Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 62
Found at i:5784855 original size:30 final size:30
Alignment explanation
Indices: 5784784--5784861 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
5784774 TTATTTTTAC
* * *
5784784 TTTTTTAT-TATTATTTTATTTTTTTGTTT
1 TTTTTTATATTTTATTTTATTTCTTTATTT
*
5784813 TATTTATATATTTTATTCTT-TTTCTTTATTT
1 T-TTTTTATATTTTATT-TTATTTCTTTATTT
5784844 TTTTTTATA-TTTATTTTA
1 TTTTTTATATTTTATTTTA
5784862 CTTACTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
28 2 0.05
29 7 0.17
30 13 0.32
31 16 0.40
32 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTTATATTTTATTTTATTTCTTTATTT
Found at i:5784878 original size:39 final size:40
Alignment explanation
Indices: 5784789--5784883 Score: 92
Period size: 39 Copynumber: 2.4 Consensus size: 40
5784779 TTTACTTTTT
* *
5784789 TATTATTAT-TTTATTTTTTTGTTTTATTTATATATTTTAT
1 TATT-TTATCTTTATTTTTTTGTTATATTTATATATTTTAC
*
5784829 TCTTTT-TCTTTATTTTTTT-TTATATTTAT-T-TTACTTAC
1 TATTTTATCTTTATTTTTTTGTTATATTTATATATT--TTAC
*
5784867 TATTTTATCTTTGTTTT
1 TATTTTATCTTTATTTT
5784884 CTTTATCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 2 0.04
37 1 0.02
38 18 0.39
39 22 0.48
40 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (40 bp):
TATTTTATCTTTATTTTTTTGTTATATTTATATATTTTAC
Found at i:5787347 original size:22 final size:21
Alignment explanation
Indices: 5787300--5787374 Score: 102
Period size: 22 Copynumber: 3.6 Consensus size: 21
5787290 GTTCAGTATT
5787300 CGTCCCGAAGGACCACT-AT-
1 CGTCCCGAAGGACCACTGATA
5787319 -GTCCCGAAGGACCACTAGATA
1 CGTCCCGAAGGACCACT-GATA
*
5787340 CGTCCCGAAGGACCATTGGATA
1 CGTCCCGAAGGACCACT-GATA
5787362 CGTCCCGAAGGAC
1 CGTCCCGAAGGAC
5787375 TAATATACCC
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
18 16 0.32
20 2 0.04
22 32 0.64
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (21 bp):
CGTCCCGAAGGACCACTGATA
Found at i:5788823 original size:64 final size:64
Alignment explanation
Indices: 5788706--5788871 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 64
5788696 GCATCCCTTG
** * *
5788706 ACGGGTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCAATGTT-TGTATTTTAA
1 ACGGGTGCATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCAATGTTAT-TAATTTAA
* * * * *
5788770 GCGGGTGCATCGATGCAATGCTTATGCATCGATGCATAAATGGC-ATTCGATGTTCAATTAATTT
1 ACGGGTGCATCGATGCACTACTTATGCATCGATGCATAAAT-CCTATTCAATGTT--ATTAATTT
5788834 AA
63 AA
* * *
5788836 ATGAGTGCATCGATGCACTCCTTATGCATCGATGCA
1 ACGGGTGCATCGATGCACTACTTATGCATCGATGCA
5788872 CCTTTAACAA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
64 44 0.52
65 1 0.01
66 38 0.45
67 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (64 bp):
ACGGGTGCATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCAATGTTATTAATTTAA
Found at i:5792155 original size:22 final size:22
Alignment explanation
Indices: 5792123--5792223 Score: 166
Period size: 22 Copynumber: 4.6 Consensus size: 22
5792113 GTTCAGTATT
*
5792123 CGTCCCGAAGGACCACTAGATA
1 CGTCCCGAAGGACCACTGGATA
*
5792145 CGTCCCAAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
5792167 TGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
5792189 TGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
5792211 CGTCCCGAAGGAC
1 CGTCCCGAAGGAC
5792224 TAATATACCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.15
Consensus pattern (22 bp):
CGTCCCGAAGGACCACTGGATA
Found at i:5793714 original size:66 final size:64
Alignment explanation
Indices: 5793559--5793721 Score: 190
Period size: 64 Copynumber: 2.5 Consensus size: 64
5793549 TCCCTTGACG
* * * *
5793559 GGTGCATCGATGCACTACC-CATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCA
1 GGTGCATCGATGCACT-CCTTATGCATCGATGCATAAATCCTATTCGATGTTAGTATTTAAAGCA
* *
5793623 GGTTCATCGATGCACTCCTTATGCATCGATGCATAAATGGC-ATTCGATGTTCAGTTAATTTAAA
1 GGTGCATCGATGCACTCCTTATGCATCGATGCATAAAT-CCTATTCGATGTT-AG-T-ATTTAAA
5793687 TG-A
62 -GCA
5793690 -GTGCATCGATGCACTCCTTATGCATCGATGCA
1 GGTGCATCGATGCACTCCTTATGCATCGATGCA
5793722 CCTTTAACAA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
63 2 0.02
64 42 0.49
65 2 0.02
66 32 0.37
67 7 0.08
68 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
GGTGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTAGTATTTAAAGCA
Found at i:5796586 original size:21 final size:20
Alignment explanation
Indices: 5796562--5796606 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5796552 ATCAGAACAA
*
5796562 AAAGAAAAAAGAGAAAAAAGC
1 AAAGAAAAAAGA-AAAAAACC
* *
5796583 AAAGAGAAAATAAAAAAACC
1 AAAGAAAAAAGAAAAAAACC
5796603 AAAG
1 AAAG
5796607 GAAATTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.76, C:0.07, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAAGAAAAAAACC
Found at i:5796795 original size:69 final size:69
Alignment explanation
Indices: 5796684--5796821 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
5796674 GATTCAAACT
* *
5796684 ATGAGATTGATCAAGCACAATCATTTTCGAATCACTGAATCACTTCACTCGAAGATTATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
5796749 TCAA
66 TCAA
* *
5796753 ATGAGATTGATCAAGCACAATCATTTCCGAATCATTGAATCACTTCACTCGAAGATCATGGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
5796818 TCAA
66 TCAA
5796822 GAGAGAGAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:5797783 original size:32 final size:32
Alignment explanation
Indices: 5797746--5797865 Score: 127
Period size: 32 Copynumber: 3.8 Consensus size: 32
5797736 GGAACAATGA
5797746 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAAATGTTG
* * ** **
5797778 TGGCATTTTTTTAGATTGGACATCAAATGTTG
1 GGGCATCTTTGAAGATTCAACATCAAATGTTG
* *
5797810 GGGCATTTTTTGAA-ATTCAACATCAAATATTG
1 GGGCA-TCTTTGAAGATTCAACATCAAATGTTG
*
5797842 GGGCATCTTTG-GGAATTCAACATC
1 GGGCATCTTTGAAG-ATTCAACATC
5797866 CTGATGCAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
31 5 0.07
32 60 0.85
33 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (32 bp):
GGGCATCTTTGAAGATTCAACATCAAATGTTG
Found at i:5798691 original size:106 final size:106
Alignment explanation
Indices: 5798412--5798717 Score: 405
Period size: 106 Copynumber: 2.9 Consensus size: 106
5798402 GCCACCTGCG
* * * *
5798412 ATTTCAACTCCACGACGAAGGATATCGTGCCACTCGAGACAACACAAGTTTAACTTCACAATGAA
1 ATTTCAACTTCACAACGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAATGAA
* *
5798477 GGGATGACTAGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
63 GGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* *
5798521 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAATACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGG
*
5798586 ACGACTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
66 ACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * * ** * *
5798627 ATTTCAACTTCAGAGCGAATGATATTGGACTCGAGACAACACAAACTCAACTTCACAGTAAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGG
* * * *
5798692 GCGGCTGGCTGTCAACAAATAATTTC
66 ACGACTGGTTGTCAACAAACAATTTC
5798718 TTAGTTCTAT
Statistics
Matches: 175, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
106 150 0.86
107 2 0.01
109 23 0.13
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGG
ACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
Found at i:5799129 original size:65 final size:65
Alignment explanation
Indices: 5798980--5799151 Score: 177
Period size: 65 Copynumber: 2.6 Consensus size: 65
5798970 CTTGAGACAT
* * *
5798980 TTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCTCTTGAAAC-AAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
5799045 A
65 A
* ** * * * *
5799046 TTTCCCTTGAAATGAATTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATC
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC
*
5799109 TG
65 -A
* * *
5799111 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCT
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCT
5799152 TTTGGAACTA
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
64 6 0.07
65 70 0.82
66 9 0.11
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (65 bp):
TTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:5799197 original size:167 final size:167
Alignment explanation
Indices: 5798913--5799276 Score: 624
Period size: 167 Copynumber: 2.2 Consensus size: 167
5798903 ACAGTTTCCA
* * *
5798913 AGTTT-TCATTGAAACAAAATATTTAAATCTGTTTTCATTAAAACTAATTTCGTCTCCCTTGAGA
1 AGTTTCTC-TTGAAACAAAATCTTTGAATCTGTTTTCATTAAAACAAATTTCGTCTCCCTTGAGA
5798977 CATTTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
65 CATTTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
5799042 AACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGAT
130 AACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGAT
*
5799080 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCTC-TTGAAACAAATTTCGTCTCCCTTGAGA
1 AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTT-TCATTAAAACAAATTTCGTCTCCCTTGAGA
* * *
5799144 CATTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAA
65 CATTTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
*
5799209 AACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGAT
130 AACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGAT
5799247 AGTTTCTCTTGAAACAAAATCTTTGAATCT
1 AGTTTCTCTTGAAACAAAATCTTTGAATCT
5799277 AAACAAAATC
Statistics
Matches: 187, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
167 183 0.98
168 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.41
Consensus pattern (167 bp):
AGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTTCATTAAAACAAATTTCGTCTCCCTTGAGAC
ATTTTCTTTTGGAACTAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAA
ACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGAT
Found at i:5799243 original size:102 final size:102
Alignment explanation
Indices: 5799062--5799245 Score: 255
Period size: 102 Copynumber: 1.8 Consensus size: 102
5799052 TTGAAATGAA
* * * *
5799062 TTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCCCTTGAAACAAA
5799127 TTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAG
66 TTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAG
* **
5799164 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC-ATTTCCCTTGAAATG
1 TTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCATTG-AAACTATTTCCCTTGAAACA
