Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_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: 2182627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:982819 original size:3 final size:3
Alignment explanation
Indices: 982802--982861 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
982792 CTACAAAAAC
*
982802 ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
982846 ATAT ATT ATA ATT ATT
1 AT-T ATT ATT ATT ATT
982862 TTTTTGCAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 7 0.15
3 38 0.79
4 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:983889 original size:13 final size:15
Alignment explanation
Indices: 983860--983891 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
983850 GCAAACAAAC
983860 CCCAAAATCCAAATT
1 CCCAAAATCCAAATT
983875 CCCAAAAT-C-AATT
1 CCCAAAATCCAAATT
983888 CCCA
1 CCCA
983892 GATCCTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (15 bp):
CCCAAAATCCAAATT
Found at i:984290 original size:5 final size:5
Alignment explanation
Indices: 984280--984373 Score: 54
Period size: 5 Copynumber: 19.0 Consensus size: 5
984270 TTACATTTGC
* *
984280 TTATT TTATT TTATT TTATT TCATT ATT-TAT TTATT TATTTT TTATT
1 TTATT TTATT TTATT TTATT TTATT -TTAT-T TTATT T-TATT TTATT
** * * *
984327 TT-TT AGATTT TTATT TAATC TTA-T TTA-T ATATT TTA-T TTATT TTATT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
984374 ATTACTATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
4 12 0.18
5 45 0.67
6 10 0.15
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:984312 original size:4 final size:4
Alignment explanation
Indices: 984284--984399 Score: 73
Period size: 4 Copynumber: 28.2 Consensus size: 4
984274 ATTTGCTTAT
984284 TTTA TTTTA TTTTA TTTCA -TTA TTTA TTTA TTTA TTT- TTTA TTT- TTTA
1 TTTA -TTTA -TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
984332 GATT- TTTA TTTAA TCTTA TTTA TATA TTTTA TTTA TTT- TATTA -TTA
1 -TTTA TTTA TTT-A T-TTA TTTA TTTA -TTTA TTTA TTTA T-TTA TTTA
* *
984378 CTATA TTTA TGTA TTTA TTTA T
1 -TTTA TTTA TTTA TTTA TTTA T
984400 ACATGCATTG
Statistics
Matches: 90, Mismatches: 8, Indels: 27
0.72 0.06 0.22
Matches are distributed among these distances:
3 13 0.14
4 54 0.60
5 21 0.23
6 2 0.02
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:988691 original size:156 final size:156
Alignment explanation
Indices: 988407--988754 Score: 563
Period size: 156 Copynumber: 2.2 Consensus size: 156
988397 AACCAATTTG
* *
988407 GATTTCAACTTCACAACGAATGATATCCTATTCAAAGATCAACTTCACAGCGAAGGGGCAACTAT
1 GATTTCAACTTCACGACGAATGATATCCAATTCAAAGATCAACTTCACAGCGAAGGGGCAACTAT
* *
988472 CAACAAACAACTTTCCAGTTTCATTCAGATTCAATTTTAACTTCACAGCGAAGGATATTGAACTC
66 CAACAAACAACTTTCCAATTTCATTCAGATTCAATTTCAACTTCACAGCGAAGGATATTGAACTC
988537 GAAGTGACACAATTTACTCAAGATTA
131 GAAGTGACACAATTTACTCAAGATTA
* * *
988563 GATTTCAACTTCACGACGAATGATATCCAATTCAAAGCTCAACTTCACAGTGAATGGGCAACTAT
1 GATTTCAACTTCACGACGAATGATATCCAATTCAAAGATCAACTTCACAGCGAAGGGGCAACTAT
*
988628 CAACATACAACTTTCCAATTTCATTCAGAGTT-AATTTCAACTTCACAGCGAAGGATATTGAACT
66 CAACAAACAACTTTCCAATTTCATTCAGA-TTCAATTTCAACTTCACAGCGAAGGATATTGAACT
* *
988692 CGAAGTGACACAATTTACTCAATATTG
130 CGAAGTGACACAATTTACTCAAGATTA
* * *
988719 GATTTTAACTTCACGACGAAGGATATCCAACTCAAA
1 GATTTCAACTTCACGACGAATGATATCCAATTCAAA
988755 CCAATTTTGA
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
156 176 0.99
157 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (156 bp):
GATTTCAACTTCACGACGAATGATATCCAATTCAAAGATCAACTTCACAGCGAAGGGGCAACTAT
CAACAAACAACTTTCCAATTTCATTCAGATTCAATTTCAACTTCACAGCGAAGGATATTGAACTC
GAAGTGACACAATTTACTCAAGATTA
Found at i:988898 original size:356 final size:356
Alignment explanation
Indices: 988244--989173 Score: 1617
Period size: 356 Copynumber: 2.6 Consensus size: 356
988234 TGGTGGTTGT
* * * * *
988244 TCAACTTCACAGCGAATGAGCATCTATCAAGAAACAAATTTCCAATTTCATTCAGAGTTAATTTC
1 TCAACTTCACAGCGAATGGGCAACTATCAACATACAACTTTCCAATTTCATTCAGAGTTAATTTC
* *
988309 AACTTCACAGCGAAGGATATTAAACTCGAAGTGACACAAGTTACTCAAGATTGGATTTCAACTTC
66 AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTGGATTTCAACTTC
* *
988374 ACGACGAAGGATATCCAACTCAAAACCAATTTGGATTTCAACTTCACAACGAATGATATCCTATT
131 ACGACGAAGGATATCCAACTC-AAACCAATTTAGATTTCAACTTCACAACGAATGATATCCAATT
988439 CAAAGATCAACTTCACAGCGAAGGGGCAACTATCAACAAACAACTTTCCAGTTTCATTCAGATTC
195 CAAAGATCAACTTCACAGCGAAGGGGCAACTATCAACAAACAACTTTCCAGTTTCATTCAGATTC
*
988504 AATTTTAACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTAGATTTC
260 AATTTCAACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTAGATTTC
988569 AACTTCACGACGAATGATATCCAATTCAAAGC
325 AACTTCACGACGAATGATATCCAATTCAAAGC
*
988601 TCAACTTCACAGTGAATGGGCAACTATCAACATACAACTTTCCAATTTCATTCAGAGTTAATTTC
1 TCAACTTCACAGCGAATGGGCAACTATCAACATACAACTTTCCAATTTCATTCAGAGTTAATTTC
* *
988666 AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAATATTGGATTTTAACTTC
66 AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTGGATTTCAACTTC
* * *
988731 ACGACGAAGGATATCCAACTCAAACCAATTTTGATTTCAACTTCACAAAGAATGATATCCAATAC
131 ACGACGAAGGATATCCAACTCAAACCAATTTAGATTTCAACTTCACAACGAATGATATCCAATTC
* *
988796 AAATATCAACTTCACAGCGAAGGGGCAACTCTCAACAAACAACTTTCCAGTTTCATTCAGATTCA
196 AAAGATCAACTTCACAGCGAAGGGGCAACTATCAACAAACAACTTTCCAGTTTCATTCAGATTCA
*
988861 ATTTCAACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTAGTCAAGATTAGATTTCA
261 ATTTCAACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTAGATTTCA
988926 ACTTCACGACGAATGATATCCAATTCAAAGC
326 ACTTCACGACGAATGATATCCAATTCAAAGC
* *
988957 TCAACTTCACAGCGAATGGGCAACTGTCAACATACAACTTTCCAGTTTCATTCAGAGTTAATTTC
1 TCAACTTCACAGCGAATGGGCAACTATCAACATACAACTTTCCAATTTCATTCAGAGTTAATTTC
*
989022 AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTAGATTTCAACTTC
66 AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTGGATTTCAACTTC
*
989087 ACGACGAAGGATATCCAACTCCAAACCAATTTAGATTTCAACTTCACAACGAAGGATATCCAATT
131 ACGACGAAGGATATCCAACT-CAAACCAATTTAGATTTCAACTTCACAACGAATGATATCCAATT
* *
989152 CAAAGCTCAACTTCACAACGAA
195 CAAAGATCAACTTCACAGCGAA
989174 TGAGCCATCC
Statistics
Matches: 541, Mismatches: 31, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
356 341 0.63
357 200 0.37
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (356 bp):
TCAACTTCACAGCGAATGGGCAACTATCAACATACAACTTTCCAATTTCATTCAGAGTTAATTTC
AACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTGGATTTCAACTTC
ACGACGAAGGATATCCAACTCAAACCAATTTAGATTTCAACTTCACAACGAATGATATCCAATTC
AAAGATCAACTTCACAGCGAAGGGGCAACTATCAACAAACAACTTTCCAGTTTCATTCAGATTCA
ATTTCAACTTCACAGCGAAGGATATTGAACTCGAAGTGACACAATTTACTCAAGATTAGATTTCA
ACTTCACGACGAATGATATCCAATTCAAAGC
Found at i:988906 original size:200 final size:200
Alignment explanation
Indices: 988563--988954 Score: 624
Period size: 200 Copynumber: 2.0 Consensus size: 200
988553 CTCAAGATTA
* * * * * *
988563 GATTTCAACTTCACGACGAATGATATCCAATTCAAAGCTCAACTTCACAGTGAATGGGCAACTAT
1 GATTTCAACTTCACAAAGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTAT
*
988628 CAACATACAACTTTCCAATTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
66 CAACAAACAACTTTCCAATTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
* * *
988693 GAAGTGACACAATTTACTCAATATTGGATTTTAACTTCACGACGAAGGATATCCAACTCAAACCA
131 GAAGTGACACAATTTACTCAAGATTAGATTTCAACTTCACGACGAAGGATATCCAACTCAAACCA
988758 ATTTT
196 ATTTT
* *
988763 GATTTCAACTTCACAAAGAATGATATCCAATACAAATATCAACTTCACAGCGAAGGGGCAACTCT
1 GATTTCAACTTCACAAAGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTAT
*
988828 CAACAAACAACTTTCCAGTTTCATTCAGA-TTCAATTTCAACTTCACAGCGAAGGATATTGAACT
66 CAACAAACAACTTTCCAATTTCATTCAGAGTT-AATTTCAACTTCACAGCGAAGGATATTGAACT
* * *
988892 CGAAGTGACACAATTTAGTCAAGATTAGATTTCAACTTCACGACGAATGATATCCAATTCAAA
130 CGAAGTGACACAATTTACTCAAGATTAGATTTCAACTTCACGACGAAGGATATCCAACTCAAA
988955 GCTCAACTTC
Statistics
Matches: 175, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 2 0.01
200 173 0.99
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (200 bp):
GATTTCAACTTCACAAAGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTAT
CAACAAACAACTTTCCAATTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
GAAGTGACACAATTTACTCAAGATTAGATTTCAACTTCACGACGAAGGATATCCAACTCAAACCA
ATTTT
Found at i:988978 original size:156 final size:156
Alignment explanation
Indices: 988763--989104 Score: 578
Period size: 156 Copynumber: 2.2 Consensus size: 156
988753 AACCAATTTT
* * *
988763 GATTTCAACTTCACAAAGAATGATATCCAATACAAATATCAACTTCACAGCGAAGGGGCAACTCT
1 GATTTCAACTTCACGACGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTCT
988828 CAACAAACAACTTTCCAGTTTCATTCAGA-TTCAATTTCAACTTCACAGCGAAGGATATTGAACT
66 CAACAAACAACTTTCCAGTTTCATTCAGAGTT-AATTTCAACTTCACAGCGAAGGATATTGAACT
*
988892 CGAAGTGACACAATTTAGTCAAGATTA
130 CGAAGTGACACAATTTACTCAAGATTA
* * * *
988919 GATTTCAACTTCACGACGAATGATATCCAATTCAAAGCTCAACTTCACAGCGAATGGGCAACTGT
1 GATTTCAACTTCACGACGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTCT
*
988984 CAACATACAACTTTCCAGTTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
66 CAACAAACAACTTTCCAGTTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
989049 GAAGTGACACAATTTACTCAAGATTA
131 GAAGTGACACAATTTACTCAAGATTA
*
989075 GATTTCAACTTCACGACGAAGGATATCCAA
1 GATTTCAACTTCACGACGAATGATATCCAA
989105 CTCCAAACCA
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 173 0.99
157 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (156 bp):
GATTTCAACTTCACGACGAATGATATCCAATACAAAGATCAACTTCACAGCGAAGGGGCAACTCT
CAACAAACAACTTTCCAGTTTCATTCAGAGTTAATTTCAACTTCACAGCGAAGGATATTGAACTC
GAAGTGACACAATTTACTCAAGATTA
Found at i:989323 original size:112 final size:112
Alignment explanation
Indices: 989076--989450 Score: 416
Period size: 112 Copynumber: 3.3 Consensus size: 112
989066 TCAAGATTAG
*** * * *
989076 ATTTCAACTTCACGACGAAGGATATCCAACTCCA-AACC-AA-TTTAGATTTCAACTTCACAACG
1 ATTTCAACTTCACGACGAAGGATATCGTGC-CCACAACCAAAGATTGGATTTCAACTTCACGACG
* *
989138 AAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA-T
65 AAGGATATCCAATTCAAAG-ACAACTTCACAACGAAGGAGCCATCCACT
* *
989186 GATTTCAACTTCACGACGAATGATATCGTGCCCACAACCAAAGATTGGATTTCAACTTCATGACG
1 -ATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAAGATTGGATTTCAACTTCACGACG
* *
989251 AAGGATATCCAATTCAAAGAAAACTTCACAACAAAGGAGCCATCCACT
65 AAGGATATCCAATTCAAAGACAACTTCACAACGAAGGAGCCATCCACT
* * * *
989299 ACTTCAACTTCACGTCGAAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTT
1 ATTTCAACTTCACGACGAAGGATATCGTGCCCAC---AACCAAAG--A---TTGGATTTCAACTT
* * *
989364 CACGAAGAAGGATATCCAATTCAAAGATCAACTTCATAACGAAGGAGCCATCCACA
58 CACGACGAAGGATATCCAATTCAAAGA-CAACTTCACAACGAAGGAGCCATCCACT
* * *
989420 ATTTTAACTTTACGACGAAGAATATCGTGCC
1 ATTTCAACTTCACGACGAAGGATATCGTGCC
989451 TAACGGATCG
Statistics
Matches: 223, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
110 3 0.01
111 30 0.13
112 56 0.25
113 38 0.17
115 6 0.03
117 1 0.00
120 39 0.17
121 50 0.22
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (112 bp):
ATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAAAGATTGGATTTCAACTTCACGACGA
AGGATATCCAATTCAAAGACAACTTCACAACGAAGGAGCCATCCACT
Found at i:990251 original size:5 final size:5
Alignment explanation
Indices: 990241--990301 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
990231 CTATAAAAAC
*
990241 ATTAT ATTAT ATTAT ATTATT ATTATT ATTATT ATTTT ATTA- ATT-T
1 ATTAT ATTAT ATTAT ATTA-T ATTA-T ATTA-T ATTAT ATTAT ATTAT
990287 A-TAT ATTAT AATTAT
1 ATTAT ATTAT -ATTAT
990302 TTTTTGCAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
3 1 0.02
4 6 0.12
5 21 0.43
6 21 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTAT
Found at i:990263 original size:3 final size:3
Alignment explanation
Indices: 990241--990302 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
990231 CTATAAAAAC
*
990241 ATT A-T ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
990285 -TT ATAT ATT ATA ATT ATT
1 ATT AT-T ATT ATT ATT ATT
990303 TTTTGCAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
2 9 0.18
3 37 0.76
4 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:998832 original size:22 final size:21
Alignment explanation
Indices: 998807--998851 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
998797 AATGAGGAAA
998807 TAGATGAGGTGGGACACTTTAC
1 TAGA-GAGGTGGGACACTTTAC
998829 T--AGAGGTGGGACACTTTAC
1 TAGAGAGGTGGGACACTTTAC
998848 TAGA
1 TAGA
998852 AGTGGCAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 18 0.86
20 1 0.05
21 1 0.05
22 1 0.05
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (21 bp):
TAGAGAGGTGGGACACTTTAC
Found at i:998836 original size:19 final size:19
Alignment explanation
Indices: 998812--998856 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
998802 GGAAATAGAT
998812 GAGGTGGGACACTTTACTA
1 GAGGTGGGACACTTTACTA
998831 GAGGTGGGACACTTTACTA
1 GAGGTGGGACACTTTACTA
*
998850 GAAGTGG
1 GAGGTGG
998857 CAGGTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (19 bp):
GAGGTGGGACACTTTACTA
Found at i:1007313 original size:7 final size:7
Alignment explanation
Indices: 1007312--1007351 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
1007302 TAAAAATGAA
1007312 AAAAATG
1 AAAAATG
1007319 AAAAATG
1 AAAAATG
1007326 AAAAATG
1 AAAAATG
1007333 AAAAA-G
1 AAAAATG
1007339 AAGAAAATG
1 -A-AAAATG
1007348 AAAA
1 AAAA
1007352 TAAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 23 0.77
8 5 0.17
9 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:1007324 original size:16 final size:16
Alignment explanation
Indices: 1007303--1007351 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 16
1007293 AATAAATAAT
1007303 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAATG
1007319 AAAAATG--AAAAATG
1 AAAAATGAAAAAAATG
*
1007333 AAAAA-GAAGAAAATG
1 AAAAATGAAAAAAATG
1007348 AAAA
1 AAAA
1007352 TAAAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 12 0.40
15 10 0.33
16 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:1007333 original size:23 final size:22
Alignment explanation
Indices: 1007303--1007351 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
1007293 AATAAATAAT
1007303 AAAAATGAAAAA-AATGAAAAATG
1 AAAAATGAAAAAGAA-G-AAAATG
1007326 AAAAATGAAAAAGAAGAAAATG
1 AAAAATGAAAAAGAAGAAAATG
1007348 AAAA
1 AAAA
1007352 TAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.40
23 13 0.52
24 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (22 bp):
AAAAATGAAAAAGAAGAAAATG
Found at i:1007358 original size:16 final size:15
Alignment explanation
Indices: 1007313--1007372 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
1007303 AAAAATGAAA
**
1007313 AAAATGAAAAATGA-
1 AAAATGAAAAAAAAG
*
1007327 AAAATGAAAAAGAAG
1 AAAATGAAAAAAAAG
1007342 AAAATGAAAATAAAAG
1 AAAATGAAAA-AAAAG
* *
1007358 AAAAAGAAAAGAAAG
1 AAAATGAAAAAAAAG
1007373 GTTCAAGATG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.31
15 14 0.36
16 13 0.33
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (15 bp):
AAAATGAAAAAAAAG
Found at i:1007364 original size:22 final size:21
Alignment explanation
Indices: 1007304--1007371 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
1007294 ATAAATAATA
* *
1007304 AAAATGAAAAAAATGAAAAATG
1 AAAATAAAAAAAAAG-AAAATG
* *
1007326 AAAAATGAAAAAGAAGAAAATG
1 -AAAATAAAAAAAAAGAAAATG
1007348 AAAATAAAAGAAAAAGAAAA-G
1 AAAATAAAA-AAAAAGAAAATG
1007369 AAA
1 AAA
1007372 GGTTCAAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.30
22 15 0.38
23 13 0.32
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (21 bp):
AAAATAAAAAAAAAGAAAATG
Found at i:1009052 original size:161 final size:161
Alignment explanation
Indices: 1008692--1009406 Score: 837
Period size: 161 Copynumber: 4.4 Consensus size: 161
1008682 AGCATATAAA
* * ** * *
1008692 GTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGTGCATATCGATT-TTCATTTCCCCTGAAT
1 GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTT-ATCT-CCCTGAAT
* * ** * * *
1008756 AAATAGTGGAGCAGAGACATCTTCCAAAGTTGATTTGTCTACCCGAAAAAGAGGCACAGATCGAG
64 GAATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAA-AGACACAGATCGAG
** * * * * **
1008821 TCTTATCTCTCTGAATAAATAGTGAAAAAAGACAC
128 TCTGGTTTCCCTGAATGAATAGT-AGAGCAGACAC
* * * *
1008856 GTCTTCCAAAGTTGATATGTGTACTTGAAAAAGAGGCACGGATCGATTCTTATCTCCTTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTTATCTCCCTGAATGA
*
1008921 ATAGTGAAAAAGACTCATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGACACAGATCGAGTCT
66 ATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGACACAGATCGAGTCT
1008986 GGTTTCCCTGAATGAATAGTAGAGCAGACAC
131 GGTTTCCCTGAATGAATAGTAGAGCAGACAC
* * * ** * *
1009017 GTCTTTCAAAGTTAATATGTGTACTTAAAAAAGAGGCACATATCGATTCTTATCTCCTTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTTATCTCCCTGAATGA
*
1009082 ATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGACACAGATCGAGTAT
66 ATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGACACAGATCGAGTCT
*
1009147 GGTTTCCCTGAATGAATAGTAGATCAGACAC
131 GGTTTCCCTGAATGAATAGTAGAGCAGACAC
* * *
1009178 GTCTTCCAAAGTTGATATGTCTAC-CGAAAAAGAGGCACAGATCGATTCTGATTTCCCCTGAATA
1 GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTTATCT-CCCTGAATG
* ** * * * *
1009242 AATAGTGGAGCAGACACGTCTTTCAAAGTTGATCTGTCTACCC-AAAAAAGAGGCACAAATCGAG
65 AATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGA--CACAGATCGAG
* * * * *
1009306 TCT--TATCCTTGAATGAATAGTGGAGCAGAAAA
128 TCTGGTTTCCCTGAATGAATAGTAGAGCAGACAC
* * * * *
1009338 TTCTTCCAAAGTTGATTTGTCTACCCGAAGAAGAGGCACAGATCGAATCTTATCTCCCTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTTATCTCCCTGAATGA
1009403 ATAG
66 ATAG
1009407 AACATACATG
Statistics
Matches: 481, Mismatches: 65, Indels: 14
0.86 0.12 0.03
Matches are distributed among these distances:
160 91 0.19
161 252 0.52
162 43 0.09
163 50 0.10
164 43 0.09
165 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (161 bp):
GTCTTCCAAAGTTGATATGTCTACTCGAAAAAGAGGCACAGATCGATTCTTATCTCCCTGAATGA
ATAGTGAAAAAGACACATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGACACAGATCGAGTCT
GGTTTCCCTGAATGAATAGTAGAGCAGACAC
Found at i:1009096 original size:81 final size:81
Alignment explanation
Indices: 1008692--1009451 Score: 700
Period size: 81 Copynumber: 9.4 Consensus size: 81
1008682 AGCATATAAA
* * ** * * *
1008692 GTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGTGCATATCGA-TTTTCATTTCCCCTGAAT
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTT-ATCT-CCCTGAAT
* * * *
1008756 AAATAGTGGAGCAGAGAC
64 GAATAGTGAAACAGACAC
* * * * *
1008774 ATCTTCCAAAGTTGATTTGTCTACCCGAAAAAGAGGCACAGATCGAGTCTTATCTCTCTGAATAA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
*
1008839 ATAGTGAAAAAAGACAC
66 ATAGTG-AAACAGACAC
* *** * * *
1008856 GTCTTCCAAAGTTGATATGTGTACTTGAAAAAGAGGCACGGATCGATTCTTATCTCCTTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
* *
1008921 ATAGTGAAAAAGACTC
66 ATAGTGAAACAGACAC
* ** *
1008937 ATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGA--CACAGATCGAGTCTGGTTTCCCTGAATG
1 GTCTTCCAAAGTTGATATGTCTACCC-AAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATG
*
1009000 AATAGT-AGAGCAGACAC
65 AATAGTGA-AACAGACAC
* * * ** * * *
1009017 GTCTTTCAAAGTTAATATGTGTACTTAAAAAAGAGGCACATATCGATTCTTATCTCCTTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
*
1009082 ATAGTGAAAAAGACAC
66 ATAGTGAAACAGACAC
* * ** *
1009098 ATCTTCCAAAGTTGATATGTCTACCCGAAAAAAGA--CACAGATCGAGTATGGTTTCCCTGAATG
1 GTCTTCCAAAGTTGATATGTCTACCC-AAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATG
*
1009161 AATAGT-AGATCAGACAC
65 AATAGTGA-AACAGACAC
* * * * *
1009178 GTCTTCCAAAGTTGATATGTCTA-CCGAAAAAGAGGCACAGATCGATTCTGATTTCCCCTGAATA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCT-CCCTGAATG
* *
1009242 AATAGTGGAGCAGACAC
65 AATAGTGAAACAGACAC
* * * *
1009259 GTCTTTCAAAGTTGATCTGTCTACCCAAAAAAGAGGCACAAATCGAGTCTTA--TCCTTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
* * * *
1009322 ATAGTGGAGCAGAAAA
66 ATAGTGAAACAGACAC
* * * * *
1009338 TTCTTCCAAAGTTGATTTGTCTACCCGAAGAAGAGGCACAGATCGAATCTTATCTCCCTGAATGA
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
* *
1009403 ATA--G-AACATACAT
66 ATAGTGAAACAGACAC
* * * * *
1009416 GTCTTCCAAAATAGATTTGACTACCCGAAAAAGAGG
1 GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGG
1009452 AACAAATCAA
Statistics
Matches: 560, Mismatches: 102, Indels: 36
0.80 0.15 0.05
Matches are distributed among these distances:
78 43 0.08
79 80 0.14
80 127 0.23
81 157 0.28
82 150 0.27
83 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (81 bp):
GTCTTCCAAAGTTGATATGTCTACCCAAAAAAGAGGCACAGATCGAGTCTTATCTCCCTGAATGA
ATAGTGAAACAGACAC
Found at i:1012759 original size:21 final size:21
Alignment explanation
Indices: 1012733--1012786 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1012723 TAATCCCAAC
1012733 AGAGTATAGATAGTACTTGAA
1 AGAGTATAGATAGTACTTGAA
1012754 AGAGTATAGATAGTACTTGAA
1 AGAGTATAGATAGTACTTGAA
1012775 AGAGTATAGATA
1 AGAGTATAGATA
1012787 CTACATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (21 bp):
AGAGTATAGATAGTACTTGAA
Found at i:1015175 original size:3 final size:3
Alignment explanation
Indices: 1015167--1015201 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1015157 AGATATAGAG
1015167 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1015202 TTGCATATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1015669 original size:20 final size:20
Alignment explanation
Indices: 1015646--1015685 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1015636 TTACAGGATT
1015646 ATTAAAAAAATAAAAATAAA
1 ATTAAAAAAATAAAAATAAA
** *
1015666 ATTAAATCACTAAAAATAAA
1 ATTAAAAAAATAAAAATAAA
1015686 GAAAAATCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
ATTAAAAAAATAAAAATAAA
Found at i:1019699 original size:3 final size:3
Alignment explanation
Indices: 1019691--1019739 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1019681 GGATAGAGTT
1019691 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1019739 T
1 T
1019740 AATTTTGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1020089 original size:19 final size:19
Alignment explanation
Indices: 1020067--1020109 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1020057 GTACACTCAA
*
1020067 TAAAGAAAAATCCAAAAAT
1 TAAAAAAAAATCCAAAAAT
* *
1020086 TAAAAAAAAAATCTAATAAT
1 T-AAAAAAAAATCCAAAAAT
1020106 TAAA
1 TAAA
1020110 TTTTAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (19 bp):
TAAAAAAAAATCCAAAAAT
Found at i:1020097 original size:20 final size:20
Alignment explanation
Indices: 1020072--1020109 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1020062 CTCAATAAAG
1020072 AAAAATCCAAAAATTAAAAA
1 AAAAATCCAAAAATTAAAAA
* *
1020092 AAAAATCTAATAATTAAA
1 AAAAATCCAAAAATTAAA
1020110 TTTTAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATCCAAAAATTAAAAA
Found at i:1020547 original size:5 final size:5
Alignment explanation
Indices: 1020537--1020608 Score: 53
Period size: 5 Copynumber: 14.8 Consensus size: 5
1020527 AATATTTCTA
* * *
1020537 ATAAT ATAAT ATAAT ATAAT AT-TT TTAAT AT--T ATAAT AAAAT AATAA-
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
* *
1020584 ATTAT ATTAAA ATAAT ATAAT ATAA
1 ATAAT A-TAAT ATAAT ATAAT ATAA
1020609 GATATTATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
