTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCCCCACACGTAGTCATCGGGTCTTACCCGGAAAA
Found at i:31045991 original size:48 final size:48
Alignment explanation
Indices: 31045931--31046132 Score: 323
Period size: 48 Copynumber: 4.2 Consensus size: 48
31045921 CGGCCACAAT
* *
31045931 ATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
31045979 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
31046027 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
31046075 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
31046123 ACATATATAT
1 ATATACATAT
31046133 TTATCTTGTA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:31049241 original size:44 final size:43
Alignment explanation
Indices: 31049193--31049308 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 43
31049183 TTGTAGATCC
31049193 TATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACAGCGAA-TCT
1 TATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACA-C-AAGTCT
* ** *
31049237 TATCTTCCC-AAGATAGTAGGGGAGCAGATTGAAGCCACAAGTCT
1 TATC-TCCCTAAG-TAGTAGTGGAGCAGATCAAAGACACAAGTCT
* *
31049281 TATATCCCTAAAGTTGTAGTGGAGCAGA
1 TATCTCCCT-AAGTAGTAGTGGAGCAGA
31049309 CTGAAGATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.10
44 27 0.45
45 27 0.45
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
TATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACACAAGTCT
Found at i:31049272 original size:132 final size:134
Alignment explanation
Indices: 31048790--31049274 Score: 464
Period size: 132 Copynumber: 3.7 Consensus size: 134
31048780 GTGAATTCAC
* * * **
31048790 AGATCTTATCTCCATGAGGTAGGAATGAAGCAAATCG-AAGATGGCGAATCTTATCTCCCTAAGA
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAAGACAGCGAATCTTATCTCCCTAAGA
* *
31048854 TAGCAAGGGAGCAAATTTAAGCCACTAGCCTTGTAT-CTCTGAGCAGCAGTGGAGCAAGCTGAAG
66 TAGCAAGGGAGCAAATTTAAGCCACTAGCCTTGTCTCCT-TGAGCAGCAGTGGAGCAGGCTGAAG
31048918 ATTGT
130 ATTGT
* *
31048923 AGATCTTATCTCCATGAGGTAGCAATGGAGCA-AACTG-AAGA-TGACGAAT-TTATCTCCCTAA
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATC-GAAAGACAG-CGAATCTTATCTCCCTAA
** * * * * * * * *
31048984 -AGGGGCAAGGGAGCAAATTCAAGTCACCATCC-TATCTCCCTAAGCAGCAGTGGAGTAGGCTGA
64 GA-TAGCAAGGGAGCAAATTTAAGCCACTAGCCTTGTCTCCTTGAGCAGCAGTGGAGCAGGCTGA
31049047 AGATTGT
128 AGATTGT
* *
31049054 AGATCTTATCTCCATGAGGTAGCAATAGAGCCGATCGAGAATGACA---AATCTTATCTTCCC-A
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGA-AA-GACAGCGAATCTTATC-TCCCTA
* * *
31049115 AGGTAG-TAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCTTGAGCAAG-AGTGGAGCAGGCT
63 AGATAGCAAGGG-AGCAAATTTAAGCCACTAGCCTTGTCTCCTTGAGC-AGCAGTGGAGCAGGCT
31049178 GAAGATTGT
126 GAAGATTGT
* * * * *
31049187 AGATCCTATCTCCCT-AAGTAGTAGTGGAGCAGATC-AAAGACAGCGAATCTTATCTTCCC-AAG
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAAGACAGCGAATCTTATC-TCCCTAAG
* * * *
31049249 ATAGTAGGGGAGCAGATTGAAGCCAC
65 ATAGCAAGGGAGCAAATTTAAGCCAC
31049275 AAGTCTTATA
Statistics
Matches: 289, Mismatches: 44, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
129 4 0.01
130 2 0.01
131 70 0.24
132 116 0.40
133 93 0.32
134 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (134 bp):
AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAAGACAGCGAATCTTATCTCCCTAAGA
TAGCAAGGGAGCAAATTTAAGCCACTAGCCTTGTCTCCTTGAGCAGCAGTGGAGCAGGCTGAAGA
TTGT
Found at i:31050504 original size:15 final size:15
Alignment explanation
Indices: 31050484--31050514 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31050474 CATTACTGGG
*
31050484 TTTTATTATATATTA
1 TTTTATCATATATTA
31050499 TTTTATCATATATTA
1 TTTTATCATATATTA
31050514 T
1 T
31050515 CTAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATCATATATTA
Found at i:31053070 original size:29 final size:30
Alignment explanation
Indices: 31053038--31053103 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31053028 TATTATGTCT
*
31053038 ATCAAGTAATAA-TTATTTATATTAATACA
1 ATCAAGTAATAATTTACTTATATTAATACA
** *
31053067 ATCAACAAATAATTTACTTATATTAATGCA
1 ATCAAGTAATAATTTACTTATATTAATACA
*
31053097 ATTAAGT
1 ATCAAGT