* *
5799227 AATTTTGTCTCTCTTGAGA
64 AATTTCGTCTCCCTTGAGA
5799246 TAGTTTCTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
102 65 0.92
103 6 0.08
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (102 bp):
TTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCATTGAAACTATTTCCCTTGAAACAAA
TTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAG
Found at i:5799282 original size:19 final size:19
Alignment explanation
Indices: 5799258--5799295 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5799248 GTTTCTCTTG
5799258 AAACAAAATCTTTGAATCT
1 AAACAAAATCTTTGAATCT
5799277 AAACAAAATCTTTGAATCT
1 AAACAAAATCTTTGAATCT
5799296 GTTTCCCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
AAACAAAATCTTTGAATCT
Found at i:5799404 original size:102 final size:100
Alignment explanation
Indices: 5799297--5799618 Score: 394
Period size: 102 Copynumber: 3.2 Consensus size: 100
5799287 TTTGAATCTG
* * * * * * *
5799297 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTC-CTTGAAAC-AAATTTTGTCTCCCT
* *
5799362 TGAGATAGTTTCTCTTGAAATATAAACATTGAAAACA
64 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
5799399 TTTCCCTTGAGATGAATTTTGTCTCTCTTGAGATAGGTTTCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA-GTTTCCTTGAAAC-AAATTTTGTCTCCCT
5799464 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
64 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
** * *
5799501 TTTCCCTTGAAATGAATTTTGTC-ACTTATGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCT-TGAGATAGTTT-CCTTGAAACAAATTTTGTCTCCCT
* *
5799565 TGAGACAGTTTCTCTTGAAGCATAAACTTTGAAAACA
64 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
5799602 GTTTCCTTTGAAACAAA
1 -TTTCCCTTGAAACAAA
5799619 ATCTTTGAAT
Statistics
Matches: 193, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
101 55 0.28
102 134 0.69
103 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (100 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCCTTGAAACAAATTTTGTCTCCCTTG
AGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:5799405 original size:186 final size:185
Alignment explanation
Indices: 5799091--5799456 Score: 680
Period size: 186 Copynumber: 2.0 Consensus size: 185
5799081 GTTTCTCTTG
*
5799091 AAACAAAATCTTTGAATCTGTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTG
1 AAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTG
5799156 GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
66 GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
5799221 GAAATGAATTTTGTCTCTCTTGAGATA-GTTTCTCTTGAAACAAAATCTTTGAATCT
131 GAAATGAATTTTGTCTCTCTTGAGATAGGTTTC-CTTGAAACAAAAT-TTTGAATCT
5799277 AAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTG
1 AAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTG
*
5799342 GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAATATAAACATTGAAAACATTTCCCTT
66 GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
*
5799407 GAGATGAATTTTGTCTCTCTTGAGATAGGTTTCCTTGAAACAAAATTTTG
131 GAAATGAATTTTGTCTCTCTTGAGATAGGTTTCCTTGAAACAAAATTTTG
5799457 TCTCCCTTGA
Statistics
Matches: 176, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
185 4 0.02
186 167 0.95
187 5 0.03
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (185 bp):
AAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTG
GAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
GAAATGAATTTTGTCTCTCTTGAGATAGGTTTCCTTGAAACAAAATTTTGAATCT
Found at i:5799454 original size:37 final size:37
Alignment explanation
Indices: 5799413--5799485 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
5799403 CCTTGAGATG
* *
5799413 AATTTTGTCTCTCTTGAGATAGGTTTC-CTTGAAACAA
1 AATTTTGTCTCCCTTGAGACA-GTTTCTCTTGAAACAA
5799450 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
5799486 TAAACATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 5 0.15
37 28 0.85
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
Found at i:5799569 original size:36 final size:36
Alignment explanation
Indices: 5799501--5799583 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
5799491 ATTGAAAACA
** * *
5799501 TTTCCCTTGAAATGAATTTTGTCACTTATGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCACCTATGAGACAG
*
5799537 TTTCCCTTGAAACAAATTTTGTCTCCCT-TGAGACAG
1 TTTCCCTTGAAACAAATTTTGTC-ACCTATGAGACAG
*
5799573 TTTCTCTTGAA
1 TTTCCCTTGAA
5799584 GCATAAACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCACCTATGAGACAG
Found at i:5799603 original size:30 final size:30
Alignment explanation
Indices: 5799569--5799627 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5799559 CTCCCTTGAG
*
5799569 ACAGTTT-CTCTTGAAGCATAAA-CTTTGAAA
1 ACAGTTTCCT-TTGAAACA-AAATCTTTGAAA
5799599 ACAGTTTCCTTTGAAACAAAATCTTTGAA
1 ACAGTTTCCTTTGAAACAAAATCTTTGAA
5799628 TATGTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (30 bp):
ACAGTTTCCTTTGAAACAAAATCTTTGAAA
Found at i:5799729 original size:36 final size:36
Alignment explanation
Indices: 5799682--5799750 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
5799672 GTTTGGAAGT
* * *
5799682 TTTTGTTTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
5799718 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
1 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC
5799751 TTCAATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
Found at i:5800913 original size:2 final size:2
Alignment explanation
Indices: 5800895--5800944 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
5800885 TTTACTTTAG
* *
5800895 TA TA TA TT TT TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5800936 TA TA TA TA T
1 TA TA TA TA T
5800945 TATTTTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:5801010 original size:20 final size:19
Alignment explanation
Indices: 5800962--5801101 Score: 85
Period size: 18 Copynumber: 7.2 Consensus size: 19
5800952 TTATTATCAG
* * *
5800962 TTTTATTAATTTTTATATA
1 TTTTATTTATATTTATTTA
*
5800981 TATATATTTACTATTTATTTA
1 T-TTTATTTA-TATTTATTTA
5801002 TTTTATTTAT-TTTATATATA
1 TTTTATTTATATTTAT-T-TA
*
5801022 TATATTATTTTTACTTT-TTTA
1 T-T-TTATTTATA-TTTATTTA
*
5801043 TTATTATTT-T-TTTATTTG
1 TT-TTATTTATATTTATTTA
*
5801061 TTTTATTTATATTTATAT-
1 TTTTATTTATATTTATTTA
*
5801079 TTTTCTTTATATTT-TTATA
1 TTTTATTTATATTTATT-TA
5801098 TTTT
1 TTTT
5801102 TATATTTCTT
Statistics
Matches: 98, Mismatches: 10, Indels: 26
0.73 0.07 0.19
Matches are distributed among these distances:
17 10 0.10
18 25 0.26
19 14 0.14
20 24 0.24
21 13 0.13
22 8 0.08
23 1 0.01
24 3 0.03
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTTATTTATATTTATTTA
Found at i:5801012 original size:24 final size:23
Alignment explanation
Indices: 5800985--5801101 Score: 66
Period size: 22 Copynumber: 4.9 Consensus size: 23
5800975 TATATATATA
5800985 TATTTACTATTTATTTATTTTATT
1 TATTTA-TATTTATTTATTTTATT
5801009 TATTTTATATATATATATTATTTTTACTT
1 TA-TTTATAT-T-TAT-TTA-TTTTA-TT
5801038 T-TTTAT-TATTATTT-TTTTATT
1 TATTTATAT-TTATTTATTTTATT
* *
5801059 TGTTT-TATTTATATTTATATT-TT
1 TATTTATA-TT-TATTTATTTTATT
*
5801082 TCTTTATATTT-TTATATTTT
1 TATTTATATTTATT-TATTTT
5801102 TATATTTCTT
Statistics
Matches: 77, Mismatches: 3, Indels: 28
0.71 0.03 0.26
Matches are distributed among these distances:
21 6 0.08
22 15 0.19
23 14 0.18
24 12 0.16
25 8 0.10
26 6 0.08
27 8 0.10
28 5 0.06
29 3 0.04
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.73
Consensus pattern (23 bp):
TATTTATATTTATTTATTTTATT
Found at i:5801015 original size:39 final size:44
Alignment explanation
Indices: 5800930--5801027 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 44
5800920 TATATATATA
* *
5800930 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTT
1 TATATATATATAT-TTATCTATTTATTATCAGTTTTATTAATTTT
*
5800975 TATATATATATATTTA-CTATTTATT-T-A-TTTTATTTA-TTT
1 TATATATATATATTTATCTATTTATTATCAGTTTTATTAATTTT
5801014 TATATATATATATT
1 TATATATATATATT
5801028 ATTTTTACTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
39 17 0.34
40 8 0.16
41 1 0.02
42 1 0.02
43 7 0.14
44 3 0.06
45 13 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (44 bp):
TATATATATATATTTATCTATTTATTATCAGTTTTATTAATTTT
Found at i:5801041 original size:27 final size:27
Alignment explanation
Indices: 5801002--5801082 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 27
5800992 TATTTATTTA
*
5801002 TTTTATTTATTTTATATATATATATTAT
1 TTTTACTTATTTTATATATAT-TATTAT
5801030 TTTTAC-T-TTTT-TAT-TATTATT-T
1 TTTTACTTATTTTATATATATTATTAT
* * *
5801052 TTTTATTTGTTTTATTTATATT-TATAT
1 TTTTACTTATTTTATATATATTAT-TAT
5801079 TTTT
1 TTTT
5801083 CTTTATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
22 6 0.14
23 5 0.11
24 7 0.16
25 6 0.14
26 9 0.20
27 6 0.14
28 5 0.11
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTACTTATTTTATATATATTATTAT
Found at i:5801043 original size:41 final size:40
Alignment explanation
Indices: 5800932--5801057 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 40
5800922 TATATATATA
* *
5800932 TATATATATATATTATTTTT-TTATTATCAGTTTTATTAATTT
1 TATATATATATATTATTTTTATT-TT-TTA-TTTTATTTATTT
*
5800974 T-TATATATATA-TATTTACTATTTATTTATTTTATTTATTT
1 TATATATATATATTATTT-TTATTT-TTTATTTTATTTATTT
5801014 TATATATATATATTATTTTTACTTTTTTATTATTATTT-TTT
1 TATATATATATATTATTTTTA-TTTTTTATT-TTATTTATTT
5801055 TAT
1 TAT
5801058 TTGTTTTATT
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
40 17 0.23
41 38 0.52
42 18 0.25
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (40 bp):
TATATATATATATTATTTTTATTTTTTATTTTATTTATTT
Found at i:5801047 original size:39 final size:38
Alignment explanation
Indices: 5800930--5801047 Score: 107
Period size: 39 Copynumber: 3.0 Consensus size: 38
5800920 TATATATATA
* *
5800930 TATATATATATATATTATTTTTTTATTATCAGTTTTATTAATTTT
1 TATATATATATAT-TTA-CTATTTATT-T-A-TTTTATT-A-TTT
5800975 TATATATATATATTTACTATTTATTTATTTTATTTATTT
1 TATATATATATATTTACTATTTATTTATTTTA-TTATTT
* *
5801014 TATATATATATA-TTA-TTTTTACTT-TTTTATTATT
1 TATATATATATATTTACTATTTATTTATTTTATTATT
5801048 ATTTTTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
35 5 0.07
36 5 0.07
37 7 0.10
38 3 0.04
39 15 0.22
40 6 0.09
41 3 0.04
42 1 0.01
43 7 0.10
44 3 0.04
45 13 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (38 bp):