3 3 0.06
4 5 0.10
5 37 0.73
6 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:1020589 original size:18 final size:18
Alignment explanation
Indices: 1020566--1020600 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1020556 TATTTTTAAT
1020566 ATTATAATAAAATAATAA
1 ATTATAATAAAATAATAA
*
1020584 ATTATATTAAAATAATA
1 ATTATAATAAAATAATA
1020601 TAATATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAATAAAATAATAA
Found at i:1020613 original size:23 final size:23
Alignment explanation
Indices: 1020564--1020615 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1020554 AATATTTTTA
* *
1020564 ATATTATAATAAAATAATAAATT
1 ATATTAAAATAAAATAATAAATG
*
1020587 ATATTAAAATAATATAATATAA-G
1 ATATTAAAATAAAATAATA-AATG
1020610 ATATTA
1 ATATTA
1020616 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATTAAAATAAAATAATAAATG
Found at i:1020655 original size:60 final size:58
Alignment explanation
Indices: 1020536--1020655 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 58
1020526 TAATATTTCT
*
1020536 AATAATATAATATAATATAATATTTTTAATATTATAATAAAATAATAAATTATATTAA
1 AATAATATAATATAATATAATATTTTTAATATTATAATAAAATAATAAATTATAATAA
*
1020594 AATAATATAATATAAGATATTATATTTTT-AT-TT-TAATAATATATAATAAATTATTAATAA
1 AATAATATAATAT-A-ATATAATATTTTTAATATTATAATAA-A-ATAATAAATTA-TAATAA
1020654 AA
1 AA
1020656 ATTATATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
57 6 0.11
58 16 0.29
59 14 0.25
60 19 0.35
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (58 bp):
AATAATATAATATAATATAATATTTTTAATATTATAATAAAATAATAAATTATAATAA
Found at i:1020720 original size:19 final size:18
Alignment explanation
Indices: 1020630--1020764 Score: 55
Period size: 18 Copynumber: 7.3 Consensus size: 18
1020620 TTTATTTTAA
1020630 TAATATATAATAA-ATTAT
1 TAATA-ATAATAATATTAT
* *
1020648 TAATAAAAATTATATTATT
1 TAATAATAATAATATTA-T
* * * ** *
1020667 TATTAAT-TTCATAGAAA
1 TAATAATAATAATATTAT
* *
1020684 TAATATTATTAA-ATTAT
1 TAATAATAATAATATTAT
1020701 TAATAATGAATAATATTAT
1 TAATAAT-AATAATATTAT
* *
1020720 TTAT-ATATTTAATATTAAT
1 TAATAATA-ATAATATT-AT
1020739 ATAATAATCTAATAATATT-T
1 -TAATAA--TAATAATATTAT
1020759 TAATAA
1 TAATAA
1020765 AGATATTTCA
Statistics
Matches: 85, Mismatches: 21, Indels: 21
0.67 0.17 0.17
Matches are distributed among these distances:
17 19 0.22
18 30 0.35
19 22 0.26
20 4 0.05
21 1 0.01
22 7 0.08
23 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TAATAATAATAATATTAT
Found at i:1020739 original size:27 final size:27
Alignment explanation
Indices: 1020647--1020744 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
1020637 TAATAAATTA
* *
1020647 TTAATAAAAATTATATTATTTAT-TAAT
1 TTAATATAAATAATATTATTTATAT-AT
* * *
1020674 TTCATAGAAATAATATTA-TTAAAT-T
1 TTAATATAAATAATATTATTTATATAT
*
1020699 ATTAATAATGAATAATATTATTTATATAT
1 -TTAAT-ATAAATAATATTATTTATATAT
1020728 TTAATATTAATATAATA
1 TTAATA-TAA-ATAATA
1020745 ATCTAATAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 1 0.02
26 7 0.13
27 28 0.51
28 12 0.22
29 7 0.13
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAATATAAATAATATTATTTATATAT
Found at i:1020785 original size:23 final size:23
Alignment explanation
Indices: 1020759--1020803 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1020749 AATAATATTT
*
1020759 TAATAAAGATATTTCAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
1020782 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
1020804 ATATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:1020948 original size:20 final size:20
Alignment explanation
Indices: 1020898--1020948 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1020888 TTAATAAAAT
1020898 TATAAAAATAATATTTTAATAA
1 TATAAAAAT--TATTTTAATAA
* *
1020920 TATATAAATTATTTTAATAT
1 TATAAAAATTATTTTAATAA
*
1020940 TTTAAAAAT
1 TATAAAAAT
1020949 AATATTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATAAAAATTATTTTAATAA
Found at i:1020956 original size:20 final size:20
Alignment explanation
Indices: 1020898--1020956 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
1020888 TTAATAAAAT
1020898 TATAAAAATAATATTTTAATAA
1 TATAAAAATAATA--TTAATAA
* * * *
1020920 TATATAAATTATTTTAATAT
1 TATAAAAATAATATTAATAA
*
1020940 TTTAAAAATAATATTAA
1 TATAAAAATAATATTAA
1020957 GTTTTATGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 19 0.66
22 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAAAATAATATTAATAA
Found at i:1021655 original size:32 final size:32
Alignment explanation
Indices: 1021614--1021676 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1021604 GAGATACCTA
1021614 AAAGATATATAAACCAAAATATTAAAACAACT
1 AAAGATATATAAACCAAAATATTAAAACAACT
1021646 AAAGATATATAAACCAAAATATTAAAACAAC
1 AAAGATATATAAACCAAAATATTAAAACAAC
1021677 AGACAGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (32 bp):
AAAGATATATAAACCAAAATATTAAAACAACT
Found at i:1021659 original size:18 final size:15
Alignment explanation
Indices: 1021614--1021671 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
1021604 GAGATACCTA
1021614 AAAGATATATAAACC
1 AAAGATATATAAACC
1021629 AAA-ATAT-TAAAACAAC
1 AAAGATATAT-AAAC--C
1021645 TAAAGATATATAAACC
1 -AAAGATATATAAACC
1021661 AAA-ATAT-TAAA
1 AAAGATATATAAA
1021672 ACAACAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 5 0.14
14 12 0.32
15 6 0.16
16 2 0.05
17 3 0.08
18 8 0.22
19 1 0.03
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAGATATATAAACC
Found at i:1023737 original size:30 final size:30
Alignment explanation
Indices: 1023703--1023760 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
1023693 TTTAGGGTTT
1023703 TAAAGGGATTTTCAGGGGTTTGATTGGTAG
1 TAAAGGGATTTTCAGGGGTTTGATTGGTAG
*
1023733 TAAAGGGATTTTCAGGGTTTTGATTGGT
1 TAAAGGGATTTTCAGGGGTTTGATTGGT
1023761 GGTTACACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.40
Consensus pattern (30 bp):
TAAAGGGATTTTCAGGGGTTTGATTGGTAG
Found at i:1026974 original size:178 final size:179
Alignment explanation
Indices: 1026675--1027031 Score: 707
Period size: 178 Copynumber: 2.0 Consensus size: 179
1026665 GCTCTCTGTA
1026675 TTCTTGGACAAGTTTTACATGGGAAATAGTGAAGATTGGATAACTAAGTTTGAACATCCCGACTG
1 TTCTTGGACAAGTTTTACATGGGAAATAGTGAAGATTGGATAACTAAGTTTGAACATCCCGACTG
1026740 GCGCTGTAGCATGAAAGGAGCGCATAGGGTGAATTTTATAGGTAGGCAATTTAGTTGAAACATTC
66 GCGCTGTAGCATGAAAGGAGCGCATAGGGTGAATTTTATAGGTAGGCAATTTAGTTGAAACATTC
1026805 -TGTGTAATTGTACTGTTGTGGATCCTAATTAGTTTTAGTTGAATTCTT
131 TTGTGTAATTGTACTGTTGTGGATCCTAATTAGTTTTAGTTGAATTCTT
1026853 TTCTTGGACAAGTTTTACATGGGAAATAGTGAAGATTGGATAACTAAGTTTGAACATCCCGACTG
1 TTCTTGGACAAGTTTTACATGGGAAATAGTGAAGATTGGATAACTAAGTTTGAACATCCCGACTG
1026918 GCGCTGTAGCATGAAAGGAGCGCATAGGGTGAATTTTATAGGTAGGCAATTTAGTTGAAACATTC
66 GCGCTGTAGCATGAAAGGAGCGCATAGGGTGAATTTTATAGGTAGGCAATTTAGTTGAAACATTC
1026983 TTGTGTAATTGTACTGTTGTGGATCCTAATTAGTTTTAGTTGAATTCTT
131 TTGTGTAATTGTACTGTTGTGGATCCTAATTAGTTTTAGTTGAATTCTT
1027032 GTTCATTATT
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 130 0.73
179 48 0.27
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (179 bp):
TTCTTGGACAAGTTTTACATGGGAAATAGTGAAGATTGGATAACTAAGTTTGAACATCCCGACTG
GCGCTGTAGCATGAAAGGAGCGCATAGGGTGAATTTTATAGGTAGGCAATTTAGTTGAAACATTC
TTGTGTAATTGTACTGTTGTGGATCCTAATTAGTTTTAGTTGAATTCTT
Found at i:1027264 original size:20 final size:20
Alignment explanation
Indices: 1027239--1027276 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1027229 TTTGGTTCAC
1027239 GGAATGGAAGATTATCAGTG
1 GGAATGGAAGATTATCAGTG
*
1027259 GGAATGTAAGATTATCAG
1 GGAATGGAAGATTATCAG
1027277 GGAATAAGAT
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:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (20 bp):
GGAATGGAAGATTATCAGTG
Found at i:1027286 original size:16 final size:18
Alignment explanation
Indices: 1027246--1027288 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
1027236 CACGGAATGG
1027246 AAGATTATCAGTGGGAATGT
1 AAGATTATCAG-GGGAA-GT
1027266 AAGATTATCA-GGGAA-T
1 AAGATTATCAGGGGAAGT
1027282 AAGATTA
1 AAGATTA
1027289 CTGGGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
18 5 0.22
20 10 0.43
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.28
Consensus pattern (18 bp):
AAGATTATCAGGGGAAGT
Found at i:1027507 original size:37 final size:37
Alignment explanation
Indices: 1027434--1027508 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1027424 GTTGAAAAAT
* *
1027434 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
* *
1027471 ATTTATATAATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTAAAAATCATAAA
1027508 A
1 A
1027509 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:1032835 original size:2 final size:2
Alignment explanation
Indices: 1032828--1032924 Score: 187
Period size: 2 Copynumber: 49.0 Consensus size: 2
1032818 TTTAATTTTA
1032828 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
1032870 AT AT AT AT AT AT AT A- 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
1032911 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1032925 TTTAATTAGA
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 93 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1034209 original size:20 final size:20
Alignment explanation
Indices: 1034154--1034207 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1034144 GGTTTTAGCC
1034154 GATTTCGGGTAGTTTAGGGG
1 GATTTCGGGTAGTTTAGGGG
1034174 GATTTCGGGTAGTTTAGGGG
1 GATTTCGGGTAGTTTAGGGG
*
1034194 GTTTTC-GGTAGTTT
1 GATTTCGGGTAGTTT
1034208 TAAGCCTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.13, C:0.06, G:0.41, T:0.41
Consensus pattern (20 bp):
GATTTCGGGTAGTTTAGGGG
Found at i:1034975 original size:23 final size:23
Alignment explanation
Indices: 1034949--1034993 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1034939 AATTAGGTCC
1034949 TTGTATTTAAGCTTTTTTTTATG
1 TTGTATTTAAGCTTTTTTTTATG
* ***
1034972 TTGTGTTTTTTCTTTTTTTTAT
1 TTGTATTTAAGCTTTTTTTTAT
1034994 TATTTTAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.73
Consensus pattern (23 bp):
TTGTATTTAAGCTTTTTTTTATG
Found at i:1044173 original size:48 final size:48
Alignment explanation
Indices: 1044120--1044214 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
1044110 TACCTCCTCT
1044120 TTTTGGAACTGTAACTGAGTATTTATTGAGGGAATTTTCTTAGGGTTC
1 TTTTGGAACTGTAACTGAGTATTTATTGAGGGAATTTTCTTAGGGTTC
1044168 TTTTGGAACTGTAACTGAGTATTTATTGAGGGAATTTTCTTAGGGTT
1 TTTTGGAACTGTAACTGAGTATTTATTGAGGGAATTTTCTTAGGGTT
1044215 TCACATCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.44
Consensus pattern (48 bp):
TTTTGGAACTGTAACTGAGTATTTATTGAGGGAATTTTCTTAGGGTTC
Found at i:1048917 original size:22 final size:23
Alignment explanation
Indices: 1048870--1048920 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1048860 CGATTCCCCT
*
1048870 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGAAATCGGTTCCCCTTCAA
*
1048893 AGGGGAAATTGGTTCCCCTTCAA
1 AGGGGAAATCGGTTCCCCTTCAA
*
1048916 GGGGG
1 AGGGG
1048921 TATCGATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (23 bp):
AGGGGAAATCGGTTCCCCTTCAA
Found at i:1052782 original size:22 final size:21
Alignment explanation
Indices: 1052740--1052779 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1052730 AAGACTATTT
1052740 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
1052761 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
1052780 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:1054854 original size:22 final size:22
Alignment explanation
Indices: 1054829--1054871 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1054819 TTTGAAACGG
1054829 TTTGAAA-TATTTGTAAAATTAT
1 TTTGAAATTATTT-TAAAATTAT