31053104 GGAGTTTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (30 bp):
ATCAAGTAATAATTTACTTATATTAATACA
Found at i:31054623 original size:23 final size:23
Alignment explanation
Indices: 31054593--31054638 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31054583 CAGCAAAGAA
31054593 AACTTGCAACAATTGCTAATAGT
1 AACTTGCAACAATTGCTAATAGT
31054616 AACTTGCAACAATTGCTAATAGT
1 AACTTGCAACAATTGCTAATAGT
31054639 TATATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
AACTTGCAACAATTGCTAATAGT
Found at i:31058649 original size:25 final size:25
Alignment explanation
Indices: 31058621--31058678 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
31058611 TGACTTACAT
31058621 ATTTAATTAA-TTACTTTTAAAA-TAA
1 ATTTAATTAATTTA-TTTTAAAAGT-A
*
31058646 ATTT-ATAAATTTATTTTAAAAGTA
1 ATTTAATTAATTTATTTTAAAAGTA
31058670 A-TTAATTAA
1 ATTTAATTAA
31058679 ATATGTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.07
24 18 0.64
25 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTAATTAATTTATTTTAAAAGTA
Found at i:31065502 original size:46 final size:46
Alignment explanation
Indices: 31065449--31065624 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
31065439 TGGTTGAGCA
31065449 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
31065495 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
31065540 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31065588 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31065625 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31065605 original size:93 final size:93
Alignment explanation
Indices: 31065446--31065617 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31065436 GGATGGTTGA
* * * *
31065446 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGACCGAACTCGTTGAGT
31065511 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31065539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGACCGAACTCGTTGAGT
31065604 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31065618 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31073081 original size:46 final size:46
Alignment explanation
Indices: 31073031--31073203 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
31073021 TTGAGCATCT
31073031 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
31073077 GAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
31073124 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
** * *
31073170 GAGTTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31073204 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:31073184 original size:93 final size:93
Alignment explanation
Indices: 31073025--31073196 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
31073015 GGATGGTTGA
* * * *
31073025 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTTATTGAGT
31073090 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31073118 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGTTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTT-ATTGAG
31073182 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
31073197 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTTATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31075462 original size:19 final size:19
Alignment explanation
Indices: 31075438--31075479 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
31075428 TTATTATTAT
31075438 TTTAGATTTGTGTTGAAAA-
1 TTTAGATTTGTGTT-AAAAG
31075457 TTTAGATTTGTGTTAAAAG
1 TTTAGATTTGTGTTAAAAG
31075476 TTTA
1 TTTA
31075480 TTTATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTAGATTTGTGTTAAAAG
Found at i:31077314 original size:48 final size:48
Alignment explanation
Indices: 31077243--31077575 Score: 314
Period size: 48 Copynumber: 6.9 Consensus size: 48
31077233 ACATTTGGGT
* * * *
31077243 GATATGTGTGCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * **
31077291 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGTGATC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * *
31077340 -TTGTGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * *
31077387 GATATGTGCA-CTAATGTAAGACCATGTTTGGAACATGGCATCGGCCAC