TATATATATATATTTACTATTTATTTATTTTATTATTT
Found at i:5801065 original size:50 final size:50
Alignment explanation
Indices: 5800903--5801114 Score: 139
Period size: 49 Copynumber: 4.2 Consensus size: 50
5800893 AGTATATATT
* * * * *
5800903 TTTATTATATATATATATATATATATATATATATATATATATTATTTTTTTA
1 TTTATTTTATATATATATATATTTTTCTTTATAT-TAT-TATTATTTTTTTA
* * * * * * *
5800955 TTATCAGTTTTAT-TA-ATTTTTATATATATATAT-TTACTATTTATTTATTTTA
1 TT-T-A-TTTTATATATATATATATTTTTCTTTATATTATTA-TTATTT-TTTTA
5801007 TTTATTTTATATATATATATTATTTTTACTTT-T-TTATTATTATTTTTTTA
1 TTTATTTTATATATATATA-TATTTTT-CTTTATATTATTATTATTTTTTTA
* * * * *
5801057 TTTGTTTTATTTATATTTATATTTTTCTTTATATTTTTA-TATTTTTATA
1 TTTATTTTATATATATATATATTTTTCTTTATATTATTATTATTTTTTTA
*
5801106 TTTCTTTTA
1 TTTATTTTA
5801115 CTTACTATTT
Statistics
Matches: 132, Mismatches: 17, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
48 4 0.03
49 31 0.23
50 31 0.23
51 18 0.14
52 21 0.16
53 19 0.14
54 3 0.02
55 5 0.04
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (50 bp):
TTTATTTTATATATATATATATTTTTCTTTATATTATTATTATTTTTTTA
Found at i:5801087 original size:18 final size:19
Alignment explanation
Indices: 5800962--5801104 Score: 66
Period size: 20 Copynumber: 7.3 Consensus size: 19
5800952 TTATTATCAG
*
5800962 TTTTATTAAT-TTTTATAT
1 TTTTATTTATATTTTATAT
* *
5800980 ATATATATTTACTA-TTTATTT
1 -T-TTTATTTA-TATTTTATAT
5801001 ATTTTA-TT-TATTTTATAT
1 -TTTTATTTATATTTTATAT
* *
5801019 ATATATATTAT-TTTTACT-T
1 TTTTAT-TTATATTTTA-TAT
* *
5801038 TTTTATTATTATTTTTTTATTT
1 TTTTA-T-TTA-TATTTTATAT
5801060 GTTTTATTTATA-TTTATAT
1 -TTTTATTTATATTTTATAT
*
5801079 TTTTCTTTATATTTTTATAT
1 TTTTATTTATA-TTTTATAT
5801099 TTTTAT
1 TTTTAT
5801105 ATTTCTTTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
17 5 0.05
18 16 0.17
19 20 0.21
20 29 0.30
21 14 0.15
22 7 0.07
23 5 0.05
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTTATTTATATTTTATAT
Found at i:5801095 original size:26 final size:25
Alignment explanation
Indices: 5800994--5801104 Score: 50
Period size: 26 Copynumber: 4.2 Consensus size: 25
5800984 ATATTTACTA
*
5800994 TTTATTTATTTTATT-TATTTTATATA
1 TTTATTTATTTT-TTATA-TTTATATT
* *
5801020 TATATATTA-TTTTTACTTTTTTATTATT
1 TTTAT-TTATTTTTTA--TATTTA-TATT
*
5801048 ATTTTTTTATTTGTTT-TATTTATATT
1 -TTTATTTATTT-TTTATATTTATATT
* *
5801074 TATATTT-TTCTTTATATTTTTATATT
1 TTTATTTATT-TTT-TATATTTATATT
5801100 TTTAT
1 TTTAT
5801105 ATTTCTTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
24 4 0.06
25 9 0.14
26 24 0.38
27 12 0.19
28 7 0.11
29 5 0.08
30 3 0.05
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (25 bp):
TTTATTTATTTTTTATATTTATATT
Found at i:5801097 original size:8 final size:8
Alignment explanation
Indices: 5800981--5801108 Score: 54
Period size: 8 Copynumber: 15.9 Consensus size: 8
5800971 TTTTTATATA
*
5800981 TATATATT
1 TATATTTT
5800989 TACTATTTAT
1 TA-TATTT-T
5800999 T-TATTTT
1 TATATTTT
*
5801006 ATTTATTTT
1 -TATATTTT
* *
5801015 ATATATATA
1 -TATATTTT
5801024 TATTATTTT
1 TA-TATTTT
*
5801033 TA-CTTTT
1 TATATTTT
*
5801040 T-TATTAT
1 TATATTTT
5801047 TAT-TTTT
1 TATATTTT
5801054 T-TATTTGT
1 TATATTT-T
*
5801062 T-T-TATT
1 TATATTTT
*
5801068 TATATTTA
1 TATATTTT
*
5801076 TATTTTTCTT
1 TA-TATT-TT
5801086 TATATTTT
1 TATATTTT
5801094 TATATTTT
1 TATATTTT
5801102 TATATTT
1 TATATTT
5801109 CTTTTACTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
6 3 0.03
7 20 0.22
8 35 0.38
9 28 0.31
10 5 0.05
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (8 bp):
TATATTTT
Found at i:5804304 original size:2 final size:2
Alignment explanation
Indices: 5804297--5804364 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
5804287 AGAAATTTCA
5804297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5804339 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5804365 GGGAAATATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5805925 original size:23 final size:23
Alignment explanation
Indices: 5805898--5805942 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
5805888 AACTAATTAG
5805898 TTTTAATAATAA-AATAAGTAATT
1 TTTTAATAATAATAATAA-TAATT
5805921 TTTTAATAATAATAATAATAAT
1 TTTTAATAATAATAATAATAAT
5805943 AAAATATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTAATAATAATAATAATAATT
Found at i:5806134 original size:14 final size:15
Alignment explanation
Indices: 5806098--5806148 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
5806088 CGGCTCTATT
*
5806098 TTTTATATT-TTTAA
1 TTTTATATTATTAAA
5806112 -TTTATATTA-TAATA
1 TTTTATATTATTAA-A
5806126 TTTTA-ATTATTAAA
1 TTTTATATTATTAAA
5806140 TTTTATATT
1 TTTTATATT
5806149 TAATTCATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 10 0.32
14 11 0.35
15 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTATATTATTAAA
Found at i:5811706 original size:14 final size:14
Alignment explanation
Indices: 5811684--5811720 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5811674 TGTGAGTGAA
*
5811684 ATAAGATATTTTAT
1 ATAAAATATTTTAT
5811698 ATAAAATATTTTAT
1 ATAAAATATTTTAT
5811712 ATATAAATA
1 ATA-AAATA
5811721 AAAACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
ATAAAATATTTTAT
Found at i:5812873 original size:60 final size:60
Alignment explanation
Indices: 5812764--5812893 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 60
5812754 ATTCGGTGAT
* * * ** * * *
5812764 CATTTTGTAACTTTTAATAGTCGAGGGACTTAACAATGCAACGACCTATATTCGGGGGAC
1 CATTTTGTAACTTGTAATAGTAGAGGGACTCAACAAAACAACGACCTATAATCGAGAGAC
*
5812824 CATTTTGTAACTTGTAATAATTAGA-GGACTCAACAAAACAAC-ACTCTATAATCGAGAGAC
1 CATTTTGTAACTTGTAAT-AGTAGAGGGACTCAACAAAACAACGAC-CTATAATCGAGAGAC
5812884 CATTTGTGTA
1 CATTT-TGTA
5812894 CTTTATGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 48 0.83
61 8 0.14
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (60 bp):
CATTTTGTAACTTGTAATAGTAGAGGGACTCAACAAAACAACGACCTATAATCGAGAGAC
Found at i:5817323 original size:24 final size:25
Alignment explanation
Indices: 5817276--5817323 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5817266 TTTTGTCAAT
*
5817276 CACTCCCTCTTTTTCCGATCAAAAC
1 CACTCCCTCTTTTTCCGATAAAAAC
5817301 CACTCCC-CTTTTTTCC-ATAAAAA
1 CACTCCCTC-TTTTTCCGATAAAAA
5817324 ATGACCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (25 bp):
CACTCCCTCTTTTTCCGATAAAAAC
Found at i:5817762 original size:15 final size:16
Alignment explanation
Indices: 5817735--5817765 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5817725 TAATGCATGC
5817735 TAACTGCTTAACAACT
1 TAACTGCTTAACAACT
5817751 TAACTG-TTAACAACT
1 TAACTGCTTAACAACT
5817766 AGGAGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (16 bp):
TAACTGCTTAACAACT
Found at i:5819874 original size:12 final size:12
Alignment explanation
Indices: 5819857--5819881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5819847 AGTCATTTCT
5819857 GTCTCTAAGGAG
1 GTCTCTAAGGAG
5819869 GTCTCTAAGGAG
1 GTCTCTAAGGAG
5819881 G
1 G
5819882 CAATTTAAGC
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:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (12 bp):
GTCTCTAAGGAG
Found at i:5823675 original size:18 final size:18
Alignment explanation
Indices: 5823652--5823703 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
5823642 ATATAACACA
5823652 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
5823670 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
5823688 TATGTCCCGAAAGACC
1 TATGTCCCGAAGGACC
5823704 GCGTAGATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:5824825 original size:20 final size:21
Alignment explanation
Indices: 5824802--5824844 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5824792 TACCATTACT
5824802 TAAACCAAC-TTATATCCATA
1 TAAACCAACTTTATATCCATA
* *
5824822 TAAACCATCTTTATCTCCATA
1 TAAACCAACTTTATATCCATA
5824843 TA
1 TA
5824845 TCATCAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAACCAACTTTATATCCATA
Found at i:5828919 original size:22 final size:22
Alignment explanation
Indices: 5828894--5828938 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
5828884 ATCTACAACC
5828894 TTAATAACAT-AAAAATCAAGCT
1 TTAA-AACATCAAAAATCAAGCT
*
5828916 TTAAATCATCAAAAATCAAGCT
1 TTAAAACATCAAAAATCAAGCT
5828938 T
1 T
5828939 GTTCTTCGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (22 bp):
TTAAAACATCAAAAATCAAGCT
Found at i:5834125 original size:52 final size:52
Alignment explanation
Indices: 5834068--5834173 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 52
5834058 GGGTATTTTA
* *
5834068 ATTTATCT-TTCACTCATCAAAGTCT-TTTCAAACATCATCACAATCAAGTATC
1 ATTTAT-TATTCACTCATCAAAGTCTATTT-AAACATCAACAAAATCAAGTATC
* * * *
5834120 ATTTATTATTCACTTATCATAGTCTATTTAAATATTAACAAAATCAAGTATC
1 ATTTATTATTCACTCATCAAAGTCTATTTAAACATCAACAAAATCAAGTATC
5834172 AT
1 AT
5834174 ACAATATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 1 0.02
52 42 0.91
53 3 0.07
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (52 bp):
ATTTATTATTCACTCATCAAAGTCTATTTAAACATCAACAAAATCAAGTATC
Found at i:5835029 original size:24 final size:24
Alignment explanation
Indices: 5834954--5835014 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
5834944 CTAGAATATG
*
5834954 TTTTGAGCAGAATATGCTGCCCTA
1 TTTTGAGCAGAATATGCTGCCATA
5834978 TTTTGAGCAGAATATGCTGCCATA
1 TTTTGAGCAGAATATGCTGCCATA
*
5835002 TTTTGAGTAGAAT
1 TTTTGAGCAGAAT
5835015 CTGATGCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (24 bp):
TTTTGAGCAGAATATGCTGCCATA
Found at i:5836209 original size:12 final size:12
Alignment explanation
Indices: 5836192--5836222 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5836182 ACCATGCTTT
5836192 CATCATCCCTTA
1 CATCATCCCTTA
*
5836204 CATCATCCCTTG
1 CATCATCCCTTA
5836216 CATCATC
1 CATCATC
5836223 ACTGAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.03, T:0.32
Consensus pattern (12 bp):
CATCATCCCTTA
Found at i:5839498 original size:21 final size:21
Alignment explanation
Indices: 5839466--5839568 Score: 89
Period size: 21 Copynumber: 4.9 Consensus size: 21
5839456 ATCCTAGTAT
*
5839466 CGATACTCCTATTTCCAATAC
1 CGATACTACTATTTCCAATAC
* * * *
5839487 CGACACTACTATTTCTATTAT
1 CGATACTACTATTTCCAATAC
* * * *
5839508 TGATACTACTATTTCTAGTAT
1 CGATACTACTATTTCCAATAC
*
5839529 CGGTACTACTATTTCCAATAC