*
1054851 TTTGAAATTATTTTAAGATTA
1 TTTGAAATTATTTTAAAATTA
1054872 AAACTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTGAAATTATTTTAAAATTAT
Found at i:1055896 original size:25 final size:25
Alignment explanation
Indices: 1055862--1055958 Score: 140
Period size: 25 Copynumber: 3.9 Consensus size: 25
1055852 CACACATTAT
* * *
1055862 TGTCAAAAGGAGTAACATACCTTGC
1 TGTCGAAAGGAGTCACAGACCTTGC
*
1055887 TGTCGAAAGGAGTCACAGACCTTGT
1 TGTCGAAAGGAGTCACAGACCTTGC
*
1055912 TGTCGGAAGGAGTCACAGACCTTGC
1 TGTCGAAAGGAGTCACAGACCTTGC
*
1055937 TGTCGAAAGGAGTCACAAACCT
1 TGTCGAAAGGAGTCACAGACCT
1055959 CAAAAAATGC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
TGTCGAAAGGAGTCACAGACCTTGC
Found at i:1060624 original size:1 final size:1
Alignment explanation
Indices: 1060618--1060693 Score: 71
Period size: 1 Copynumber: 76.0 Consensus size: 1
1060608 CCTAAGAAAG
* * * * * * *
1060618 AAAAAAAGAAAAAAAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1060683 GAAAAGAAAAA
1 AAAAAAAAAAA
1060694 GCAGAGGTTC
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:1060631 original size:7 final size:7
Alignment explanation
Indices: 1060611--1060687 Score: 113
Period size: 7 Copynumber: 11.0 Consensus size: 7
1060601 TATTACACCT
1060611 AAGAAAGA
1 AAGAAA-A
1060619 AA-AAAA
1 AAGAAAA
1060625 GAA-AAAA
1 -AAGAAAA
*
1060632 AAAAAAA
1 AAGAAAA
1060639 AAGAAAA
1 AAGAAAA
1060646 AAGAAAA
1 AAGAAAA
1060653 AAGAAAA
1 AAGAAAA
1060660 AAGAAAA
1 AAGAAAA
1060667 AAGAAAA
1 AAGAAAA
1060674 AAGAAAA
1 AAGAAAA
1060681 AAGAAAA
1 AAGAAAA
1060688 GAAAAAGCAG
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
6 3 0.05
7 61 0.92
8 2 0.03
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:1061905 original size:136 final size:136
Alignment explanation
Indices: 1061683--1062130 Score: 477
Period size: 136 Copynumber: 3.3 Consensus size: 136
1061673 TGAACCGATC
* * * * * *
1061683 AACATTTCCAATGGAGAGTTCATAATGATATGAACTCATCCGAGAGAGGGAGAATATGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAAAA
* ** * *
1061748 TGAGAAGAACTTGTTCAACCTATTGCTCGAATCACAACACTTCAAATCAGTAACGTCC-CTCTTG
66 TGAGAAGAACTTATTCAACCTATTGCTCGAATCACAACACTTCAAATCAACAAC-ACCTCGCTTG
*
1061812 AGGGATT
130 AAGGATT
* * * * * *
1061819 AATATTTCCAATGGAGATTTCATAATGAGAAGAACCCATTCGACAAAGGGAGAAGAAGTTCACAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAAAA
* ** * * * **
1061884 TGAGAAGAATTTATTTGACCTATTGCTTGATTCACAACATTTTGAATCAACAACACCTCGCTTGA
66 TGAGAAGAACTTATTCAACCTATTGCTCGAATCACAACACTTCAAATCAACAACACCTCGCTTGA
1061949 AGGATT
131 AGGATT
** *
1061955 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTTGTCCGGCAGAGGGAGAAGAAGTTCAAAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAAAA
* * * * * ** * *
1062020 TGAGAAGAACTTGTTCAACCTGTTGCTCGATTCACGACATTTTGAATTAGCAACACCTCGCTT-A
66 TGAGAAGAACTTATTCAACCTATTGCTCGAATCACAACACTTCAAATCAACAACACCTCGCTTGA
1062084 AGGGATT
131 A-GGATT
*
1062091 AACATTTTCAATGGAGAGTACTCTCATAATGAGAAGAACT
1 AACATTTCCAATGGAGAG---T-TCATAATGAGAAGAACT
1062131 TGTTCGACCT
Statistics
Matches: 262, Mismatches: 44, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
135 4 0.02
136 240 0.92
139 1 0.00
140 17 0.06
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (136 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAAAA
TGAGAAGAACTTATTCAACCTATTGCTCGAATCACAACACTTCAAATCAACAACACCTCGCTTGA
AGGATT
Found at i:1062152 original size:100 final size:96
Alignment explanation
Indices: 1062013--1062226 Score: 266
Period size: 100 Copynumber: 2.2 Consensus size: 96
1062003 GGAGAAGAAG
* * * * *
1062013 TTCAAAATGAGAAGAACTTGTTCAACCTGTTGCTCGATTCACGACATTTTGAATTAGCAACACCT
1 TTCATAATGAGAAGAACTTGTTCAACCTATTGCTCGATTCACAACACTTTGAATCAGCAACACCT
**
1062078 CGCTTAAGGGATTAACATTTTCAATGGAGAGTAC
66 CGCTTAAGGGATTAACATTCCCAAT--AGAG-AC
* * * *
1062112 TCTCATAATGAGAAGAACTTGTTCGACCTATTGCTTGATTCACAACACTTTGAATCAGTAACGCC
1 T-TCATAATGAGAAGAACTTGTTCAACCTATTGCTCGATTCACAACACTTTGAATCAGCAACACC
* * *
1062177 TCGCTTGAGGGTTTAACATTCCCAATAGAGAG
65 TCGCTTAAGGGATTAACATTCCCAATAGAGAC
1062209 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
1062227 CATCCGACAG
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
96 17 0.17
97 2 0.02
98 4 0.04
99 1 0.01
100 76 0.76
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (96 bp):
TTCATAATGAGAAGAACTTGTTCAACCTATTGCTCGATTCACAACACTTTGAATCAGCAACACCT
CGCTTAAGGGATTAACATTCCCAATAGAGAC
Found at i:1062181 original size:236 final size:231
Alignment explanation
Indices: 1061877--1062361 Score: 637
Period size: 236 Copynumber: 2.1 Consensus size: 231
1061867 GGAGAAGAAG
* * * *
1061877 TTCACAATGAGAAGAATTTATTTGACCTATTGCTTGATTCACAACATTTTGAATCAACAACACCT
1 TTCATAATGAGAAGAACTTATTCGACCTATTGCTTGATTCACAACACTTTGAATCAACAACACCT
* * ** *
1061942 CGCTTGAAGGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTTGTCCGGCAGAGGGAG
66 CGCTTGAAGGATTAACATTCCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAG
* * * * *
1062007 AAGAAGTTCAAAATGAGAAGAACTTGTTCAACCTGTTGCTCGATTCACGACATTTTGAATTAGCA
131 AAGAAGTTCAAAATGAGAAGAACTTGTTCAACCTATTACTCGATTCACGACACTTCGAATCAGCA
*
1062072 ACACCTCGCTTAAGGGATTAACATTTTCAATGGAGAGTAC
196 ACACCTC-CTTAAGGGATTAACATTTCCAAT-GA-AG-AC
* ** *
1062112 TCTCATAATGAGAAGAACTTGTTCGACCTATTGCTTGATTCACAACACTTTGAATCAGTAACGCC
1 T-TCATAATGAGAAGAACTTATTCGACCTATTGCTTGATTCACAACACTTTGAATCAACAACACC
* *
1062177 TCGCTTGAGGGTTTAACATTCCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGA
65 TCGCTTGAAGGATTAACATTCCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGA
* ** * * * *
1062242 GAAGAAGTTCATAATGAGAAGAACTTGTTTGACTTATTATTGGATTCATGACACTTCGAATCAGC
130 GAAGAAGTTCAAAATGAGAAGAACTTGTTCAACCTATTACTCGATTCACGACACTTCGAATCAGC
* ** *
1062307 AACGCCTCCTTGGGGGATTAACATTTCCAATGAAGAG
195 AACACCTCCTTAAGGGATTAACATTTCCAATGAAGAC
1062344 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
1062362 CATCTGATAG
Statistics
Matches: 217, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
231 17 0.08
232 2 0.01
233 2 0.01
234 2 0.01
235 21 0.10
236 173 0.80
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (231 bp):
TTCATAATGAGAAGAACTTATTCGACCTATTGCTTGATTCACAACACTTTGAATCAACAACACCT
CGCTTGAAGGATTAACATTCCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAG
AAGAAGTTCAAAATGAGAAGAACTTGTTCAACCTATTACTCGATTCACGACACTTCGAATCAGCA
ACACCTCCTTAAGGGATTAACATTTCCAATGAAGAC
Found at i:1062311 original size:136 final size:135
Alignment explanation
Indices: 1062114--1062499 Score: 499
Period size: 135 Copynumber: 2.8 Consensus size: 135
1062104 GAGAGTACTC
* * *
1062114 TCATAATGAGAAGAACTTGTTCGACCTATTGCTTGATTCACAACACTTTGAATCAGTAACGCCTC
1 TCATAATGAGAAGAACTTGTTCGACATATT-ATTGATTCACAACACTTTGAATCAGCAACGCCTC
* *
1062179 GCTTGAGGGTTTAACATTCCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGA
65 GCTTGAGGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGA
1062244 AGAAGT
130 AGAAGT
* * ** *
1062250 TCATAATGAGAAGAACTTGTTTGACTTATTATTGGATTCATGACACTTCGAATCAGCAACGCCTC
1 TCATAATGAGAAGAACTTGTTCGACATATTATT-GATTCACAACACTTTGAATCAGCAACGCCTC
* * *
1062315 -CTTGGGGGATTAACATTTCCAAT-GAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAG
65 GCTTGAGGGATTAACATTTCCAATAG-AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAG
*
1062378 AATAAGT
129 AAGAAGT
* * * *
1062385 TCATAATGAGAAGAACTTGTTCGACATATTGCTCGATTCACAACATTTTGAATCACCAACGCCTC
1 TCATAATGAGAAGAACTTGTTCGACATATT-ATTGATTCACAACACTTTGAATCAGCAACGCCTC
* * * *
1062450 GCTTGAGGGATCAACCTTTCCAATAG-GAAGATCATGATGAAGAAGAACTC
65 GCTTGAGGGATTAACATTTCCAATAGAG-AGTTCATAATG-AGAAGAACTC
1062500 GTAGCTTGAC
Statistics
Matches: 216, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
134 1 0.00
135 119 0.55
136 85 0.39
137 11 0.05
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (135 bp):
TCATAATGAGAAGAACTTGTTCGACATATTATTGATTCACAACACTTTGAATCAGCAACGCCTCG
CTTGAGGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAA
GAAGT
Found at i:1066216 original size:31 final size:31
Alignment explanation
Indices: 1066140--1066214 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
1066130 CATTACTGGG
* *
1066140 TAGACACCTAAAAGTGTAACAGATAAAACGT
1 TAGACACCTAAAAGTGTAACAGAAAAAACAT
** * *
1066171 TAGGTACCTAAAAGTGTAACCGAAAAAAATAT
1 TAGACACCTAAAAGTGTAACAG-AAAAAACAT
1066203 TAGACACCTAAA
1 TAGACACCTAAA
1066215 GTTAACTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 19 0.54
32 16 0.46
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (31 bp):
TAGACACCTAAAAGTGTAACAGAAAAAACAT
Found at i:1070588 original size:18 final size:17
Alignment explanation
Indices: 1070565--1070607 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1070555 ATATATACAT
1070565 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1070583 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1070600 ATAA-AATA
1 ATAATAATA
1070608 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1071885 original size:100 final size:104
Alignment explanation
Indices: 1071759--1071998 Score: 353
Period size: 105 Copynumber: 2.3 Consensus size: 104
1071749 GCATTGTTCA
1071759 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGA-A-T-GAAATT-TTGTTGACAAGC
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGAGATTGGAAATTGTTGTTGACAAGC
*
1071820 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
* * ** *
1071859 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGAGATT-GGAAATTGTTGTTGACAAG
1071924 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
*
1071964 GAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTCCGTCGTGAAGTTGAAAT
1071999 CGCGGATGGC
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
100 37 0.30
101 1 0.01
102 1 0.01
104 5 0.04
105 54 0.44
106 3 0.02
108 22 0.18
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (104 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGAGATTGGAAATTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
Found at i:1072737 original size:67 final size:68
Alignment explanation
Indices: 1072576--1072759 Score: 214
Period size: 68 Copynumber: 2.7 Consensus size: 68
1072566 AATTCGTTTC
* * * *
1072576 AAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTA
1 AAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTA
*
1072640 TGTTTT
63 TATTTT
** * *
1072646 AAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATT-TAT
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATAT
1072710 TTT
66 TTT
* *
1072713 AGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAG
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAG
1072760 ATAGACGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
65 22 0.22
66 3 0.03
67 22 0.22
68 32 0.32
69 3 0.03
70 15 0.15
71 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (68 bp):
AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATAT
TTT
Found at i:1072772 original size:65 final size:67
Alignment explanation
Indices: 1072576--1073044 Score: 235
Period size: 65 Copynumber: 6.9 Consensus size: 67
1072566 AATTCGTTTC
* * * * * *
1072576 AAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTA
1 AAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-
*
1072640 TGTTTT
62 TATTTT
** * *
1072646 AAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTATT
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATT
1072711 TT
66 TT
* * * * *
1072713 AGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTT
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATT
*
1072776 TC
66 TT
* * ** * * * *
1072778 AAGAGAAACT--GTCTCAAGAGAGACAAAACTT-AGTTCCAAAAGAAACTGTCTCAAGGGAGACA
1 AAGGGAAA-TAAAT-TC-A-A-AG----ATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