1 GATATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
** *
31077435 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * **
31077483 GAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACTTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
31077531 GACATGTGAACCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
31077576 AATCCACCCT
Statistics
Matches: 228, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 219 0.96
49 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:31077416 original size:96 final size:94
Alignment explanation
Indices: 31077252--31077576 Score: 359
Period size: 96 Copynumber: 3.4 Consensus size: 94
31077242 TGATATGTGT
* * * *
31077252 GCCAGTGTAAGACCATGTCTGGGGCATGGCACCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
31077317 TTTGGGACATGGCATCAGTGATCTTGTGAGA
65 TTTGGGACATGGCATCAGTGA-CTTGTGAGA
* * *
31077348 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTGATATGTGCA-CTAATGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGATATGAG-AGCTAGTGTAAGACCAT
* * ** *
31077412 GTTTGGAACATGGCATCGGCCACATTATGAGA
64 GTTTGGGACATGGCATCAGTGAC-TTGTGAGA
* * * *
31077444 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAATGAGATAAGAGCTAGTGTAAGATCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATGATATGAGAGCTAGTGTAAGACCATG
* * *
31077509 TCTGGGACATGGCATCGACTTCGACATGTGA-A
65 TTTGGGACATGGCATC-A-GT-GACTTGTGAGA
* *
31077541 -CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
31077577 ATCCACCCTC
Statistics
Matches: 191, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
95 5 0.03
96 177 0.93
97 3 0.02
98 4 0.02
99 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGATATGAGAGCTAGTGTAAGACCATGT
TTGGGACATGGCATCAGTGACTTGTGAGA
Found at i:31077502 original size:144 final size:144
Alignment explanation
Indices: 31077257--31077575 Score: 430
Period size: 144 Copynumber: 2.2 Consensus size: 144
31077247 TGTGTGCCAG
* ** * *
31077257 TGTAAGACCATGTCTGGGGCATGGCACCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
* ** * *
31077322 GACATGGCATCAGTGATCTTGTGAGAGCCAGTGTAAGA-CTATGTCTGGGACATGGCATCGGCAT
66 GACATGGCATCAGTAATCGAGTAAGAGCCAGTGTAAGATC-ATGTCTGGGACATGGCATCGAC-T
* * *
31077386 T-GATATGTGCACTAA
129 TCGACATGTGAACCAA
31077401 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACGA-TATGAGAGCCAGTGTAAGACCATGTCTG
* *
31077465 GGACATGGCATCGGTAAT-GAGATAAGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGACT
65 GGACATGGCATCAGTAATCGAG-TAAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACT
*
31077529 TCGACATGTGAACCAG
129 TCGACATGTGAACCAA
31077545 TGTAAGACCATGTTTGGAACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
31077576 AATCCACCCT
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
143 4 0.03
144 150 0.97
145 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGTAATCGAGTAAGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACTTC
GACATGTGAACCAA
Found at i:31078611 original size:13 final size:13
Alignment explanation
Indices: 31078593--31078618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31078583 ACAGGCGTGT
31078593 CATGGACACGGGC
1 CATGGACACGGGC
31078606 CATGGACACGGGC
1 CATGGACACGGGC
31078619 ATGTGCCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
CATGGACACGGGC
Found at i:31080887 original size:62 final size:62
Alignment explanation
Indices: 31080816--31080940 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
31080806 TTTCATTATA
*
31080816 ACGTTTGACTCATTTTAATGAAATGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
31080878 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
1 ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
31080940 A
1 A
31080941 TGCAAATATG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (62 bp):
ACGTTTGACTCATTTTAATGAAACGTTTGATATATTTTTAAATATACGTGACAATCAAGTTC
Found at i:31081709 original size:17 final size:17
Alignment explanation
Indices: 31081687--31081721 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31081677 ATAGAAATAA
31081687 CATATTATAATTATCAT
1 CATATTATAATTATCAT
31081704 CATATTATAATTATCAT