1 CGATACTACTATTTCCAATAC
** *
5839550 CTTTACTACTATTACCAAT
1 CGATACTACTATTTCCAAT
5839569 GTTGTTATTC
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (21 bp):
CGATACTACTATTTCCAATAC
Found at i:5840717 original size:51 final size:51
Alignment explanation
Indices: 5840661--5840775 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
5840651 GAAACCATAG
* *
5840661 AATAAAATAATAATAAATTAAAGATAATGTTTTGACTCTATCTTAATTCCT
1 AATAAAATAATAATAAACTAAAGATAATATTTTGACTCTATCTTAATTCCT
* * *
5840712 AATAAAATAATAATAAACTAAATATAATATTTTTACTCTATTTTAATTCCT
1 AATAAAATAATAATAAACTAAAGATAATATTTTGACTCTATCTTAATTCCT
5840763 AATAAAATAATAA
1 AATAAAATAATAA
5840776 ATCTAATCCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (51 bp):
AATAAAATAATAATAAACTAAAGATAATATTTTGACTCTATCTTAATTCCT
Found at i:5842391 original size:55 final size:55
Alignment explanation
Indices: 5842330--5842771 Score: 515
Period size: 55 Copynumber: 8.3 Consensus size: 55
5842320 TTCCATGGTT
* * * * ** *
5842330 TTGCACACATAGTGCCGATACAGTAATTCACAAACTTATTATGAATTAAGTGAAG
1 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTTGTGAGG
* *
5842385 TTGCACATATAGTGCCAATACAGAAATTCATAAAATCATTATGAATTTTGTGAGG
1 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTTGTGAGG
* * *
5842440 TTGCACACATAGTGCCAATA-TGAAAATTCATAAACTAATTATGAATTTCGTGAGG
1 TTGCACACATAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTTGTGAGG
*
5842495 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTTGTGAGG
1 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTTGTGAGG
* * **
5842550 TTGCACACATAGTGCCAATAC-GAAAATTCATAAATTAATTATGAATTTCATGAGG
1 TTGCACACATAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTTGTGAGG
*
5842605 TTACACACATAGTGCCAATA-AGGAAATTCATAAACTCATTATGAATTTTGTGAGG
1 TTGCACACATAGTGCCAATACA-GAAATTCATAAACTCATTATGAATTTTGTGAGG
* *
5842660 TTGCTCACATAGTGCCAATACGGAAATTCATAAACTC-------A---T-T-AGG
1 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTTGTGAGG
* *
5842703 TTGCACACATAGTGTCAATACGA-AAATTCATAAACTTATTATGAATTTCT-T-AGG
1 TTGCACACATAGTGCCAATAC-AGAAATTCATAAACTCATTATGAATTT-TGTGAGG
5842757 TTGCACACATAGTGC
1 TTGCACACATAGTGC
5842772 TCATTCGGTA
Statistics
Matches: 335, Mismatches: 34, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
43 35 0.10
44 1 0.00
45 1 0.00
48 1 0.00
50 1 0.00
54 21 0.06
55 273 0.81
56 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (55 bp):
TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTTGTGAGG
Found at i:5842722 original size:43 final size:43
Alignment explanation
Indices: 5842657--5842743 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
5842647 GAATTTTGTG
* *
5842657 AGGTTGCTCACATAGTGCCAATACGGAAATTCATAAACTCATT
1 AGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATT
* *
5842700 AGGTTGCACACATAGTGTCAATACGAAAATTCATAAACTTATT
1 AGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATT
5842743 A
1 A
5842744 TGAATTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (43 bp):
AGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATT
Found at i:5859353 original size:22 final size:23
Alignment explanation
Indices: 5859292--5859354 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
5859282 TCCATTTTCA
*
5859292 ACTTTAAATATTTTCTTTATCTTT
1 ACTTTAAATATCTT-TTTATCTTT
**
5859316 ACTTTAAATCGC-TTTTAT-TATT
1 ACTTTAAATATCTTTTTATCT-TT
5859338 A-TTTAAATATCTTTTTA
1 ACTTTAAATATCTTTTTA
5859355 CCAAAACCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 9 0.28
22 13 0.41
23 1 0.03
24 9 0.28
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.59
Consensus pattern (23 bp):
ACTTTAAATATCTTTTTATCTTT
Found at i:5863825 original size:24 final size:24
Alignment explanation
Indices: 5863761--5863828 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
5863751 TACAAAGGCC
*
5863761 TGTGCTTTTGCAGCATATGAAACT
1 TGTGCTTTTGCAGCAAATGAAACT
* * *
5863785 TGCGCTTTTACAGCAAATGAAGCT
1 TGTGCTTTTGCAGCAAATGAAACT
* *
5863809 TGTGCTTTTGTAACAAATGA
1 TGTGCTTTTGCAGCAAATGA
5863829 GTCCCCTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (24 bp):
TGTGCTTTTGCAGCAAATGAAACT
Found at i:5867195 original size:67 final size:67
Alignment explanation
Indices: 5867105--5867235 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
5867095 ATGAAGACTC
* * *
5867105 TGGCAGGTTCAGTAGCTGCTGGTAATTCCTTGTATAGGATCAGCATCGACTGGTAATTCCTTATC
1 TGGCAGGTTCACTAGCTGCTGGTAATTCCTTGAATAGGATCAGCACCGACTGGTAATTCCTTATC
5867170 AT
66 AT
* *
5867172 TGGCAGGTTCAACT-GCTGCTGGTAATTCGTTGAATAGGTTCAGCACCGACTGGTAATTCCTTAT
1 TGGCAGGTTC-ACTAGCTGCTGGTAATTCCTTGAATAGGATCAGCACCGACTGGTAATTCCTTAT
5867236 GGACCTAAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 56 0.97
68 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (67 bp):
TGGCAGGTTCACTAGCTGCTGGTAATTCCTTGAATAGGATCAGCACCGACTGGTAATTCCTTATC
AT
Found at i:5872041 original size:134 final size:133
Alignment explanation
Indices: 5871801--5872084 Score: 356
Period size: 134 Copynumber: 2.1 Consensus size: 133
5871791 ACGAATCAAA
* * * * *
5871801 CTCGATTCAATCTTCCTTGAGTGACAGTGGAATGAATCAGCATTCCCGTATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCTTAAGTGACAATGAAATGAATCA-CATTCCCATATATGATTTTACCTCA
* ** * *
5871866 AGAAGAAGCATAACAAATTTCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGT
65 AGAAAAAGCATAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAATGAAACAAGT
5871931 CTAC
130 CTAC
* *
5871935 CTCGATTCAATCTTCCTTAAGTGATAATGAAATGAATCA-ATGTCCCCATATTTGATTTTACCTC
1 CTCGATTCAATCTTCCTTAAGTGACAATGAAATGAATCACAT-T-CCCATATATGATTTTACCTC
* * * * *
5871999 AAGAAAAAGTGA-AACATATCCCTCTCTTTCAATATTTGATATTCCCTAAGTAATAGTGAAACAA
64 AAGAAAAAG-CATAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAATGAAACAA
5872063 GTCTAC
128 GTCTAC
*
5872069 CTCGATTCAATATTCC
1 CTCGATTCAATCTTCC
5872085 CTGAAGAGCA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
132 2 0.02
133 1 0.01
134 125 0.97
135 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (133 bp):
CTCGATTCAATCTTCCTTAAGTGACAATGAAATGAATCACATTCCCATATATGATTTTACCTCAA
GAAAAAGCATAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAATGAAACAAGTC
TAC
Found at i:5876309 original size:20 final size:20
Alignment explanation
Indices: 5876286--5876335 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5876276 ATTTAAAACA
5876286 ATATTTAATA-ATTCAAAAT
1 ATATTTAATATATTCAAAAT
*
5876305 CATATTTTAATATTTTCAAAAT
1 -ATA-TTTAATATATTCAAAAT
*
5876327 ATTTTTAAT
1 ATATTTAAT
5876336 TTTTAATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 9 0.35
22 8 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTTAATATATTCAAAAT
Found at i:5876339 original size:19 final size:22
Alignment explanation
Indices: 5876289--5876339 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
5876279 TAAAACAATA
*
5876289 TTTAATA-ATTCAAAATCATAT
1 TTTAATATTTTCAAAATCATAT
5876310 TTTAATATTTTCAAAAT-AT-T
1 TTTAATATTTTCAAAATCATAT
5876330 TTTAAT-TTTT
1 TTTAATATTTT
5876340 AATTCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 9 0.32
22 8 0.29
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATATTTTCAAAATCATAT
Found at i:5878107 original size:29 final size:29
Alignment explanation
Indices: 5878064--5878146 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
5878054 CTCACCTAAC
5878064 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
5878094 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
5878123 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
5878147 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:5882873 original size:29 final size:29
Alignment explanation
Indices: 5882830--5882912 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
5882820 CTCACCTAAC
5882830 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
5882860 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
5882889 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
5882913 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:5889080 original size:127 final size:126
Alignment explanation
Indices: 5888714--5889127 Score: 645
Period size: 127 Copynumber: 3.3 Consensus size: 126
5888704 TAATCGGGGT
*
5888714 ACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCTCGGGGGCGCGCCT
1 ACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGCGCGCCT
* * * *
5888779 TCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCACTTATGTCCCTCGGTA
66 TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCCAG-A
* * ***
5888841 ACTATTCATGTCAATACCTATTATTCCTTAGGGGATCGTGAAGG-G-GCT-GAAGGGGCGCGCCT
1 ACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGCGCGCCT
5888903 TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCCTAGA
66 TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCC-AGA
* * * *
5888965 ACTATTTATATAAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGCGTGCCT
1 ACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGCGCGCCT
5889030 TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCCGAGA
66 TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCC-AGA
*
5889092 ACTATTCATGTCAATACCTATTATTCCTTATGGGAC
1 ACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
5889128 TTTAAAGCGC
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
124 107 0.41
125 4 0.02
126 3 0.01
127 146 0.56
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (126 bp):
ACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCGGGGGCGCGCCT
TCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCACTTATGTCCCCCAGA
Found at i:5889595 original size:34 final size:34
Alignment explanation
Indices: 5889557--5889657 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
5889547 GAATTTAATG
* *
5889557 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCAAATACTATAATTTGTATTTTAAAT
* * *
5889591 TTAAATTTCAAATAATATTATTTGTATTTTAATT
1 TTAAATTTCAAATACTATAATTTGTATTTTAAAT
5889625 TTAAATTTCAAATACTATAATTTGTATTTTAAA
1 TTAAATTTCAAATACTATAATTTGTATTTTAAA
5889658 AACATTTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (34 bp):
TTAAATTTCAAATACTATAATTTGTATTTTAAAT
Found at i:5890208 original size:21 final size:21
Alignment explanation
Indices: 5890182--5890229 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
5890172 GTATAAAACA
*
5890182 CTGCGGGCTAGGAATGTAACC