* *
1072840 AAATTTGTTTC
57 AAATTTATTTT
* * * * * *
1072851 AAAGAAAACATATTCAAATA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATT
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATT
*
1072914 TC
66 TT
* * * * * *
1072916 AAGAGAAACT--GTCTCAAGAGAGACAAAATTT-TGTTTCAAGGGAAACTATCTCAAGAGAGACG
1 AAGGGAAA-TAAAT-TC-A-A-AG----ATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
*
1072978 AAATTTATTTC
57 AAATTTATTTT
*** * *
1072989 AAGGGAAATGTTTTCAATG--TTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1073045 TCTTGTTTTA
Statistics
Matches: 316, Mismatches: 57, Indels: 57
0.73 0.13 0.13
Matches are distributed among these distances:
64 5 0.02
65 118 0.37
66 7 0.02
67 24 0.08
68 35 0.11
69 3 0.01
70 17 0.05
71 4 0.01
72 5 0.02
73 96 0.30
74 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (67 bp):
AAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATT
TT
Found at i:1072786 original size:36 final size:36
Alignment explanation
Indices: 1072734--1072996 Score: 274
Period size: 36 Copynumber: 7.4 Consensus size: 36
1072724 ATTCAAAGAT
* * *
1072734 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1072770 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
1072806 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
1072843 TTTGTTTCAA-AGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
1072872 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
1072908 TTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
1072944 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
1072981 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
1072997 TGTTTTCAAT
Statistics
Matches: 191, Mismatches: 23, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.09
30 2 0.01
31 1 0.01
34 1 0.01
35 3 0.02
36 98 0.51
37 66 0.35
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:1072866 original size:138 final size:137
Alignment explanation
Indices: 1072683--1073052 Score: 499
Period size: 138 Copynumber: 2.7 Consensus size: 137
1072673 TTTCAAGAGT
* * *
1072683 AACTGTCTCAAGGGAGACAAAATTTATTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
*
1072748 AACTGTCTCAAGATAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
66 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
1072813 CCAAAAGA
130 CCAAAAGA
* * * * *
1072821 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
* * *
1072886 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT
66 AACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
* **
1072951 TCAAGGGA
130 CCAAAAGA
* * * * * * *
1072959 AACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAG
1 AACTGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGG
1073023 AAACTGTCTCAAGAGAGACAAATCTTGTTT
65 AAACTGTCTCAAGAGAGACAAAT-TTGTTT
1073053 TAATAAAAAC
Statistics
Matches: 201, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
137 7 0.03
138 194 0.97
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (137 bp):
AACTGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTC
CAAAAGA
Found at i:1072893 original size:102 final size:102
Alignment explanation
Indices: 1072770--1072954 Score: 309
Period size: 102 Copynumber: 1.8 Consensus size: 102
1072760 ATAGACGAAA
*
1072770 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
1072835 AGACAAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * *
1072872 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
1072937 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
1072955 GGGAAACTAT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 29 0.38
102 48 0.62
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:1073986 original size:22 final size:22
Alignment explanation
Indices: 1073961--1074004 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1073951 CATTTTTGTT
1073961 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
1073983 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
1074005 TGGGATAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:1074632 original size:11 final size:10
Alignment explanation
Indices: 1074609--1074659 Score: 61
Period size: 9 Copynumber: 5.2 Consensus size: 10
1074599 TCCCTTTTTC
1074609 TTTTTTC-TT
1 TTTTTTCTTT
*
1074618 TTTGTTC-TT
1 TTTTTTCTTT
*
1074627 TTTTTGCTTT
1 TTTTTTCTTT
1074637 TTTTTTGCTTT
1 TTTTTT-CTTT
1074648 TTTTTTCTTT
1 TTTTTTCTTT
1074658 TT
1 TT
1074660 GCCCTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 13 0.36
10 13 0.36
11 10 0.28
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1074651 original size:9 final size:8
Alignment explanation
Indices: 1074603--1074640 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
1074593 TTTTTGTCCC
1074603 TTTTTC-T
1 TTTTTCTT
1074610 TTTTTCTT
1 TTTTTCTT
1074618 TTTGTTCTT
1 TTT-TTCTT
1074627 TTTTTGCTT
1 TTTTT-CTT
1074636 TTTTT
1 TTTTT
1074641 TTGCTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 6 0.21
9 16 0.57
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1075859 original size:8 final size:8
Alignment explanation
Indices: 1075843--1075881 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
1075833 ATTGTAGATG
1075843 AAAATGCA
1 AAAATGCA
*
1075851 AAAAGGCA
1 AAAATGCA
1075859 AAAATGC-
1 AAAATGCA
1075866 AAAATGCA
1 AAAATGCA
*
1075874 AGAATGCA
1 AAAATGCA
1075882 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:1075869 original size:15 final size:15
Alignment explanation
Indices: 1075843--1075881 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1075833 ATTGTAGATG
1075843 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
1075859 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
1075874 AGAATGCA
1 AAAATGCA
1075882 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:1079010 original size:18 final size:17
Alignment explanation
Indices: 1078987--1079029 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1078977 ATATATACAT
1078987 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1079005 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1079022 ATAA-AATA
1 ATAATAATA
1079030 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1083995 original size:61 final size:61
Alignment explanation
Indices: 1083900--1084018 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
1083890 TGGATCATAC
* *
1083900 TTGTTACTTAACAAAATGCTAATGGAATGGCCAATAGTAACTCGATCTTGATGCTTACTAA
1 TTGTTACTTAACAAAATGCTAATGGAATGACCAATAGTAACTCGATCTTGATCCTTACTAA
1083961 TTGTTACTTAACAAAATGCTAATGGAATGACCAATAGTAACTCGATCTTGATCCTTAC
1 TTGTTACTTAACAAAATGCTAATGGAATGACCAATAGTAACTCGATCTTGATCCTTAC
1084019 CAATGGATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (61 bp):
TTGTTACTTAACAAAATGCTAATGGAATGACCAATAGTAACTCGATCTTGATCCTTACTAA
Found at i:1086252 original size:3 final size:3
Alignment explanation
Indices: 1086244--1086317 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
1086234 TTAAATAAGA
* * * *
1086244 AAT AAT AAT AAT AAAT AA- AAT AAT TAC ACT AAT AAT AAAT GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
1086290 AAT AAAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
1086318 GTATAATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.07
3 45 0.78
4 9 0.16
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1086259 original size:13 final size:13
Alignment explanation
Indices: 1086237--1086337 Score: 93
Period size: 13 Copynumber: 7.8 Consensus size: 13
1086227 AAAATAATTA
*
1086237 AATAAGAAATAAT
1 AATAATAAATAAT
1086250 AATAATAAATAA-
1 AATAATAAATAAT
* * *
1086262 AATAAT-TACACT
1 AATAATAAATAAT
*
1086274 AATAATAAATGAT
1 AATAATAAATAAT
1086287 AATAATAAATAAT
1 AATAATAAATAAT
1086300 AATAAT-AATAAT
1 AATAATAAATAAT
*
1086312 -ATAATAGTATAAT
1 AATAATA-AATAAT
1086325 ATATATATAAATA
1 A-ATA-ATAAATA
1086338 TTTTTTTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.10
12 18 0.26
13 36 0.51
15 6 0.09
16 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:1086294 original size:16 final size:17
Alignment explanation
Indices: 1086245--1086334 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 17
1086235 TAAATAAGAA
* *
1086245 ATAATAATAATAAATAAA
1 ATAATGATAAT-AATAAT
* * *
1086263 ATAATTACACTAATAAT
1 ATAATGATAATAATAAT
1086280 A-AATGATAATAATAA-
1 ATAATGATAATAATAAT
*
1086295 ATAATAATAATAATAAT
1 ATAATGATAATAATAAT
1086312 ATAATAGTATAAT-ATATAT
1 ATAAT-G-ATAATAATA-AT
1086331 ATAA
1 ATAA
1086335 ATATTTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 24 0.41
17 11 0.19
18 11 0.19
19 11 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATGATAATAATAAT
Found at i:1086316 original size:37 final size:36
Alignment explanation
Indices: 1086229--1086337 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
1086219 ACAAAAACAA
*
1086229 AATAATTAA-ATAAGAAATAATAATAATAAATAAAAT
1 AATAA-TAATATAATAAATAATAATAATAAATAAAAT
* * * *
1086265 AATTACACTAATAATAAATGATAATAATAAATAATAAT
1 AATAATAAT-ATAATAAATAATAATAATAAATAA-AAT
*
1086303 AATAATAATATAATAGTATAATATATATATAAATA
1 AATAATAATATAATA-AATAATA-ATA-ATAAATA
1086338 TTTTTTTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 28 0.49
38 14 0.25
39 3 0.05
40 7 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (36 bp):
AATAATAATATAATAAATAATAATAATAAATAAAAT
Found at i:1086409 original size:37 final size:36
Alignment explanation
Indices: 1086319--1086480 Score: 100
Period size: 37 Copynumber: 4.3 Consensus size: 36
1086309 AATATAATAG
1086319 TATAATATATATA-T--AAATATTTTTTTAAAAACA
1 TATAATATATATATTAAAAATATTTTTTTAAAAACA
* * **
1086352 TATAATATATA-ATTTCAAAAATGTTTTTTTTAAATTA
1 TATAATATATATA-TT-AAAAATATTTTTTTAAAAACA
* ** *
1086389 TATAATATATATATTAAAAA-AATGCTTTAAAAAAA
1 TATAATATATATATTAAAAATATTTTTTTAAAAACA
*
1086424 TTATATATTATATATTTTTAAAATATATATATTTTTTTAAAAACTA
1 -TATA-A-TATATA-TATT--AA-A-A-ATATTTTTTTAAAAAC-A
1086470 TATAATATATA
1 TATAATATATA
1086481 AATGTTTTCA
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
32 1 0.01
33 11 0.11
34 1 0.01
35 8 0.08
36 9 0.09
37 29 0.30
38 7 0.07
39 3 0.03
41 2 0.02
42 1 0.01
43 7 0.07
44 2 0.02
45 14 0.15
46 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (36 bp):
TATAATATATATATTAAAAATATTTTTTTAAAAACA
Found at i:1086410 original size:38 final size:38
Alignment explanation
Indices: 1086310--1086480 Score: 119
Period size: 38 Copynumber: 4.3 Consensus size: 38
1086300 AATAATAATA
* * **
1086310 ATATAATAGTATAATATATATATAAATATTTTTTTAAAAAC
1 ATATAATA-TAT-ATAT-TAAAAAAATATTTTTTTAAAATT
** * *
1086351 ATATAATATATA-ATTTCAAAAATGTTTTTTTTAAATT
1 ATATAATATATATATTAAAAAAATATTTTTTTAAAATT
** ***
1086388 ATATAATATATATATTAAAAAAATGCTTTAAAAAAATT
1 ATATAATATATATATTAAAAAAATATTTTTTTAAAATT
* * *
1086426 ATATATTATATATTTTTAAAATATATATATTTTTTTAAAAACT
1 ATATAATATATA-TATTAAAA-A-A-ATATTTTTTT-AAAATT
1086469 ATATAATATATA
1 ATATAATATATA
1086481 AATGTTTTCA
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
37 28 0.28
38 31 0.31
39 8 0.08
40 4 0.04
41 9 0.09
42 5 0.05
43 16 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (38 bp):
ATATAATATATATATTAAAAAAATATTTTTTTAAAATT
Found at i:1086460 original size:19 final size:20
Alignment explanation
Indices: 1086426--1086479 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
1086416 TAAAAAAATT
1086426 ATATATTATATATTTTTAAA
1 ATATATTATATATTTTTAAA
*
1086446 ATATA-TATATTTTTTTAAAA
1 ATATATTATATATTTTT-AAA
*
1086466 ACTATATAATATAT
1 A-TATATTATATAT
1086480 AAATGTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 9 0.32
21 4 0.14
22 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATTATATATTTTTAAA
Found at i:1086496 original size:11 final size:11
Alignment explanation