1 CATATTATAATTATCAT
31081721 C
1 C
31081722 TTCTTCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (17 bp):
CATATTATAATTATCAT
Found at i:31091259 original size:29 final size:30
Alignment explanation
Indices: 31091213--31091269 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
31091203 AAATGGAGAA
31091213 AAATACATCAATCATAAAAAAA-ATACATC
1 AAATACATCAATCATAAAAAAATATACATC
*
31091242 AAATACATCAATCGTAAAAAAATATACA
1 AAATACATCAATCATAAAAAAATATACA
31091270 CCAATCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.21
Consensus pattern (30 bp):
AAATACATCAATCATAAAAAAATATACATC
Found at i:31092113 original size:9 final size:9
Alignment explanation
Indices: 31092099--31092128 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31092089 AAAATATCAT
31092099 ATTAATTTA
1 ATTAATTTA
*
31092108 ATTAATTTG
1 ATTAATTTA
31092117 ATTAATTTA
1 ATTAATTTA
31092126 ATT
1 ATT
31092129 TTACTTGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:31096623 original size:52 final size:53
Alignment explanation
Indices: 31096565--31096685 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 53
31096555 TGGTATGTGC
*
31096565 TTCCGTATAAGACCATAGCTGGGCTATGGAATTGGTGCAATGTGAT-ACGTG-
1 TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
* ** ** *
31096616 TTCCCGTATAAGACCATAGTTGGGCTATGGTGTCGGTGTGATGTGATAATGTGA
1 TT-CCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
31096670 TTCCGTATAAGACCAT
1 TTCCGTATAAGACCAT
31096686 GTCTGGGAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 2 0.03
52 38 0.63
53 18 0.30
54 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAACGTGA
Found at i:31100163 original size:59 final size:59
Alignment explanation
Indices: 31100090--31100215 Score: 216
Period size: 59 Copynumber: 2.1 Consensus size: 59
31100080 ATTACTAATT
* * *
31100090 TAATGAAAATAAGTTAGATGTGAAGTTTGGAAAATGATTGAAATAGTGAATAGTATTTTA
1 TAAT-AAAATAAGTTAGATGTGAAGTTAGGAAAATGATTAAAATAATGAATAGTATTTTA
31100150 TAATAAAATAAGTTAGATGTGAAGTTAGGAAAATGATTAAAATAATGAATAGTATTTTA
1 TAATAAAATAAGTTAGATGTGAAGTTAGGAAAATGATTAAAATAATGAATAGTATTTTA
31100209 TAATAAA
1 TAATAAA
31100216 TACTAAATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 59 0.94
60 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (59 bp):
TAATAAAATAAGTTAGATGTGAAGTTAGGAAAATGATTAAAATAATGAATAGTATTTTA
Found at i:31101521 original size:52 final size:52
Alignment explanation
Indices: 31101412--31101547 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
31101402 TGAAGGAAAA
* * * **
31101412 GATGTGATATGTGTGCCCGTATAATACCATAGTTGGGCTATGGCATTGGTGC
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
* * * *
31101464 AATGTGATACGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCGTCAGTGT
1 GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
31101516 GATGTGATAATGTGATTCCA-TATAAGACCATA
1 GATGTGAT-ATGTG-TTCCAGTATAAGACCATA
31101548 TCTGTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
52 50 0.70
53 16 0.23
54 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (52 bp):
GATGTGATATGTGTTCCAGTATAAGACCATAGTTGGGCTATGGCATCAGTGC
Found at i:31103060 original size:18 final size:18
Alignment explanation
Indices: 31103028--31103063 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31103018 ACATATTTTC
31103028 TCATACTTATAACATATA
1 TCATACTTATAACATATA
31103046 TCATCACTTAT-ACATATA
1 TCAT-ACTTATAACATATA
31103064 CTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TCATACTTATAACATATA
Found at i:31103273 original size:43 final size:42
Alignment explanation
Indices: 31103207--31103368 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 42
31103197 AGCTTGTACA
* *
31103207 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATAT-G
31103250 ATGCC-ACTGTCCTAGACAG-GGTCTTACATGAAATCAAATATG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACATGAAATCAAATATG
* *
31103292 ATGCCAACGTCCTAGACGTGGTCTTACACTTAAAT--AATAAGTCA
1 ATGCCAACGTCCTAGACGTGGTCTTACA-TGAAATCAAAT-A-T-G
* *
31103336 ATGCCAACGTCCCAGAAGTGGTCTTACATGAAA
1 ATGCCAACGTCCTAGACGTGGTCTTACATGAAA
31103369 ACACATATCG
Statistics