1 CTGCGGGCTAGAAATGTAACC
5890203 CTGCGGGCTAGAAATGTAACC
1 CTGCGGGCTAGAAATGTAACC
5890224 CTGCGG
1 CTGCGG
5890230 AGATGACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (21 bp):
CTGCGGGCTAGAAATGTAACC
Found at i:5890268 original size:42 final size:42
Alignment explanation
Indices: 5890222--5890306 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
5890212 AGAAATGTAA
* * * *
5890222 CCCTGCGGAGATGACATATGAATTGGTGGGCTTGGCATATAC
1 CCCTGAGGAGATGACATATGAAGTGGAGGGCTGGGCATATAC
* * *
5890264 CCCTGAGGAGATGGCATCTGAAGTGGAGGGCTGGGCATGTAC
1 CCCTGAGGAGATGACATATGAAGTGGAGGGCTGGGCATATAC
5890306 C
1 C
5890307 ATTGTGGCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.22
Consensus pattern (42 bp):
CCCTGAGGAGATGACATATGAAGTGGAGGGCTGGGCATATAC
Found at i:5892081 original size:35 final size:34
Alignment explanation
Indices: 5892042--5892127 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 34
5892032 AAATTTAAAT
*
5892042 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAA-ATTATATTAATAAAAA
* *
5892077 AAATAAT-ATT-TATATAATTATATTAATATAAA
1 AAATAATAATTATATAAAATTATATTAATAAAAA
* * *
5892109 ATATAATAACTATTTAAAA
1 AAATAATAATTATATAAAA
5892128 AAATAACTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 20 0.48
33 7 0.17
34 8 0.19
35 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (34 bp):
AAATAATAATTATATAAAATTATATTAATAAAAA
Found at i:5892083 original size:32 final size:32
Alignment explanation
Indices: 5892014--5892115 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 32
5892004 TAATTAGCAC
* *
5892014 AAAAAATAATTA-ATTAATA--AATTTAA-AT
1 AAAAAATAATTATATAAATATTATTTTAATAT
* *
5892042 AAATAATAATTATATAAATATTATTTTAATAA
1 AAAAAATAATTATATAAATATTATTTTAATAT
* * *
5892074 AAAAAATAA-TATTTATATAATTATATTAATAT
1 AAAAAATAATTATATAAAT-ATTATTTTAATAT
*
5892106 AAAATATAAT
1 AAAAAATAAT
5892116 AACTATTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
31 13 0.22
32 28 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AAAAAATAATTATATAAATATTATTTTAATAT
Found at i:5893576 original size:3 final size:3
Alignment explanation
Indices: 5893557--5893703 Score: 118
Period size: 3 Copynumber: 46.7 Consensus size: 3
5893547 TTTGCCCAGG
* *
5893557 ATT ATG ATT ATT AATT ATT ATT ATT ATT AGTT ATT ATT ATT AATT AAT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT A-TT ATT ATT ATT -ATT ATT
* *
5893605 ATT ATTT ATCA ATT ATT ATT ATT ATT ATT -TT TTT ATT ATT ATT AATT
1 ATT A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* ** * *
5893652 ACTT -TT ATT AGTA ATT AGA ATT ATT AATT ATT ATC ATT ACT ATT ATT
1 A-TT ATT ATT A-TT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
5893699 ATT AT
1 ATT AT
5893704 CATAATTAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.03
3 88 0.76
4 24 0.21
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:5893579 original size:13 final size:13
Alignment explanation
Indices: 5893557--5893702 Score: 111
Period size: 13 Copynumber: 11.0 Consensus size: 13
5893547 TTTGCCCAGG
*
5893557 ATTATGATTATTA
1 ATTATTATTATTA
5893570 ATTATTATTATTA
1 ATTATTATTATTA
5893583 TTAGTTATTATTATTA
1 --A-TTATTATTATTA
* *
5893599 ATTAATATTATTT
1 ATTATTATTATTA
*
5893612 ATCAATTATTATT-
1 AT-TATTATTATTA
5893625 ATTATTATT-TT-
1 ATTATTATTATTA
*
5893636 TTTATTATTATTA
1 ATTATTATTATTA
*
5893649 ATTACTTTTATTAGTA
1 ATTA---TTATTATTA
**
5893665 ATTAGAATTATTA
1 ATTATTATTATTA
*
5893678 ATTATTATCATT-
1 ATTATTATTATTA
*
5893690 ACTATTATTATTA
1 ATTATTATTATTA
5893703 TCATAATTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
11 10 0.09
12 18 0.17
13 44 0.42
14 9 0.08
15 1 0.01
16 24 0.23
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:5893582 original size:16 final size:16
Alignment explanation
Indices: 5893557--5893703 Score: 130
Period size: 16 Copynumber: 9.5 Consensus size: 16
5893547 TTTGCCCAGG
*
5893557 ATTATGATTATTAATT
1 ATTATTATTATTAATT
*
5893573 ATTATTATTATTAGTT
1 ATTATTATTATTAATT
5893589 ATTATTATTAATTAA-T
1 ATTATTATT-ATTAATT
*
5893605 ATTA-T-TTATCAATT
1 ATTATTATTATTAATT
*
5893619 ATTATTATTATTATTTT
1 ATTATTATTATTA-ATT
*
5893636 TTTATTATTATTAATT
1 ATTATTATTATTAATT
*
5893652 ACTT-TTATTAGTAATT
1 A-TTATTATTATTAATT
*
5893668 A-GA--ATTATTAATT
1 ATTATTATTATTAATT
* *
5893681 ATTATCATTACT-ATT
1 ATTATTATTATTAATT
5893696 ATTATTAT
1 ATTATTAT
5893704 CATAATTAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 21
0.75 0.11 0.15
Matches are distributed among these distances:
13 14 0.13
14 8 0.08
15 12 0.11
16 52 0.49
17 20 0.19
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTATTATTATTAATT
Found at i:5893659 original size:46 final size:46
Alignment explanation
Indices: 5893564--5893659 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
5893554 AGGATTATGA
* *
5893564 TTATTAATTATTATTATTATTAGTTATTATTATTAATTAATATTAT
1 TTATCAATTATTATTATTATTAGTTATTATTATTAATTAATACTAT
* *
5893610 TTATCAATTATTATTATTATTATTTTTTTATTATT-ATTAATTACT-T
1 TTATCAATTATTATTATTATTA-GTTATTATTATTAATTAA-TACTAT
5893656 TTAT
1 TTAT
5893660 TAGTAATTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 31 0.70
47 13 0.30
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (46 bp):
TTATCAATTATTATTATTATTAGTTATTATTATTAATTAATACTAT
Found at i:5895136 original size:10 final size:10
Alignment explanation
Indices: 5895118--5895151 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5895108 TTTATAACGA
*
5895118 TATTTTATTT
1 TATTATATTT
*
5895128 TATTATATTA
1 TATTATATTT
5895138 TATTATATTT
1 TATTATATTT
5895148 TATT
1 TATT
5895152 TAATTTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTATATTT
Found at i:5895834 original size:65 final size:64
Alignment explanation
Indices: 5895721--5895861 Score: 169
Period size: 65 Copynumber: 2.2 Consensus size: 64
5895711 GCATTTTATA
* *** *
5895721 CACCGATGCACAACCATGCATCGATGCACTAGAGATTTTATTGAAACATCGAATTGATTTTGTG
1 CACCGATGCACAACCATGCATCGATGCACCAGAGATTTTATTGAAACATCGAAGCAAATTTGTG
* * *
5895785 CACCGATGCACAAGTCATGCATCGATGCACCCCG-GCTATTT-TTGAAACATCGAAGCAAATTTG
1 CACCGATGCACAA-CCATGCATCGATGCA-CCAGAGAT-TTTATTGAAACATCGAAGCAAATTTG
5895848 TG
63 TG
5895850 CACCGATGCACA
1 CACCGATGCACA
5895862 CTCTAGTGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
64 13 0.20
65 48 0.73
66 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (64 bp):
CACCGATGCACAACCATGCATCGATGCACCAGAGATTTTATTGAAACATCGAAGCAAATTTGTG
Found at i:5897816 original size:21 final size:21
Alignment explanation
Indices: 5897792--5897831 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5897782 AAGACTTTAT
5897792 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
5897813 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
5897832 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:5901684 original size:21 final size:22
Alignment explanation
Indices: 5901637--5901714 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
5901627 ACACTAGTTA
5901637 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCA-CCCTTGAAT
* * *
5901660 GTGCATCGATTCA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
*
5901681 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
5901704 GTGCATCGATG
1 GTGCATCGATG
5901715 TAGTCTGCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.38
23 28 0.62
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:5909218 original size:6 final size:6
Alignment explanation
Indices: 5909195--5909284 Score: 94
Period size: 6 Copynumber: 14.5 Consensus size: 6
5909185 GGAGAGGGCA
*
5909195 AAAAAG AAAAA- AAGAAG AAAAAG AAAAAG AAAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG
* *
5909243 AAATAAG AAGAGAG AAAAAT AAAATAG AAAAA- AGAAAAG AAA
1 AAA-AAG AA-AAAG AAAAAG AAAA-AG AAAAAG A-AAAAG AAA
5909285 GAAAAGAAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
5 5 0.07
6 44 0.62
7 21 0.30
8 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:5909231 original size:19 final size:19
Alignment explanation
Indices: 5909195--5909284 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
5909185 GGAGAGGGCA
*
5909195 AAAAAG-AAAA-AAAGAAG
1 AAAAAGAAAAAGAAAAAAG
5909212 AAAAAGAAAAAGAAAAAAG
1 AAAAAGAAAAAGAAAAAAG
*
5909231 AAAAAGAAAAAGAAATAAG
1 AAAAAGAAAAAGAAAAAAG
* * *
5909250 AAGAGAGAAAAATAAAATAG
1 AA-AAAGAAAAAGAAAAAAG
5909270 AAAAA-AGAAAAGAAA
1 AAAAAGA-AAAAGAAA
5909285 GAAAAGAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
17 6 0.10
18 5 0.08
19 35 0.57
20 15 0.25
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAG
Found at i:5912546 original size:3 final size:3
Alignment explanation
Indices: 5912538--5912675 Score: 114
Period size: 3 Copynumber: 43.3 Consensus size: 3
5912528 TTGCCTGGGG
* *
5912538 TTA TTA TTA TTAA TTA TTA TTA TTA TTA GTTA TTA TAA TTAA TTA ATA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA
* * *
5912586 TTA TTTA TAAA TTA TTA TTA CTAA TTA TTA TTA TTA TTA TTAA TTA CTA
1 TTA -TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* ** * *
5912635 TTA TTA GTAA TTA GAA TTA TTA TAA TTA CTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5912676 CATAACGAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
3 86 0.80
4 21 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:5912556 original size:13 final size:12
Alignment explanation
Indices: 5912538--5912675 Score: 114
Period size: 13 Copynumber: 10.8 Consensus size: 12
5912528 TTGCCTGGGG
5912538 TTATTATTATTAA
1 TTATTATTATT-A
5912551 TTATTATTATTA
1 TTATTATTATTA
*
5912563 TTAGTTATTATAA
1 TTA-TTATTATTA
*
5912576 TTAATTAATATTA
1 TT-ATTATTATTA
*
5912589 TTTATAAATTATTA
1 -TTAT-TATTATTA
*
5912603 TTACTAATTATTA
1 TTA-TTATTATTA
5912616 TTATTATTATTAA
1 TTATTATTATT-A
*
5912629 TTACTATTATTA
1 TTATTATTATTA
* **
5912641 GTAATTAGAATTA
1 -TTATTATTATTA
* *
5912654 TTATAATTACTA
1 TTATTATTATTA
5912666 TTATTATTAT
1 TTATTATTAT
5912676 CATAACGAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
12 27 0.27
13 63 0.63
14 10 0.10
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:5912559 original size:16 final size:16
Alignment explanation
Indices: 5912538--5912674 Score: 140
Period size: 16 Copynumber: 8.8 Consensus size: 16
5912528 TTGCCTGGGG
5912538 TTATTATTATTAATTA
1 TTATTATTATTAATTA
*
5912554 TTATTATTATTAGTTA