Indices: 1086480--1086504 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1086470 TATAATATAT
1086480 AAATGTTTTCA
1 AAATGTTTTCA
1086491 AAATGTTTTCA
1 AAATGTTTTCA
1086502 AAA
1 AAA
1086505 CTATATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1086511 original size:38 final size:38
Alignment explanation
Indices: 1086458--1086592 Score: 156
Period size: 38 Copynumber: 3.6 Consensus size: 38
1086448 ATATATATTT
*
1086458 TTTTAAAAACTATATAATATATAAATGTTTTC-AAAATG-
1 TTTTCAAAACTATAT-ATATATAAA-GTTTTCAAAAATGC
*
1086496 TTTTCAAAACTATATATCATATAAA-TTTTCAAAAATGT
1 TTTTCAAAACTATATAT-ATATAAAGTTTTCAAAAATGC
*
1086534 TTTTCAAAACTATATAT-TATATACGTTTTCAAAAATGC
1 TTTTCAAAACTATATATATATA-AAGTTTTCAAAAATGC
1086572 TTTT-AAATA-TATATATATATA
1 TTTTCAAA-ACTATATATATATA
1086593 TATATATATA
Statistics
Matches: 87, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
36 9 0.10
37 19 0.22
38 59 0.68
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTTCAAAACTATATATATATAAAGTTTTCAAAAATGC
Found at i:1086585 original size:2 final size:2
Alignment explanation
Indices: 1086578--1086606 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1086568 ATGCTTTTAA
1086578 AT 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 AT A
1086607 CATTTCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1086618 original size:49 final size:49
Alignment explanation
Indices: 1086544--1086646 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
1086534 TTTTCAAAAC
* *
1086544 TATATATTATATACGTTTTCAAAAATGCTTTT-AAATA-TATATATATATA
1 TATATATTATATACGATTTCAAAAATG-TTTTCAAAGACTATATAT-TATA
*
1086593 TATATATATATATAC-ATTTCCAAAATGTTTTCAAAGACTATATATTATA
1 TATATAT-TATATACGATTTCAAAAATGTTTTCAAAGACTATATATTATA
1086642 TATAT
1 TATAT
1086647 TTTTAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 4 0.08
49 30 0.62
50 14 0.29
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.46
Consensus pattern (49 bp):
TATATATTATATACGATTTCAAAAATGTTTTCAAAGACTATATATTATA
Found at i:1086682 original size:87 final size:87
Alignment explanation
Indices: 1086506--1086744 Score: 229
Period size: 87 Copynumber: 2.7 Consensus size: 87
1086496 TTTTCAAAAC
* * * * * *
1086506 TATATATCATATAAATTTTCAAAAATGTTTTTCAAAACTATATATTATATACGTTTTCAAAAATG
1 TATATATAATATACA-TTTCCAAAATGCTTTTCAAAACTATATATTATATATGTTTT-TAAAATG
* * *
1086571 CTTTTAAATATATATATATATATA
64 CTTTTAAAAAAACATATATATATA
*
1086595 TATATAT-ATATACATTTCCAAAATG-TTTTCAAAGACTATATATTATATATATTTTTAAAATG-
1 TATATATAATATACATTTCCAAAATGCTTTTCAAA-ACTATATATTATATATGTTTTTAAAATGC
1086657 TTTTCGAAAAAAAACATATAT-TATA
65 TTTT---AAAAAAACATATATATATA
* * *
1086682 TATCATATAATATAC-TTTTCAAAAAGCTATTCTCAAAATTATATA-TATATATGTATTTTAAAA
1 TAT-ATATAATATACATTTCCAAAATGCT-TT-TCAAAACTATATATTATATATGT-TTTTAAAA
1086745 CATTTGTAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
85 4 0.03
86 14 0.11
87 36 0.28
88 30 0.23
89 22 0.17
90 17 0.13
91 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (87 bp):
TATATATAATATACATTTCCAAAATGCTTTTCAAAACTATATATTATATATGTTTTTAAAATGCT
TTTAAAAAAACATATATATATA
Found at i:1087531 original size:84 final size:83
Alignment explanation
Indices: 1087414--1088396 Score: 1081
Period size: 84 Copynumber: 11.9 Consensus size: 83
1087404 TCTTTAGCAA
* * *
1087414 ATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1087479 GAAGGTCTTTTGGTCACAG
66 GAAGGTCTTTTGGT-ACAG
* * *
1087498 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCATT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * *
1087562 CAAAGGTCTTTTGTTGGCAG
65 CGAAGGTCTTTTGGT-ACAG
* *
1087582 ACAACCCTTCTAGACTTAAGTTGTAT-C-GCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 ATAACCCTTCTAGACTTAAG-T-TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
1087645 TCGAAGGTCTTTGGGTTGGCAG
64 TCGAAGGTCTTTTGG-T-ACAG
* * * * *
1087667 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
**
1087732 CGGGGGTC-TTTGG--CAG
65 CGAAGGTCTTTTGGTACAG
* * *
1087748 ATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1087813 GAAGGTCTTTTGGTCACAG
66 GAAGGTCTTTTGGT-ACAG
* * * *
1087832 ATAACCCTTCTAGCCTTGATTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * *
1087896 CAAAGGTCTTTTGTTGGCAG
65 CGAAGGTCTTTTGGT-ACAG
* * ** *
1087916 ACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1087981 GAAGGTC-TTTGG--CAG
66 GAAGGTCTTTTGGTACAG
* *
1087996 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1088061 GAAGGTCTTTTGGTCACAG
66 GAAGGTCTTTTGGT-ACAG
* * * * * * * *
1088080 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
*
1088145 -TAAGGGTC-TTTGG--CAG
65 CGAA-GGTCTTTTGGTACAG
* * * *
1088161 ATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-CTTAGGAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACT
* *
1088225 CAAAGGTC-TTTGCTAGCAG
65 CGAAGGTCTTTTGGTA-CAG
* * * * * * *
1088244 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGA--GTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
* *
1088307 TGAGGGTC-TTTGG--CAG
65 CGAAGGTCTTTTGGTACAG
* * * *
1088323 ATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1088388 GAAGGTCTT
66 GAAGGTCTT
1088397 GGTGGCAGGT
Statistics
Matches: 750, Mismatches: 119, Indels: 63
0.80 0.13 0.07
Matches are distributed among these distances:
78 11 0.01
79 36 0.05
80 137 0.18
81 85 0.11
82 19 0.03
83 44 0.06
84 314 0.42
85 74 0.10
86 30 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTTGGTACAG
Found at i:1087774 original size:334 final size:327
Alignment explanation
Indices: 1087388--1088437 Score: 1366
Period size: 334 Copynumber: 3.2 Consensus size: 327
1087378 AAGTTGAATA
* * *
1087388 TAATCGAACTCAAAGGTCTTTAGCAAATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
*
1087453 CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
1087518 TTATGCTGTAAATGATGTGCCATTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
131 TTATGCTGTAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
1087583 CAACCCTTCTAGACTTAAGTTGTATCGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
195 CAACCCTTCTAGACTTAAGTTGTATCGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
* * *
1087648 AAGGTCTTTGGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
260 AAGGTC--T---TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGG
*
1087713 AGCTGAGTG
319 AGCTGAGCG
** *
1087722 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
*
1087787 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAT
66 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
1087852 TTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
131 TTATGCTGTAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
*
1087917 CAACCCTTCTAGACTTAAGTTGTATTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
195 CAACCCTTCTAGACTTAAGTTGTATCGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
1087982 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGA
260 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGA
1088047 GCG
325 GCG
* * * * * * *
1088050 TAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
1 TAATCGAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGA
* * * * * * * *
1088115 TATGCCCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTC-TTTGG---CAGATAGCCCTTCTCGA
62 TGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTTGGTCACAGATAACCCTTCTAGC
* * * * *
1088175 CTTAAGCTATTCTGCAAATGATGTG-CTTAGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGC
125 CTTGAGTTATGCTGTAAATGATGTGCCTT--GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGT
* * * * * * *
1088238 TAGCAGATAACCCTTCTAGCCTTGAG-T-TATGCTGTAAATGTTATGCCCTTGAAGCTGA--GTA
188 TGGCAGACAACCCTTCTAGACTTAAGTTGTAT-C-GCAAATGATATG-CCTTGGAGCTGAGCGTA
* * * * *
1088299 ATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC
250 GTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1088364 TTGGAGCTGAGCG
315 TTGGAGCTGAGCG
* * * * * * *
1088377 TAGTCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TAATCGAACTCGAAGGTCTT--TGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAAT
1088438 AGTTTGTTTA
Statistics
Matches: 646, Mismatches: 57, Indels: 35
0.88 0.08 0.05
Matches are distributed among these distances:
325 30 0.05
326 5 0.01
327 97 0.15
328 67 0.10
329 123 0.19
332 42 0.07
333 26 0.04
334 256 0.40
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (327 bp):
TAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
TTATGCTGTAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAC
AACCCTTCTAGACTTAAGTTGTATCGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGA
AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
CG
Found at i:1088049 original size:248 final size:248
Alignment explanation
Indices: 1087391--1088437 Score: 1155
Period size: 248 Copynumber: 4.2 Consensus size: 248
1087381 TTGAATATAA
* * *
1087391 TCGAACTCAAAGGTC---T-TTAGCAAATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * *
1087452 GCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG---CAGATAACCCTTCTAGACTTAA
* * * * **
1087517 GTTATGCTGTAAATGATGTGCCATT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
127 GCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
*
1087581 GACAACCCTTCTAGACTTAAGTTGTAT-C-GCAAATGATATGCCTTGGAGCTGAGCGTAG
191 GATAACCCTTCTAGACTTAAG-T-TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * *
1087639 TCGAACTCGAAGGTCTTTGGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
1 TCGAACTCAAAGGTCTTT-TGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * ** * *
1087704 TGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGC
65 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGC
1087769 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
129 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGAT
* * * * *
1087834 AACCCTTCTAGCCTTGATTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAG
194 AACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAG
* * * * ** *
1087889 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTATTGCAAATGATAT
1 TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
1087954 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTA
1088019 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
131 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
* * * * * * *
1088084 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
196 CCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
* * * *
1088138 TCGAACTTAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * *
1088199 G-CTTAGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAACCCTTCTAGCCTTGA
66 GCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG---GCAGATAACCCTTCTAGACTTAA
* * * * * * * *
1088263 GTTATGCTGTAAATGTTATGCCCTTGAAGCTGA--GTAATCGAACTTGAGGGTC-TTTGG---CA
127 GCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACA
* * * * *
1088322 GATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
191 GATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * * * * * *
1088380 TCGAACTCGAAGGTC--TTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
1088438 AGTTTGTTTA
Statistics
Matches: 685, Mismatches: 95, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
242 27 0.04
243 34 0.05
244 36 0.05
245 70 0.10
246 6 0.01
247 16 0.02
248 208 0.30
249 81 0.12
250 132 0.19
251 2 0.00
253 47 0.07
254 26 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (248 bp):
TCGAACTCAAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTA
TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
CCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
Found at i:1091833 original size:18 final size:19