Matches: 104, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
41 4 0.04
42 27 0.26
43 46 0.44
44 27 0.26
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATATG
Found at i:31118146 original size:21 final size:20
Alignment explanation
Indices: 31118113--31118152 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31118103 TTCATCCTTT
* *
31118113 TTTTCTTTTTAATTCACTTC
1 TTTTATTTTTAATCCACTTC
31118133 TTTTATTTTCTAATCCACTT
1 TTTTATTTT-TAATCCACTT
31118153 ACCAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATTTTTAATCCACTTC
Found at i:31119805 original size:27 final size:26
Alignment explanation
Indices: 31119745--31119806 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
31119735 ATAAGACTCC
31119745 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
31119771 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
31119799 ATTTTATT
1 ATTTTATT
31119807 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:31120585 original size:17 final size:18
Alignment explanation
Indices: 31120554--31120587 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31120544 TACTCCTCAT
31120554 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
31120572 TTTAATTT-TGCAATTT
1 TTTAATTTCTGCAATTT
31120588 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:31125310 original size:5 final size:5
Alignment explanation
Indices: 31125296--31125362 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
31125286 TCTCTTTTTC
* * * *
31125296 TATTT CATTT TATTT TAGTT TATTT TGTTT TATTT TAATT TA-TT TATTAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATT-T
*
31125346 T-TATT TATTC TATTT TA
1 TAT-TT TATTT TATTT TA
31125363 ATTAATAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
4 4 0.08
5 41 0.84
6 4 0.08
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:31125319 original size:20 final size:20
Alignment explanation
Indices: 31125296--31125340 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31125286 TCTCTTTTTC
*
31125296 TATTTCATTTTATTTTAGTT
1 TATTTCATTTTATTTTAATT
**
31125316 TATTTTGTTTTATTTTAATT
1 TATTTCATTTTATTTTAATT
31125336 TATTT
1 TATTT
31125341 ATTATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (20 bp):
TATTTCATTTTATTTTAATT
Found at i:31128175 original size:100 final size:100
Alignment explanation
Indices: 31127997--31128176 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
31127987 TAATTTCTAA
* * * *
31127997 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGTTTAGGTTGTCATCTTTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTAGGTTGTCATCTCTCTTCGCGTCAAAACG
* *
31128062 TTCGATATGTTCCTAGGAATAATAATAAATATTAG
66 TACGATATATTCCTAGGAATAATAATAAATATTAG
* *
31128097 GAATGTGCTGGGCTGAGTAACCGGTGTG-GGATGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAC
1 GAATGTGCTGGGCTGAGTAACCGGGGTGAGG-TGCTTAGGTTGTCATCTCTCTTCGCGTCAAAAC
31128161 GTAC-AGTATATTCCTA
65 GTACGA-TATATTCCTA
31128177 AGTGAAAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 3 0.04
100 67 0.96
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (100 bp):
GAATGTGCTGGGCTGAGTAACCGGGGTGAGGTGCTTAGGTTGTCATCTCTCTTCGCGTCAAAACG
TACGATATATTCCTAGGAATAATAATAAATATTAG
Found at i:31128845 original size:27 final size:26
Alignment explanation
Indices: 31128785--31128846 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
31128775 ATAAGACTCC
31128785 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
31128811 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
31128839 ATTTTATT
1 ATTTTATT
31128847 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:31132637 original size:43 final size:42
Alignment explanation
Indices: 31132521--31132675 Score: 124
Period size: 43 Copynumber: 3.6 Consensus size: 42
31132511 TGTACAATGC
* * *
31132521 CAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATTAATG
1 CAACGTCCTAGACGTGGTCTTACACGTAAATCAAATAATAA-G
*
31132563 CCACTGTCCTAGACAG-GGTCTTACACG-AAATCAAATACGATAA-
1 CAAC-GTCCTAGAC-GTGGTCTTACACGTAAATCAAATA--ATAAG
*
31132606 CAACGTCCTAGACGTGATCTTACACGTAAATC--ATAAGTCAATG
1 CAACGTCCTAGACGTGGTCTTACACGTAAATCAAATAA-T-AA-G