1 TTATTATTATTAATTA
5912570 TTA-TA--ATTAATTA
1 TTATTATTATTAATTA
* *
5912583 ATATTATTTATAAATTA
1 TTATTA-TTATTAATTA
*
5912600 TTATTACTAATT-ATTA
1 TTATTA-TTATTAATTA
5912616 TTATTATTATTAATTA
1 TTATTATTATTAATTA
* *
5912632 CTATTATTAGTAATTA
1 TTATTATTATTAATTA
**
5912648 GAATTATTA-TAATTA
1 TTATTATTATTAATTA
*
5912663 CTATTATTATTA
1 TTATTATTATTA
5912675 TCATAACGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
13 9 0.09
14 2 0.02
15 19 0.19
16 55 0.55
17 15 0.15
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TTATTATTATTAATTA
Found at i:5922044 original size:282 final size:282
Alignment explanation
Indices: 5921540--5922076 Score: 923
Period size: 282 Copynumber: 1.9 Consensus size: 282
5921530 TTGGAGGGTT
*
5921540 TTACTATGGTTTTAAACATATTTTTTAAACAATTACTATTTTAAAAAGATATGTACCTTTTAACT
1 TTACTATGGTTTTAAACATATGTTTTAAACAATTACTATTTTAAAAAGATATGTACCTTTTAACT
5921605 GGTTTTGGTTGGAACACACTAGACACCATATTCTGATCTTCTGAAAACTTAGTCCTCTGAATGTT
66 GGTTTTGGTTGGAACACACTAGACACCATATTCTGATCTTCTGAAAACTTAGTCCTCTGAATGTT
* * *
5921670 CTTCTGAACTGAAATCTTCATTTCTTTTACTCAAATAAATATCAGTGGAACCTCAACTCATCTTG
131 CTTCTGAACTAAAATCTTCATTTCTTTTACTCAAAGAAATATCAGTGGAACCTCAACTCATCTCG
* *
5921735 AAAACCTGTAGACATCTGAATCAATAAGGAAAAATTATGCTTTTCCATTTATCTGCATGTCTTTC
196 AAAACCTATAGACATCTGAATCAATAAGGAAAAATTATGATTTTCCATTTATCTGCATGTCTTTC
5921800 AACATCACTTGGTAGTTCTGTA
261 AACATCACTTGGTAGTTCTGTA
* * *
5921822 TTACTATGGTTTTAAACATATGTTTTAAATAATTACTGTTTTAAAAAGATATGTACCTTTTCACT
1 TTACTATGGTTTTAAACATATGTTTTAAACAATTACTATTTTAAAAAGATATGTACCTTTTAACT
* *
5921887 GGTTTTGGTTGGAACACACTAGACACCATATTCTGATC-TCTTGAAAACTTGGTCCTCTGAATTT
66 GGTTTTGGTTGGAACACACTAGACACCATATTCTGATCTTC-TGAAAACTTAGTCCTCTGAATGT
* * *
5921951 TCTTCTGAATTAAAATCTTCATTTCTTTTACTCGAAGAAATATCAGTGGAACCTCAGCTCATCTC
130 TCTTCTGAACTAAAATCTTCATTTCTTTTACTCAAAGAAATATCAGTGGAACCTCAACTCATCTC
*
5922016 GAAAACCTATAGACATCTGAATCAATAAGGAAAAATTATGATTTTCCATTTATCTGTATGT
195 GAAAACCTATAGACATCTGAATCAATAAGGAAAAATTATGATTTTCCATTTATCTGCATGT
5922077 TCTTCTGTAA
Statistics
Matches: 239, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
281 2 0.01
282 237 0.99
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (282 bp):
TTACTATGGTTTTAAACATATGTTTTAAACAATTACTATTTTAAAAAGATATGTACCTTTTAACT
GGTTTTGGTTGGAACACACTAGACACCATATTCTGATCTTCTGAAAACTTAGTCCTCTGAATGTT
CTTCTGAACTAAAATCTTCATTTCTTTTACTCAAAGAAATATCAGTGGAACCTCAACTCATCTCG
AAAACCTATAGACATCTGAATCAATAAGGAAAAATTATGATTTTCCATTTATCTGCATGTCTTTC
AACATCACTTGGTAGTTCTGTA
Found at i:5922817 original size:47 final size:46
Alignment explanation
Indices: 5922752--5922968 Score: 228
Period size: 47 Copynumber: 4.8 Consensus size: 46
5922742 TATAAAATCT
* * ** *
5922752 CTTATCATTT-ATCCCATAAGCTTGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTACCAATATA
* *
5922797 CTTACCATTTAAATTCCATAAGCTCCTAAGCTTATTTTATCAATATA
1 CTTACCATTT-AATTCCATAAGCTCATAAGCTTATTTTACCAATATA
* * *
5922844 TTTACCATTT-GTTTCATAAGCT-ATAAGCTTATTTTTACCAATATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTA-TTTTACCAATATA
* * * *
5922889 TTTACCATTTAATACTATAAGCTCATAAGCTTATTTTTCCAATATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTACCAATATA
* * *
5922935 CTTGCCA-TT-ATTCCGTAAGCACATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
5922969 GCATGGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
44 29 0.20
45 43 0.30
46 25 0.17
47 48 0.33
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (46 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTACCAATATA
Found at i:5922932 original size:91 final size:92
Alignment explanation
Indices: 5922766--5922943 Score: 245
Period size: 91 Copynumber: 1.9 Consensus size: 92
5922756 TCATTTATCC
* * *
5922766 CATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCATTTAAATTCCATAAGCTCCTAAGCTTA
1 CATAAGCTTATAAGCTTATTTTACCAAAATACTTACCATTTAAATACCATAAGCTCATAAGCTTA
*
5922831 TTTTATCAATATATTTACCATTTGTTT
66 TTTTATCAATATACTTACCATTTGTTT
* * *
5922858 CATAAGC-TATAAGCTTATTTTTACCAATATATTTACCATTT-AATACTATAAGCTCATAAGCTT
1 CATAAGCTTATAAGCTTA-TTTTACCAAAATACTTACCATTTAAATACCATAAGCTCATAAGCTT
*
5922921 ATTTT-TCCAATATACTTGCCATT
65 ATTTTAT-CAATATACTTACCATT
5922944 ATTCCGTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 47 0.62
92 28 0.37
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (92 bp):
CATAAGCTTATAAGCTTATTTTACCAAAATACTTACCATTTAAATACCATAAGCTCATAAGCTTA
TTTTATCAATATACTTACCATTTGTTT
Found at i:5922961 original size:91 final size:92
Alignment explanation
Indices: 5922752--5922968 Score: 244
Period size: 91 Copynumber: 2.4 Consensus size: 92
5922742 TATAAAATCT
* * ** *
5922752 CTTATCATTTATCCCATAAGCTTGTAAGCTTA-TTTTACCAAAATACTTACCATTTAAATTCCAT
1 CTTACCATTTATTCCATAAGC-CATAAGCTTATTTTTACCAAAATACTTACCATTTAAATACCAT
*
5922816 AAGCTCCTAAGCTTATTTTATCAATATA
65 AAGCTCATAAGCTTATTTTATCAATATA
* * * * * * *
5922844 TTTACCATTTGTTTCATAAGCTATAAGCTTATTTTTACCAATATATTTACCATTT-AATACTATA
1 CTTACCATTTATTCCATAAGCCATAAGCTTATTTTTACCAAAATACTTACCATTTAAATACCATA
5922908 AGCTCATAAGCTTATTTT-TCCAATATA
66 AGCTCATAAGCTTATTTTAT-CAATATA
* *
5922935 CTTGCCA-TTATTCCGTAAGCACATAAGCTTATTT
1 CTTACCATTTATTCCATAAGC-CATAAGCTTATTT
5922969 GCATGGTTAC
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
90 11 0.10
91 57 0.54
92 37 0.35
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (92 bp):
CTTACCATTTATTCCATAAGCCATAAGCTTATTTTTACCAAAATACTTACCATTTAAATACCATA
AGCTCATAAGCTTATTTTATCAATATA
Found at i:5925370 original size:38 final size:38
Alignment explanation
Indices: 5925285--5925361 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
5925275 TGTATTTTAC
*
5925285 TCTTCATATTTTTATAAGTATCTAATACATATGTTTGT
1 TCTTCATATTTTTATAAGTATATAATACATATGTTTGT
*
5925323 TCTTCATATTTTTATAAGTATATAATATATATGTTTGT
1 TCTTCATATTTTTATAAGTATATAATACATATGTTTGT
5925361 T
1 T
5925362 TGATATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (38 bp):
TCTTCATATTTTTATAAGTATATAATACATATGTTTGT
Found at i:5926086 original size:20 final size:20
Alignment explanation
Indices: 5926061--5926101 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5926051 TGGAATTGAT
5926061 TTGAATTAAATTAAAAGGAG
1 TTGAATTAAATTAAAAGGAG
5926081 TTGAATTAAATTAAAAGGAG
1 TTGAATTAAATTAAAAGGAG
5926101 T
1 T
5926102 CTCCATCGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (20 bp):
TTGAATTAAATTAAAAGGAG
Found at i:5926924 original size:2 final size:2
Alignment explanation
Indices: 5926917--5926941 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5926907 AAATATAATG
5926917 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5926942 AATGAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5927046 original size:29 final size:30
Alignment explanation
Indices: 5926974--5927106 Score: 96
Period size: 30 Copynumber: 4.4 Consensus size: 30
5926964 AAAAACACAC
*
5926974 AGGACCTAAAATA-ATATGAACAAAAATTTAA
1 AGGA-CTAAAATAGATA-AAACAAAAATTTAA
* * *
5927005 AGGACTGAAATAGCTAAAACATAAATTT-A
1 AGGACTAAAATAGATAAAACAAAAATTTAA
* * *
5927034 GGGACTAAAATAGATAAAACAGAAACTTAA
1 AGGACTAAAATAGATAAAACAAAAATTTAA
** *
5927064 AGGGTTAAAATAGA-AAAA-AATATCAA-GTAA
1 AGGACTAAAATAGATAAAACAA-A--AATTTAA
5927094 AGGACTAAAATAG
1 AGGACTAAAATAG
5927107 CAATTTTAGA
Statistics
Matches: 81, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 29 0.36
30 43 0.53
31 8 0.10
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (30 bp):
AGGACTAAAATAGATAAAACAAAAATTTAA
Found at i:5927902 original size:22 final size:21
Alignment explanation
Indices: 5927876--5927921 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5927866 GTAAATACCC
* *
5927876 TTTCCTCTCTTTTTCCCTTTGG
1 TTTCCTCTC-TTCTCCCTTGGG
*
5927898 TTTCCTTTCTTCTCCCTTGGG
1 TTTCCTCTCTTCTCCCTTGGG
5927919 TTT
1 TTT
5927922 GATTCGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.00, C:0.30, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTCCTCTCTTCTCCCTTGGG
Found at i:5928530 original size:3 final size:3
Alignment explanation
Indices: 5928503--5928563 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
5928493 AAAAATGTAA
* * * *
5928503 AAT AAA AAT AAA AAT AAG CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
5928551 AAC GAT AAT AAT A
1 AAT AAT AAT AAT A
5928564 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:5929066 original size:130 final size:131
Alignment explanation
Indices: 5928772--5929071 Score: 417
Period size: 135 Copynumber: 2.3 Consensus size: 131
5928762 ACACAGTTCC
*
5928772 TACGTGATGAGGAAATCTGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCAT
1 TACGTGATGAGGAAATCTGGTC-GGTGATGACAC-GCTCATACGTGATGAAGAGTTCTTGGCCAT
* * * * *
5928837 CTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGACACG
64 CTCTAGGAA--GTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACG
* *
5928902 GCTCC
127 ACTCA
*
5928907 TACGTGATGAGGATATCTGGTCGAGTGATGACACGACTCATACGTGATGAAGAGTTC-TGGCCAT
1 TACGTGATGAGGAAATCTGGTCG-GTGATGACACG-CTCATACGTGATGAAGAGTTCTTGGCCAT
*
5928971 CTCTAGGAA-TGATAACACGGTTCCTATATGATAAGGACGACTGGTTATCTA-GGGTGACACGAC
64 CTCTAGGAAGTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACGAC
5929034 TCA
129 TCA
*
5929037 TACGTGATGAGGAGATCTGGTCGGTTGATGACACG
1 TACGTGATGAGGAAATCTGGTCGG-TGATGACACG
5929072 GTTCCTACAT
Statistics
Matches: 151, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
129 1 0.01
130 45 0.30
131 37 0.25
134 17 0.11
135 51 0.34
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (131 bp):
TACGTGATGAGGAAATCTGGTCGGTGATGACACGCTCATACGTGATGAAGAGTTCTTGGCCATCT
CTAGGAAGTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACGACTC
A
Found at i:5929085 original size:130 final size:132
Alignment explanation
Indices: 5928772--5929086 Score: 420
Period size: 130 Copynumber: 2.4 Consensus size: 132
5928762 ACACAGTTCC
* *
5928772 TACGTGATGAGGAAATCTGGTCGGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCAT
1 TACGTGATGAGGAAATCTGGTC-GGTGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCAT
* * * * *
5928837 CTTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGACACG
65 CTCTAGGAA--GTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACG
* *
5928902 GCTCC
128 ACTCA
* *
5928907 TACGTGATGAGGATATCTGGTCGAGTGATGACACGACTCATACGTGATGAAGAGTTC-TGGCCAT