Alignment explanation
Indices: 1091792--1091836 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1091782 AGTTAATGTG
1091792 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
1091811 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
1091829 AATGCAAA
1 AATGCAAA
1091837 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:1095067 original size:3 final size:3
Alignment explanation
Indices: 1095059--1095132 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
1095049 TTAAATAAGA
* * * *
1095059 AAT AAT AAT AAT AAAT AA- AAT AAT TAC ACT AAT AAT AAAT GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
1095105 AAT AAAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
1095133 GTATAATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.07
3 45 0.78
4 9 0.16
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1095074 original size:13 final size:13
Alignment explanation
Indices: 1095052--1095152 Score: 93
Period size: 13 Copynumber: 7.8 Consensus size: 13
1095042 AAAATAATTA
*
1095052 AATAAGAAATAAT
1 AATAATAAATAAT
1095065 AATAATAAATAA-
1 AATAATAAATAAT
* * *
1095077 AATAAT-TACACT
1 AATAATAAATAAT
*
1095089 AATAATAAATGAT
1 AATAATAAATAAT
1095102 AATAATAAATAAT
1 AATAATAAATAAT
1095115 AATAAT-AATAAT
1 AATAATAAATAAT
*
1095127 -ATAATAGTATAAT
1 AATAATA-AATAAT
1095140 ATATATATAAATA
1 A-ATA-ATAAATA
1095153 TTTTTTAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.10
12 18 0.26
13 36 0.51
15 6 0.09
16 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:1095109 original size:16 final size:17
Alignment explanation
Indices: 1095060--1095149 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 17
1095050 TAAATAAGAA
* *
1095060 ATAATAATAATAAATAAA
1 ATAATGATAAT-AATAAT
* * *
1095078 ATAATTACACTAATAAT
1 ATAATGATAATAATAAT
1095095 A-AATGATAATAATAA-
1 ATAATGATAATAATAAT
*
1095110 ATAATAATAATAATAAT
1 ATAATGATAATAATAAT
1095127 ATAATAGTATAAT-ATATAT
1 ATAAT-G-ATAATAATA-AT
1095146 ATAA
1 ATAA
1095150 ATATTTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 24 0.41
17 11 0.19
18 11 0.19
19 11 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATGATAATAATAAT
Found at i:1095131 original size:37 final size:36
Alignment explanation
Indices: 1095044--1095152 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
1095034 ACAAAAACAA
*
1095044 AATAATTAA-ATAAGAAATAATAATAATAAATAAAAT
1 AATAA-TAATATAATAAATAATAATAATAAATAAAAT
* * * *
1095080 AATTACACTAATAATAAATGATAATAATAAATAATAAT
1 AATAATAAT-ATAATAAATAATAATAATAAATAA-AAT
*
1095118 AATAATAATATAATAGTATAATATATATATAAATA
1 AATAATAATATAATA-AATAATA-ATA-ATAAATA
1095153 TTTTTTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 28 0.49
38 14 0.25
39 3 0.05
40 7 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (36 bp):
AATAATAATATAATAAATAATAATAATAAATAAAAT
Found at i:1095267 original size:20 final size:21
Alignment explanation
Indices: 1095242--1095295 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 21
1095232 TAAAAAAATT
1095242 ATATATTATATATTTTT-AAA
1 ATATATTATATATTTTTAAAA
1095262 ATATA-TATATATTTTTAAAA
1 ATATATTATATATTTTTAAAA
*
1095282 ACTATATAATATAT
1 A-TATATTATATAT
1095296 AAATGTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.37
20 9 0.30
21 4 0.13
22 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATTATATATTTTTAAAA
Found at i:1095312 original size:11 final size:11
Alignment explanation
Indices: 1095296--1095320 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1095286 TATAATATAT
1095296 AAATGTTTTCA
1 AAATGTTTTCA
1095307 AAATGTTTTCA
1 AAATGTTTTCA
1095318 AAA
1 AAA
1095321 CTCTATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1095334 original size:38 final size:36
Alignment explanation
Indices: 1095274--1095475 Score: 153
Period size: 38 Copynumber: 5.2 Consensus size: 36
1095264 ATATATATAT
*
1095274 TTTTAAAAACTATATAATATATAAATGTTTTCAAAATG
1 TTTTCAAAACTATAT-ATATATAAAT-TTTTCAAAATG
*
1095312 TTTTCAAAACTCTATATCATATAAA-TTTTCAAAAATG
1 TTTTCAAAACTATATAT-ATATAAATTTTTC-AAAATG
**
1095349 TTTTTCAAAACTATATAT-TATATACGTTTTCAAAAATG
1 -TTTTCAAAACTATATATATATA-AATTTTTC-AAAATG
*
1095387 CTTTT-AAATA-TATATATATATATATTATACATTTCCAAAATG
1 -TTTTCAAA-ACTATATATATATA-A--AT---TTTTCAAAATG
*
1095429 TTTTCAAAGACTATATATTATATATATTTTT-AAAATG
1 TTTTCAAA-ACTATATA-TATATAAATTTTTCAAAATG
1095466 TTTTCGAAAA
1 TTTTC-AAAA
1095476 AAAACATATA
Statistics
Matches: 137, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
36 9 0.07
37 31 0.23
38 65 0.47
41 6 0.04
42 10 0.07
43 10 0.07
44 6 0.04
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (36 bp):
TTTTCAAAACTATATATATATAAATTTTTCAAAATG
Found at i:1095407 original size:43 final size:45
Alignment explanation
Indices: 1095360--1095453 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 45
1095350 TTTTCAAAAC
* *
1095360 TATATATTA-TATACGTTTTCAAAAATGCTTTT-AAATA-TATATA-
1 TATATATTATTATAC-ATTTCAAAAATG-TTTTCAAAGACTATATAT
*
1095403 TATATA-TATTATACATTTCCAAAATGTTTTCAAAGACTATATAT
1 TATATATTATTATACATTTCAAAAATGTTTTCAAAGACTATATAT
1095447 TATATAT
1 TATATAT
1095454 ATTTTTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
41 4 0.09
42 16 0.37
43 17 0.40
44 6 0.14
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (45 bp):
TATATATTATTATACATTTCAAAAATGTTTTCAAAGACTATATAT
Found at i:1095464 original size:37 final size:37
Alignment explanation
Indices: 1095401--1095475 Score: 64
Period size: 37 Copynumber: 2.0 Consensus size: 37
1095391 TAAATATATA
* *
1095401 TATATATATATTATACA-TTTCCAAAATGTTTTCAAAGAC
1 TATATAT-TA-TATAAATTTTCAAAAATGTTTTCAAA-AC
* *
1095440 TATATATTATATATATTTT-TAAAATGTTTTCGAAAA
1 TATATATTATATAAATTTTCAAAAATGTTTTC-AAAA
1095476 AAAACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
37 17 0.53
38 8 0.25
39 7 0.22
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATATTATATAAATTTTCAAAAATGTTTTCAAAAC
Found at i:1095491 original size:80 final size:80
Alignment explanation
Indices: 1095338--1095493 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
1095328 TCATATAAAT
* * * *
1095338 TTTCAAAAATGTTTTTCAAAACTATATATTATATACGTTTTCAAAAATGCTTTTAAATATATATA
1 TTTCAAAAATGTTTTTCAAAACTATATATTATATACATTTTCAAAAATGCTTTTAAAAAAACATA
1095403 TATATATATTATACA
66 TATATATATTATACA
* * *
1095418 TTTCCAAAATG-TTTTCAAAGACTATATATTATATATATTTT-TAAAATG-TTTTCGAAAAAAAA
1 TTTCAAAAATGTTTTTCAAA-ACTATATATTATATACATTTTCAAAAATGCTTTT---AAAAAAA
1095480 CATATATTATATAT
62 CATATA-TATATAT
1095494 CATATAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.06
79 14 0.22
80 29 0.45
81 10 0.16
82 7 0.11
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (80 bp):
TTTCAAAAATGTTTTTCAAAACTATATATTATATACATTTTCAAAAATGCTTTTAAAAAAACATA
TATATATATTATACA
Found at i:1099115 original size:7 final size:7
Alignment explanation
Indices: 1099093--1099140 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
1099083 AGGAACATAC
1099093 AATATAT
1 AATATAT
*
1099100 TATAT-T
1 AATATAT
1099106 AATATAT
1 AATATAT
1099113 AATATAT
1 AATATAT
1099120 AATATAT
1 AATATAT
1099127 AATATAT
1 AATATAT
1099134 AATATAT
1 AATATAT
1099141 CATTTCATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATATAT
Found at i:1100386 original size:19 final size:21
Alignment explanation
Indices: 1100362--1100412 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
1100352 TGCAAAAATG
*
1100362 GTATCGATACCGTA-ATAG-A
1 GTATCGATACCATAGATAGTA
1100381 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
1100403 GTATCGATAC
1 GTATCGATAC
1100413 TATTGAGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
21 4 0.14
22 11 0.39
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:1100891 original size:57 final size:57
Alignment explanation
Indices: 1100752--1101157 Score: 647
Period size: 57 Copynumber: 7.2 Consensus size: 57
1100742 TACATATAAA
** *
1100752 CTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGGCACTATGTGTG-AAAAA-
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
1100807 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
* * *
1100864 TTAAGAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGTGTGTAAAAAG
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
* *
1100921 CTAAGAAATTCATAATAAGTTTTTGAATTTCCGTATGGGTACTTTGTGTGCAAAAAG
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
* *
1100978 CTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAAAATG
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
* *
1101035 TTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
* * * *
1101092 TTAAGAAATCCATAATTAGTTTATGAATTTCCGTATGGGCACTTTATGTGCAAAAA-
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
1101148 CTAAGAAATT
1 CTAAGAAATT
1101158 ATATGAATTT
Statistics
Matches: 326, Mismatches: 23, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
55 47 0.14
56 13 0.04
57 266 0.82
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (57 bp):
CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAG
Found at i:1102438 original size:16 final size:16
Alignment explanation
Indices: 1102425--1102454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1102415 AAACTAAACA
1102425 ATAAAAGGATTAAATC
1 ATAAAAGGATTAAATC
1102441 ATAAAAGGA-TAAAT
1 ATAAAAGGATTAAAT
1102455 AATGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.23
Consensus pattern (16 bp):
ATAAAAGGATTAAATC
Found at i:1104648 original size:139 final size:138
Alignment explanation
Indices: 1104445--1104799 Score: 390
Period size: 139 Copynumber: 2.6 Consensus size: 138
1104435 GACGCTACTT
* * * * * *
1104445 CTACGTGATGAGAAGATATGGTCGATGGA-CATCATTGTTCATACATGATGAGGAAATCTAGCCA
1 CTACGTGATGAGGAGATCTGGTCG-TGGATGA-CATTGTTCCTACGTGATGAGGAAGTCTAGCCA
** ** * *
1104509 TCTTTAGGGATAAATTGGGGAAAACACAGTTCT-TATGTGACGAGGAAGTTTGGTTATCTAAGGA
64 TCTTTAGGGATAAATTGAAGAAAACACAGTT-TATACATGACGAGGAAGTCTGGTTATCTAAGAA
* *
1104573 TGACATTGCTC
128 TAACACTGCTC
*
1104584 CTACGTGATGAGGAGATCTGGTCAGTGGATGACATTGTTCCTACGTGATGAGGACGTCTAGCCAT
1 CTACGTGATGAGGAGATCTGGTC-GTGGATGACATTGTTCCTACGTGATGAGGAAGTCTAGCCAT
* * * * *
1104649 ATTTAGGGATAAATTGAAGATAACACGGTTTATACATGATGATGAAGTCTGGTTATCTAAGAATA
65 CTTTAGGGATAAATTGAAGAAAACACAGTTTATACATGACGAGGAAGTCTGGTTATCTAAGAATA
*
1104714 ACGCTGCTC
130 ACACTGCTC
* * * * * * * *
1104723 TTACGTGATAAGGAGATCTGGTCGGTAGATGACATTGTTCCTATGTCATGAAGATGTCTAGCAAT
1 CTACGTGATGAGGAGATCTGGTC-GTGGATGACATTGTTCCTACGTGATGAGGAAGTCTAGCCAT
1104788 CTTTAGGGATAA
65 CTTTAGGGATAA
1104800 TTTGTTTCAA
Statistics
Matches: 182, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
138 1 0.01
139 179 0.98
140 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (138 bp):
CTACGTGATGAGGAGATCTGGTCGTGGATGACATTGTTCCTACGTGATGAGGAAGTCTAGCCATC
TTTAGGGATAAATTGAAGAAAACACAGTTTATACATGACGAGGAAGTCTGGTTATCTAAGAATAA
CACTGCTC
Found at i:1104969 original size:66 final size:66
Alignment explanation
Indices: 1104806--1104984 Score: 191
Period size: 66 Copynumber: 2.7 Consensus size: 66
1104796 ATAATTTGTT
* * * * * *
1104806 TCAAGAGAAAATATCTCAA-ACGAGACAAGATTTGTTTCAAGGGAAATAATCTCAAAGGTGTATG
1 TCAAGAGAAACTGTCTCAAGA-GAGACAAAATTTGTTTCAAGGGAAACAAACTCAAAGGTGCATG
1104870 TC
65 TC
* *
1104872 TCAAGAGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAACAAACTCAAAGGTGCCTGT
1 TCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAACTCAAAGGTGCATGT
1104937 C
66 C
* * *** * *
1104938 TTAAG-GAAGACTGTCTCAAGTGAGGTGAAATTTGTTTTAAGAGAAAC
1 TCAAGAGAA-ACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1104985 TGTCTCAAGC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
65 3 0.03
66 91 0.96
67 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (66 bp):
TCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAAACTCAAAGGTGCATGT
C
Found at i:1105049 original size:37 final size:36
Alignment explanation
Indices: 1104972--1105056 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 36
1104962 GTGAAATTTG
*
1104972 TTTTAAGAGAAACTGTCTCAAGCGAGACAACATTAGT
1 TTTTAAGA-AAACTGTCTCAAGCGAGACAAAATTAGT
*
1105009 TTTTAAGAAAACTGTCTCAAGCGAGACAAAATTTATT
1 TTTTAAGAAAACTGTCTCAAGCGAGACAAAA-TTAGT
1105046 TTTTAAGAAAA
1 TTTTAAGAAAA
1105057 AAATCTCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 22 0.49
37 23 0.51
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (36 bp):
TTTTAAGAAAACTGTCTCAAGCGAGACAAAATTAGT
Found at i:1105064 original size:37 final size:36
Alignment explanation
Indices: 1104987--1105071 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
1104977 AGAGAAACTG
* ***
1104987 TCTCAAGCGAGACAACATTAGTTTTTAAGAAAACTG
1 TCTCAAGCGAGACAAAATTAGTTTTTAAGAAAAAAA
*
1105023 TCTCAAGCGAGACAAAATTTATTTTTTAAGAAAAAAA
1 TCTCAAGCGAGACAAAA-TTAGTTTTTAAGAAAAAAA
*
1105060 TCTCAAGTGAGA
1 TCTCAAGCGAGA
1105072 TCAATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 16 0.38
37 26 0.62
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTAGTTTTTAAGAAAAAAA
Found at i:1117908 original size:2 final size:2
Alignment explanation
Indices: 1117896--1117955 Score: 104
Period size: 2 Copynumber: 30.0 Consensus size: 2
1117886 TGTGAAAAAG
1117896 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
1117938 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1117956 GTTTATGTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 53 0.95
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1118238 original size:37 final size:37
Alignment explanation
Indices: 1118186--1118289 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1118176 ATTTTCGTCT
*
1118186 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * *
1118223 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
* * * *
1118260 TACTAAGATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
1118290 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTC
Found at i:1119709 original size:27 final size:27
Alignment explanation
Indices: 1119677--1119736 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
1119667 TGTAATTACA
1119677 ACCAAAGTATCATCATTTTAATACAAC
1 ACCAAAGTATCATCATTTTAATACAAC
1119704 ACCAAAGTATCATCATTTTAATACAAC
1 ACCAAAGTATCATCATTTTAATACAAC
*
1119731 CCCAAA
1 ACCAAA
1119737 TAAGACAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.27
Consensus pattern (27 bp):
ACCAAAGTATCATCATTTTAATACAAC
Found at i:1123287 original size:13 final size:14
Alignment explanation
Indices: 1123264--1123292 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1123254 TGCCATGTAG
1123264 AATGCAAAAATGCA
1 AATGCAAAAATGCA
1123278 AATG-AAAAATGCA
1 AATGCAAAAATGCA
1123291 AA
1 AA
1123293 AATTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (14 bp):
AATGCAAAAATGCA
Found at i:1127346 original size:3 final size:3
Alignment explanation
Indices: 1127265--1127334 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
1127255 AGTATATTTT
1127265 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1127313 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
1127335 CGACGATAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1127397 original size:16 final size:16
Alignment explanation
Indices: 1127376--1127406 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1127366 GTCTACAATA
1127376 ATTTTTTTAAATTATT
1 ATTTTTTTAAATTATT
*
1127392 ATTTTTTTGAATTAT
1 ATTTTTTTAAATTAT
1127407 AAGTTTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTTTTAAATTATT
Found at i:1127698 original size:31 final size:31
Alignment explanation
Indices: 1127663--1127762 Score: 73
Period size: 31 Copynumber: 3.3 Consensus size: 31
1127653 TGTATCAAAT
*
1127663 GTCCTCAAATTATTATTTTCATTTTAAATTA
1 GTCCTCAAATTATTATTATCATTTTAAATTA
* * *
1127694 GTCCTTAAACTT-TTA-AAT-ATTTTAATTTCA
1 GTCCTCAAA-TTATTATTATCATTTTAAATT-A
* * * * *
1127724 -TCCTTAAACTATGATTGTCATTCTAAATTA
1 GTCCTCAAATTATTATTATCATTTTAAATTA
1127754 GTCCTCAAA
1 GTCCTCAAA
1127763 CTTTTGAACA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
28 1 0.02
29 19 0.37
30 4 0.08
31 26 0.50
32 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (31 bp):
GTCCTCAAATTATTATTATCATTTTAAATTA
Found at i:1127776 original size:60 final size:60
Alignment explanation
Indices: 1127680--1127855 Score: 239
Period size: 60 Copynumber: 2.9 Consensus size: 60
1127670 AATTATTATT
* * * * *
1127680 TTCATTTTAAATTAGTCCTTAAACTTTTAAATATTTTAATTTCATCCTTAAACTATGA-T
1 TTCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAATTTCATCCTTAAACTATGACC
* *
1127739 TGTCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAATTTCATCCTCAAAATATGACC
1 T-TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAATTTCATCCTTAAACTATGACC
* *
1127800 TTCATTCTAAATTAGTCCCCAAACCTTTTGAACATTTCAATTTCATCC-TAAACTAT
1 TTCATTCTAAATTAGTCCTCAAA-CTTTTGAACATTTTAATTTCATCCTTAAACTAT
1127856 ATGTATATAC
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.01
60 78 0.76
61 24 0.23
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (60 bp):
TTCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAATTTCATCCTTAAACTATGACC
Found at i:1127787 original size:29 final size:29
Alignment explanation
Indices: 1127682--1127836 Score: 84
Period size: 29 Copynumber: 5.2 Consensus size: 29
1127672 TTATTATTTT
* *
1127682 CATTTTAAATTAGTCCTTAAACTTTTAAA
1 CATTTTAAATTAGTCCTCAAACTTTTGAA
* * * *
1127711 TATTTTAATTTCA-TCCTTAAACTATGATTG-T
1 CATTTTAAATT-AGTCCTCAAACT-T--TTGAA
*
1127742 CATTCTAAATTAGTCCTCAAACTTTTGAA
1 CATTTTAAATTAGTCCTCAAACTTTTGAA
* * * *
1127771 CATTTTAATTTCA-TCCTCAAA-ATATGACCTT
1 CATTTTAAATT-AGTCCTCAAACTTTTGA---A
* *
1127802 CATTCTAAATTAGTCCCCAAACCTTTTGAA
1 CATTTTAAATTAGTCCTCAAA-CTTTTGAA
1127832 CATTT
1 CATTT
1127837 CAATTTCATC
Statistics
Matches: 92, Mismatches: 21, Indels: 25
0.67 0.15 0.18
Matches are distributed among these distances:
28 7 0.08
29 36 0.39
30 10 0.11
31 33 0.36
32 2 0.02
33 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (29 bp):
CATTTTAAATTAGTCCTCAAACTTTTGAA
Found at i:1128152 original size:59 final size:59
Alignment explanation
Indices: 1128036--1128154 Score: 159
Period size: 59 Copynumber: 2.0 Consensus size: 59
1128026 TGAGGGTCAT
* * * * * * *
1128036 GGATGACATTGGAATGTTCAAATTTTAAGGACTAATTTAAAATAAGAGTCATTGTTTGG
1 GGATGAAATTGAAATATTCAAAGTTTAAAGACCAATTTAAAATAAGAGTCATAGTTTGG
1128095 GGATGAAATTGAAATATTCAAAAGTTTAAAGACCAATTTAAAATAAG-GTCATAGTTTGG
1 GGATGAAATTGAAATATTC-AAAGTTTAAAGACCAATTTAAAATAAGAGTCATAGTTTGG
1128154 G
1 G
1128155 ACATATGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
59 28 0.54
60 24 0.46
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (59 bp):
GGATGAAATTGAAATATTCAAAGTTTAAAGACCAATTTAAAATAAGAGTCATAGTTTGG
Found at i:1130742 original size:41 final size:41
Alignment explanation
Indices: 1130697--1130988 Score: 257
Period size: 41 Copynumber: 7.1 Consensus size: 41
1130687 ATTTTTTGAT
* *
1130697 CAAACACCGCAAAAGACTCTTACTTTAGTGGCGTTTGTATA
1 CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
*** * *
1130738 CAAACATTGCTAAAGACTCTTACTTTAGTGGCGTTTGTATA
1 CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
*
1130779 CAAACACCACTAAAA-ACTCAG-ACTTTCGTGGCGTTTGTATA
1 CAAACACCAC-AAAAGACTC-GTACTTTAGTGGCGTTTGTATA
* * * * *
1130820 CAAATATCACTATAA-ACTCGTACTTTAGTGGTGTTTCTATA
1 CAAACACCAC-AAAAGACTCGTACTTTAGTGGCGTTTGTATA
* * *
1130861 CAAACACCACTATAGACTCGTACTTTAGTGGCGTTTTTATA
1 CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
** * * * * *
1130902 CAAATGCCGCTATAGACTCGTACTTTAGTGGTGTTTTTATA
1 CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
* * ** * * * *
1130943 CAAATACCACTATTGACTTGTACTTTAGTGGCATTTTTGTA
1 CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
1130984 CAAAC
1 CAAAC
1130989 GCCGCAATAT
Statistics
Matches: 213, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.01
41 208 0.98
42 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (41 bp):
CAAACACCACAAAAGACTCGTACTTTAGTGGCGTTTGTATA
Found at i:1130844 original size:82 final size:82
Alignment explanation
Indices: 1130697--1130974 Score: 319
Period size: 82 Copynumber: 3.4 Consensus size: 82
1130687 ATTTTTTGAT
* * * * *
1130697 CAAACACCGC-AAAAGACTCTTACTTTAGTGGCGTTTGTATACAAACATTGCTA-AAGACTCTTA
1 CAAACACCACTAAAA-ACTCGTACTTTAGTGGCGTTTGTATACAAATATCGCTATAA-ACTCGTA
* *
1130760 CTTTAGTGGCGTTTGTATA
64 CTTTAGTGGTGTTTCTATA
* *
1130779 CAAACACCACTAAAAACTCAG-ACTTTCGTGGCGTTTGTATACAAATATCACTATAAACTCGTAC
1 CAAACACCACTAAAAACTC-GTACTTTAGTGGCGTTTGTATACAAATATCGCTATAAACTCGTAC
1130843 TTTAGTGGTGTTTCTATA
65 TTTAGTGGTGTTTCTATA
* * * ** *
1130861 CAAACACCACTATAGACTCGTACTTTAGTGGCGTTTTTATACAAATGCCGCTATAGACTCGTACT
1 CAAACACCACTAAAAACTCGTACTTTAGTGGCGTTTGTATACAAATATCGCTATAAACTCGTACT
*
1130926 TTAGTGGTGTTTTTATA
66 TTAGTGGTGTTTCTATA
* *** *
1130943 CAAATACCACTATTGACTTGTACTTTAGTGGC
1 CAAACACCACTAAAAACTCGTACTTTAGTGGC
1130975 ATTTTTGTAC
Statistics
Matches: 171, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
81 1 0.01
82 164 0.96
83 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (82 bp):
CAAACACCACTAAAAACTCGTACTTTAGTGGCGTTTGTATACAAATATCGCTATAAACTCGTACT
TTAGTGGTGTTTCTATA
Found at i:1130943 original size:123 final size:123
Alignment explanation
Indices: 1130712--1130988 Score: 322
Period size: 123 Copynumber: 2.3 Consensus size: 123
1130702 ACCGCAAAAG
* * *** *
1130712 ACTCTTACTTTAGTGGCGTTTGTATACAAACATTGCTAAAGACTCTTACTTTAGTGGCGTTTGTA
1 ACTCGTACTTTAGTGGCGTTTCTATACAAACACCACTAAAGACTCGTACTTTAGTGGCGTTTGTA
* *
1130777 TACAAACACCACTAAAAACTCAGACTTTCGTGGCGTTTGTATACAAATATCACTATAA
66 TACAAACACCACTAAAAACTCAGACTTTAGTGGCGTTTGTATACAAATACCACTATAA
* * *
1130835 ACTCGTACTTTAGTGGTGTTTCTATACAAACACCACTATAGACTCGTACTTTAGTGGCGTTTTTA
1 ACTCGTACTTTAGTGGCGTTTCTATACAAACACCACTAAAGACTCGTACTTTAGTGGCGTTTGTA
** * * * * * **
1130900 TACAAATGCCGCTATAGACTC-GTACTTTAGTGGTGTTTTTATACAAATACCACTATTG
66 TACAAACACCACTAAAAACTCAG-ACTTTAGTGGCGTTTGTATACAAATACCACTATAA
* * * *
1130958 ACTTGTACTTTAGTGGCATTTTTGTACAAAC
1 ACTCGTACTTTAGTGGCGTTTCTATACAAAC
1130989 GCCGCAATAT
Statistics
Matches: 128, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
122 1 0.01
123 127 0.99
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (123 bp):
ACTCGTACTTTAGTGGCGTTTCTATACAAACACCACTAAAGACTCGTACTTTAGTGGCGTTTGTA
TACAAACACCACTAAAAACTCAGACTTTAGTGGCGTTTGTATACAAATACCACTATAA
Found at i:1131011 original size:41 final size:41
Alignment explanation
Indices: 1130961--1131076 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
1130951 ACTATTGACT
* *
1130961 TGTACTTTAGTGGCATTTTTGT-ACAAACGCCGCAATATTCA
1 TGTACTTTAGTGGCATTTTT-TAATAAACGCCGCAATAGTCA
* *
1131002 TGTATTTTAGTGGCATTTTTTAATAAACACCGCAATAGTCA
1 TGTACTTTAGTGGCATTTTTTAATAAACGCCGCAATAGTCA
* *
1131043 TGTACCTTAGTGGCGTTTTTATAATAAACGCCGC
1 TGTACTTTAGTGGCATTTTT-TAATAAACGCCGC
1131077 GATTGTACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 1 0.02
41 52 0.80
42 12 0.18
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (41 bp):
TGTACTTTAGTGGCATTTTTTAATAAACGCCGCAATAGTCA
Found at i:1131472 original size:18 final size:18
Alignment explanation
Indices: 1131449--1131487 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1131439 ATCTGATTAT
1131449 TTTAGGTTTTCATCTCCG
1 TTTAGGTTTTCATCTCCG
*
1131467 TTTAGGTTTTCATCTCTG
1 TTTAGGTTTTCATCTCCG
1131485 TTT
1 TTT
1131488 GTTGTTGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.15, T:0.56
Consensus pattern (18 bp):
TTTAGGTTTTCATCTCCG
Done.