* *
31132649 CCAACATCCCAGACGTGGTCTTACACG
1 -CAACGTCCTAGACGTGGTCTTACACG
31132676 AAAACACATA
Statistics
Matches: 92, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 6 0.07
42 22 0.24
43 35 0.38
44 24 0.26
45 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
CAACGTCCTAGACGTGGTCTTACACGTAAATCAAATAATAAG
Found at i:31135009 original size:28 final size:27
Alignment explanation
Indices: 31134952--31135103 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
31134942 TAAATTGTGC
*
31134952 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
31134979 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
31135007 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
31135034 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
31135062 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
31135089 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31135104 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:31135017 original size:55 final size:55
Alignment explanation
Indices: 31134952--31135103 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
31134942 TAAATTGTGC
*
31134952 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
31135007 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
31135062 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
31135104 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:31142258 original size:37 final size:37
Alignment explanation
Indices: 31142150--31142258 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
31142140 GGAAATATAT
*
31142150 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
31142187 TCGGGGTAAGACCCGATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
31142224 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
31142259 CATCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31143607 original size:56 final size:56
Alignment explanation
Indices: 31143446--31143608 Score: 211
Period size: 56 Copynumber: 2.9 Consensus size: 56
31143436 TACATGTAAT
* * * * * *
31143446 CACATATCGATGACAACATACTAGACGTGGTCTTACTCGCACACATATACCAGAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAGAAC
* **
31143502 CACATATCGATGCTAACGTATTAAACGTGGTCTTACTCGCACACATATATTGGAAC
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAGAAC
* *
31143558 CACATATTGATGCCAACGTATTAAATGTGGTCTTACAT-GCACACATATATC
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTAC-TCGCACACATATATC
31143609 GATGCCATGG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 92 0.99
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAGAAC
Found at i:31152394 original size:28 final size:29
Alignment explanation
Indices: 31152363--31152461 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 29
31152353 GTATCGGGGA
31152363 TGGCACTTAGTGTGC-AATACATCCAGAC
1 TGGCACTTAGTGTGCGAATACATCCAGAC
**
31152391 TGGCACTTAGTGTGCGAAGTA-A-CGGGGA-
1 TGGCACTTAGTGTGCGAA-TACATC-CAGAC
*
31152419 TGGCACTTAGTGTGCGAA-ACATCTAGAAC
1 TGGCACTTAGTGTGCGAATACATCCAG-AC
31152448 -GGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
31152462 AAGGTATCAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 50 0.83
29 5 0.08
30 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (29 bp):
TGGCACTTAGTGTGCGAATACATCCAGAC
Found at i:31152421 original size:56 final size:57
Alignment explanation
Indices: 31152335--31152496 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 57
31152325 TAGTTATATG
** *
31152335 TGGCACTTAACGTGTGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAG-AC
1 TGGCACTTAGTGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAAC
* *
31152391 TGGCACTTAGTGTGCGAAGTAACGGGGATGGCACTTAGTGTGCGAA-ACATCTAGAAC
1 TGGCACTTAGTGTGCGAAGTATCGGGGATGGCACTTAGTGTGC-AATACATCCAGAAC
* * *
31152448 -GGCACTTAGTGTGC-AAGGTATCAGGTATGGCA-TCTAGTGTGCGATACAT
1 TGGCACTTAGTGTGCGAA-GTATCGGGGATGGCACT-TAGTGTGCAATACAT
31152497 TGAATATTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
55 4 0.04
56 84 0.91
57 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (57 bp):
TGGCACTTAGTGTGCGAAGTATCGGGGATGGCACTTAGTGTGCAATACATCCAGAAC
Done.