1 TACGTGATGAGGAAATCTGGTCG-GTGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCAT
*
5928971 CTCTAGGAA-TGATAACACGGTTCCTATATGATAAGGACGACTGGTTATCTA-GGGTGACACGAC
65 CTCTAGGAAGTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACGAC
5929034 TCA
130 TCA
* * * *
5929037 TACGTGATGAGGAGATCTGGTCGGTTGATGACACGGTTCCTACATGATGA
1 TACGTGATGAGGAAATCTGGTCGG-TGATGACACGGCTCATACGTGATGA
5929087 GGATGACTGG
Statistics
Matches: 161, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
129 1 0.01
130 56 0.35
131 37 0.23
134 16 0.10
135 51 0.32
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (132 bp):
TACGTGATGAGGAAATCTGGTCGGTGATGACACGGCTCATACGTGATGAAGAGTTCTTGGCCATC
TCTAGGAAGTGATAACACGGTTCCTACATGATAAGGACGACTGGTTATCTAGGGGTGACACGACT
CA
Found at i:5929320 original size:62 final size:63
Alignment explanation
Indices: 5929244--5929375 Score: 160
Period size: 63 Copynumber: 2.1 Consensus size: 63
5929234 AGTTGGGTTT
** * * *
5929244 TTTTTCAAGGGAAACAATCTCAAAGGTG-TTAAATGTTGTT-TCCAAAGAAACAAACTCAAAGA
1 TTTTTCAAAAGAAACAATCTCAAAAGAGATAAAATGTTGTTAT-CAAAGAAACAAACTCAAAGA
** * *
5929306 TTTTTCAAAAGAAACTTTCTCAAAAGAGATAAAATTTTGTTATCAAAGAAACATACTCAAAGA
1 TTTTTCAAAAGAAACAATCTCAAAAGAGATAAAATGTTGTTATCAAAGAAACAAACTCAAAGA
5929369 TTTTTCA
1 TTTTTCA
5929376 TTTTGTTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 22 0.37
63 36 0.61
64 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (63 bp):
TTTTTCAAAAGAAACAATCTCAAAAGAGATAAAATGTTGTTATCAAAGAAACAAACTCAAAGA
Found at i:5929432 original size:30 final size:31
Alignment explanation
Indices: 5929377--5929435 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
5929367 GATTTTTCAT
** *
5929377 TTTGTTTCAAGTGAAATAGACTCAAAGATCC
1 TTTGTTTCAAAAGAAACAGACTCAAAGATCC
5929408 TTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
5929436 GATGTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATCC
Found at i:5929520 original size:36 final size:36
Alignment explanation
Indices: 5929473--5929582 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
5929463 ATAATTTGGA
*
5929473 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
* * *
5929509 AAATTGTCTCAAACGAGACAAAAATTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
5929545 AAATTGTCTCAAGCGAGACAA-AGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAACA-TTTGTTTTTAGAG
5929580 AAA
1 AAA
5929583 ACGATCTCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 7 0.10
36 60 0.90
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
Found at i:5929731 original size:107 final size:106
Alignment explanation
Indices: 5929586--5929786 Score: 264
Period size: 107 Copynumber: 1.9 Consensus size: 106
5929576 TGAGAAAACG
* *
5929586 ATCTCAAGTAAGATCAACTTTGTTTAATGTGAAACAAATTTGAAATTTGTATTATCAAAG-GAAA
1 ATCTCAAGTAAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGTA-TATCAAAGAAAAA
5929650 AATGTCTCAAACGAA-ACGAAATTTGTTTTGAAATAAATAACA
65 AATGTCTCAAAC-AAGACGAAATTTGTTTTGAAATAAATAACA
* * * *
5929692 ATCTCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCGAAATTTGTATATCAAAGAAAA
1 ATCTCAAGTAAGATCAA-CTTTGTTT-AATGTGAAACAAATTCGAAATTTGTATATCAAAG-AAA
* *
5929756 AAAATGTCTCAAGCAAGACGAAGTTTGTTTT
63 AAAATGTCTCAAACAAGACGAAATTTGTTTT
5929787 AAGAGAAATT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
106 23 0.28
107 30 0.37
108 29 0.35
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (106 bp):
ATCTCAAGTAAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGTATATCAAAGAAAAAA
ATGTCTCAAACAAGACGAAATTTGTTTTGAAATAAATAACA
Found at i:5932808 original size:2 final size:2
Alignment explanation
Indices: 5932801--5932827 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5932791 GTTTTAAGTA
5932801 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5932828 AATGATTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5935580 original size:20 final size:20
Alignment explanation
Indices: 5935551--5935588 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5935541 CAATATAACA
5935551 GGTTTAAATTTGACAAAATC
1 GGTTTAAATTTGACAAAATC
*
5935571 GGTTTCAATTTGACAAAA
1 GGTTTAAATTTGACAAAA
5935589 CTGGTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
GGTTTAAATTTGACAAAATC
Found at i:5935718 original size:194 final size:193
Alignment explanation
Indices: 5935461--5935880 Score: 623
Period size: 194 Copynumber: 2.2 Consensus size: 193
5935451 CAAAAATATT
* *
5935461 GGTACTTTGGGAAATT-AAAAGAATTGCAATAATAGTGCCTATAAAGTATCGATACCTTAGACAC
1 GGTACTTTAGG-AATTGAAAAGAATTGCAATAATAGTGCCTAGAAAGTATCGATACCTTAGACAC
* *
5935525 ATGTATCGATACATGACAATATAACAGGTTTAAATTTGACAAAATCGGTTTCAATTTGACAAAA-
65 ATGTATCGATACATGACAATATAACAGGTTGAAATTTGACAAAATCAGTTTCAATTTGACAAAAT
*
5935589 CTGGTAAAGAGATA-TCAAAATTGTTGAAAGTATCAAT-ATTGTAACAAGTATAGGTACCATAGT
130 C-GGTAAAGAGATACT-AAAATTGTTGAAAGTATCAATAATT-T-ACAAGTATAGATACCATAGT
5935652 ATC
191 ATC
* *
5935655 GGTACTTTAGGAATTGAAAGGAATTGCAATAATAGTGCCTAGAAAGTATCGATACCTTAGACACT
1 GGTACTTTAGGAATTGAAAAGAATTGCAATAATAGTGCCTAGAAAGTATCGATACCTTAGACACA
* *
5935720 TGTATCGATACATGACAATATAACATGTTGAAATTTGACAAAATCAGTTTCAATTTTACAAAATC
66 TGTATCGATACATGACAATATAACAGGTTGAAATTTGACAAAATCAGTTTCAATTTGACAAAATC
* * ** * *
5935785 GGTAAAGCGCTACTGGAATTGTTGAAAGTATCAATACATTTATAAGTATATATACCATAGTATC
131 GGTAAAGAGATACTAAAATTGTTGAAAGTATCAATA-ATTTACAAGTATAGATACCATAGTATC
5935849 GGTACTTTAGGAATTGAAAAGAATTGCAATAA
1 GGTACTTTAGGAATTGAAAAGAATTGCAATAA
5935881 GAAAAACGTC
Statistics
Matches: 205, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
193 4 0.02
194 195 0.95
195 3 0.01
196 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (193 bp):
GGTACTTTAGGAATTGAAAAGAATTGCAATAATAGTGCCTAGAAAGTATCGATACCTTAGACACA
TGTATCGATACATGACAATATAACAGGTTGAAATTTGACAAAATCAGTTTCAATTTGACAAAATC
GGTAAAGAGATACTAAAATTGTTGAAAGTATCAATAATTTACAAGTATAGATACCATAGTATC
Found at i:5939230 original size:199 final size:199
Alignment explanation
Indices: 5938880--5939371 Score: 643
Period size: 199 Copynumber: 2.5 Consensus size: 199
5938870 AGTATTAAGG
** * * ** * * *
5938880 AATTTGCACGCCAAATGTATTGATACACATGTATAGAGTATCGATACTTTTAAGTTCTAAACCTA
1 AATTTGCACGAAAAAAGTATCGATACACATGTATAGAGTATCGATACTTGGAATTTCGAAACGTA
* * *
5938945 TTACTATAAAGTAATAGGTAAATTAACAATGTAAATGGTTAATGTCTATCAGTATAATGATAATA
66 TTACTATAAAGTAATAGGTAAATTAACAATGTAAACGGTAAATGTCTACCAGTATAATGATAATA
* * *
5939010 GGCGTAAGTACCAAGTATCGATACTTTTATATAGGTATGAAT-ACTTTTATTCCAGTATGCTTCT
131 GGCATAAGTACCAAATATCGATACTTTTATATAGGTATGAATGA-TTTTATTCCAGTATACTTCT
*
5939074 TAAAC
195 CAAAC
* * ** *
5939079 AATTTGCACGAAAAAAGTATCGATACACTTGTATAAAGTATTAATACTTGGAATTTCGAAATGTA
1 AATTTGCACGAAAAAAGTATCGATACACATGTATAGAGTATCGATACTTGGAATTTCGAAACGTA
* *
5939144 TTACTATAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAT-TTTACCGGTATAATGATAAT
66 TTACTATAAAGTAATAGGTAAATTAACAATGTAAACGGT-AAATGTCTACCAGTATAATGATAAT
* * *
5939208 AGGCATAAGTACGAAATATCGATACTTTTATATAGGTATGGATGATTTTATTCTAGTATACTTCT
130 AGGCATAAGTACCAAATATCGATACTTTTATATAGGTATGAATGATTTTATTCCAGTATACTTCT
5939273 CAAAC
195 CAAAC
* * *
5939278 AATTTGTACAC-AAAATA-TATGGATACACATGTATAGAGTATCGATACTTGGAATTTTGAAACC
1 AATTTG--CACGAAAAAAGTATCGATACACATGTATAGAGTATCGATACTTGGAATTTCGAAA-C
5939341 G-ATTACTATAAAGTAATAGGTAAATTAACAA
63 GTATTACTATAAAGTAATAGGTAAATTAACAA
5939372 CGTACATGGT
Statistics
Matches: 254, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
199 241 0.95
200 10 0.04
201 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (199 bp):
AATTTGCACGAAAAAAGTATCGATACACATGTATAGAGTATCGATACTTGGAATTTCGAAACGTA
TTACTATAAAGTAATAGGTAAATTAACAATGTAAACGGTAAATGTCTACCAGTATAATGATAATA
GGCATAAGTACCAAATATCGATACTTTTATATAGGTATGAATGATTTTATTCCAGTATACTTCTC
AAAC
Found at i:5939661 original size:108 final size:108
Alignment explanation
Indices: 5939527--5939802 Score: 448
Period size: 108 Copynumber: 2.6 Consensus size: 108
5939517 ATCGATTTCT
***
5939527 TTGA-AAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTTGATCAGCTC
1 TTGATAAA-AAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTC
5939591 AAAC-TTAGGTAAAATTTTAGGCGCTACCTAATATGTTGATAATA
65 AAACGTT-GGTAAAATTTTAGGCGCTACCTAATATGTTGATAATA
*
5939635 TTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTA
1 TTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTCA
* *
5939700 AACGTTGGTAACATTTTAGGTGCTACCTAATATGTTGATAATA
66 AACGTTGGTAAAATTTTAGGCGCTACCTAATATGTTGATAATA
* *
5939743 TTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCACATCA
1 TTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCA
5939803 TCTTTAATAA
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
108 153 0.97
109 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (108 bp):
TTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGCTCA
AACGTTGGTAAAATTTTAGGCGCTACCTAATATGTTGATAATA
Found at i:5939840 original size:23 final size:24
Alignment explanation
Indices: 5939808--5939854 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
5939798 CATCATCTTT
5939808 AATAAGGCACTACATATTACGTTA
1 AATAAGGCACTACATATTACGTTA
* *
5939832 AATAA-GCACTACATGTTATGTTA
1 AATAAGGCACTACATATTACGTTA
5939855 TTATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (24 bp):
AATAAGGCACTACATATTACGTTA
Found at i:5940561 original size:60 final size:57
Alignment explanation
Indices: 5940409--5940576 Score: 160
Period size: 60 Copynumber: 2.9 Consensus size: 57
5940399 TAATTGGATG
* * ** ** *
5940409 AATTTGGGGATGAAATTAGAAA-ATTCAAAAGTTTGGGGACTAATTTTTAAAGAGTTAT
1 AATTTAGGGATGAAATTA-AAATATTCAAAAATTT-AAGACTAATTTGAAAAGAGTCAT
* * * * *
5940467 AGTTTAGGGATGAAATTAGAATGTTTAAAGATTTAATGACTAATTTCGAATAAGAGTCAT
1 AATTTAGGGATGAAATTAAAATATTCAAAAATTTAA-GACTAATTT-GAA-AAGAGTCAT
5940527 AATTTAGGGATGAAATTAAAATATTCAAAAATTTAAGAACTAATTT-AAAA
1 AATTTAGGGATGAAATTAAAATATTCAAAAATTTAAG-ACTAATTTGAAAA
5940577 TAAATATTAT
Statistics
Matches: 88, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
57 4 0.05
58 35 0.40
59 2 0.02
60 47 0.53
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (57 bp):
AATTTAGGGATGAAATTAAAATATTCAAAAATTTAAGACTAATTTGAAAAGAGTCAT
Found at i:5943462 original size:19 final size:21
Alignment explanation
Indices: 5943419--5943470 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
5943409 GAAACCCCTT
5943419 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
5943440 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
5943459 TGAATATACATG
1 TGAAAATACATG
5943471 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:5946863 original size:27 final size:27
Alignment explanation
Indices: 5946826--5946889 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
5946816 ACGAGCAGAG
* * *
5946826 TCGAGCTCGAGTATTGCCGAGCTCGAC
1 TCGAACTCGAGTATTACCGAGCTCAAC
*
5946853 TCGAACTCGAGTATTATCGAGCTCAAC
1 TCGAACTCGAGTATTACCGAGCTCAAC
5946880 TCGAACTCGA
1 TCGAACTCGA
5946890 TAACTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (27 bp):
TCGAACTCGAGTATTACCGAGCTCAAC
Found at i:5949238 original size:7 final size:7
Alignment explanation
Indices: 5949214--5949299 Score: 109
Period size: 7 Copynumber: 12.3 Consensus size: 7
5949204 GTGCATAACT
5949214 TAAACCC
1 TAAACCC
**
5949221 TAAACTA
1 TAAACCC
*
5949228 TAAACCT
1 TAAACCC
5949235 TAAACCC
1 TAAACCC
5949242 TAAACCC
1 TAAACCC
5949249 TAAACCC
1 TAAACCC
* *
5949256 TTAACAC
1 TAAACCC
5949263 TAAACCC
1 TAAACCC
5949270 TAAACCC
1 TAAACCC
*
5949277 TAAACAC
1 TAAACCC
*
5949284 TAAACCA
1 TAAACCC
5949291 TAAACCC
1 TAAACCC
5949298 TA
1 TA
5949300 TCACATAATT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 66 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:5949396 original size:14 final size:14
Alignment explanation
Indices: 5949377--5949406 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5949367 TATAATTATC
*
5949377 AATAATGTATTTTT
1 AATAATGTAATTTT
5949391 AATAATGTAATTTT
1 AATAATGTAATTTT
5949405 AA
1 AA
5949407 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:5951423 original size:15 final size:15
Alignment explanation
Indices: 5951400--5951442 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
5951390 TTTTGCACCT
*
5951400 CTGAATGATTCAGTG
1 CTGATTGATTCAGTG
5951415 CTGATTGATTCAGTG
1 CTGATTGATTCAGTG
5951430 CTGATTGATTCAG
1 CTGATTGATTCAG
5951443 CAAGACAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (15 bp):
CTGATTGATTCAGTG
Found at i:5951583 original size:15 final size:16
Alignment explanation
Indices: 5951545--5951585 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5951535 TCAAAGCCTC
*
5951545 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
5951561 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
5951577 T-AATCATTC
1 TGAATCATTC
5951586 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:5954409 original size:40 final size:40
Alignment explanation
Indices: 5954348--5954469 Score: 183
Period size: 40 Copynumber: 3.0 Consensus size: 40
5954338 TGCAGGTTTA
*
5954348 TAATACACTTC-GTTGTGTATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAG-TGTATATGGTGGGCACGACCTTATGTG
* * *
5954388 TAATACACTTCAGTGTATATGGTGAGCATGACTTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
*
5954428 TAATATACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
5954468 TA
1 TA
5954470 GCACTACGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 72 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
Found at i:5954632 original size:45 final size:45
Alignment explanation
Indices: 5954581--5954795 Score: 324
Period size: 45 Copynumber: 4.8 Consensus size: 45
5954571 GTAACCATGC
*
5954581 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
* *
5954626 AAATAAGCTTATGAGCTTATGGAATAAAAGCTAAGTATATTGATA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
* * *
5954671 AAATAAGTTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
*
5954716 AAATAAGCTTATGAGCTTATAGAATAAATGGTAAGTATATTGATA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
* * *
5954761 AAATAAGCTTACGAGCTCATAGG-ATAAATGATAAG
1 AAATAAGCTTATGAGCTTAT-GGAATAAATGGTAAG
5954796 AAATTTTATA
Statistics
Matches: 153, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 152 0.99
46 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:5958436 original size:21 final size:20
Alignment explanation
Indices: 5958411--5958449 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5958401 TATCAAGGTC
*
5958411 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
5958432 TTTGTCGATGCCATAAAT
1 TTTGTCGAAGCCATAAAT
5958450 TCCTGCAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:5960556 original size:85 final size:85
Alignment explanation
Indices: 5960467--5960787 Score: 500
Period size: 85 Copynumber: 3.8 Consensus size: 85
5960457 TGACGCGCAA
* * *
5960467 TTGTGTGTCATAAATCTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCTCCATCA
1 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
5960532 TAAATTAATATGACACACAT
66 TAAATTAATATGACACACAT
*
5960552 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGCCCCCATCA
1 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
*
5960617 TAAATTAAGATGACACACAT
66 TAAATTAATATGACACACAT
*
5960637 TTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
1 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
* * * *
5960702 TAAATCT-GTTTGACATATAT
66 TAAAT-TAATATGACACACAT
** * *
5960722 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGTTTCATTGAAGCACACATCA
1 TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
5960787 T
66 T
5960788 TTAAAAAGAT
Statistics
Matches: 218, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
85 217 1.00
86 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (85 bp):
TTGTGTGTCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
TAAATTAATATGACACACAT
Found at i:5960842 original size:2 final size:2
Alignment explanation
Indices: 5960835--5960901 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
5960825 TTTCGGAAAT
* * *
5960835 TA TA TA TA TA TA TA AA TA TA GA TA TA TA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5960877 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5960902 TGTAGATTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:5967661 original size:20 final size:21
Alignment explanation
Indices: 5967624--5967663 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5967614 AAATTAAGTT
5967624 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
5967645 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
5967664 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:5967908 original size:19 final size:19
Alignment explanation
Indices: 5967872--5967922 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
5967862 ATTAATTGAA
5967872 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
5967890 CA-CTGATGCACTCTCCATG
1 CATC-GATGCACTCTCCATG
5967909 CATCGATGCACTCT
1 CATCGATGCACTCT
5967923 GAATATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:5968022 original size:64 final size:65
Alignment explanation
Indices: 5967870--5968030 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
5967860 GAATTAATTG
* *** *
5967870 AACATCGAATGCATTCCATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATC-GATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCA
5967934 A
65 A
* **
5967935 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
5967998 A
65 A
5967999 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
5968031 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 37 0.44
65 47 0.55
66 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:5968045 original size:64 final size:64
Alignment explanation
Indices: 5967870--5968050 Score: 213
Period size: 64 Copynumber: 2.8 Consensus size: 64
5967860 GAATTAATTG
* * *
5967870 AACATCGAATGCATTCCATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATC-GATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCA
5967934 A
64 A
* ** **
5967935 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
5967999 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
5968051 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
64 51 0.52
65 47 0.47
66 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:5970140 original size:20 final size:21
Alignment explanation
Indices: 5970107--5970146 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
5970097 TTTTAACGTA
**
5970107 ATTGATATTCATTTT-AAACC
1 ATTGATATAAATTTTCAAACC
5970127 ATTGATATAAATTTTCAAAC
1 ATTGATATAAATTTTCAAAC
5970147 AATTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATAAATTTTCAAACC
Found at i:5973497 original size:20 final size:21
Alignment explanation
Indices: 5973468--5973523 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
5973458 TTTGTACTTC
*
5973468 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
5973488 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
5973510 ATGCATCGATGCAT
1 ATGCATCGATGCAT
5973524 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:5974235 original size:21 final size:21
Alignment explanation
Indices: 5974211--5974274 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
5974201 AAAACCGTCC
5974211 TCCCGTTCCTCAACATCCTAA
1 TCCCGTTCCTCAACATCCTAA
** *
5974232 TCCCGTTCCTCCTCAACCTAA
1 TCCCGTTCCTCAACATCCTAA
* *
5974253 TCCTGATCCTCAAGC-TCCTAA
1 TCCCGTTCCTCAA-CATCCTAA
5974274 T
1 T
5974275 GGCTTATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.42, G:0.06, T:0.30
Consensus pattern (21 bp):
TCCCGTTCCTCAACATCCTAA
Found at i:5975100 original size:21 final size:21
Alignment explanation
Indices: 5975074--5975117 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
5975064 ACTCCGGGAG
*
5975074 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
5975095 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
5975116 CT
1 CT
5975118 CCTCCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:5975948 original size:20 final size:21
Alignment explanation
Indices: 5975911--5975950 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5975901 AAATTAAGTT
5975911 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
5975932 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
5975951 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:5976205 original size:19 final size:19
Alignment explanation
Indices: 5976181--5976219 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5976171 TCGAATGCAT
5976181 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
5976200 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
5976219 T
1 T
5976220 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Done.