Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_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: 1788856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1511374 original size:38 final size:40
Alignment explanation
Indices: 1511323--1511402 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
1511313 AGTGAGAGGG
*
1511323 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
1511361 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
1511401 TA
1 TA
1511403 TATATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:1511398 original size:2 final size:2
Alignment explanation
Indices: 1511391--1511415 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1511381 TACTTTGATG
1511391 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1511416 TCCTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1519596 original size:106 final size:106
Alignment explanation
Indices: 1519438--1520215 Score: 1007
Period size: 106 Copynumber: 7.5 Consensus size: 106
1519428 GATTTTAGCT
* * *
1519438 AGAGTCAATTTCAACTTCACAGT-AAAGGATATTGGACTCAAGACATCACAAGTTCAACTTCACA
1 AGAGTCAATTTCAACTTCACA-TCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA
1519502 ACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
65 ACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * *
1519544 AGAGCCAATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
1519609 CGAAGGGACGGCTGATTGTCAACAAACAATTTCCCAATTT-
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * *
1519649 AGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * * *
1519714 TGAAGGGACGACTGGTTTTCAACAAACAATCTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* ** *
1519755 AGAG-C-----CAA--T---AGCGAAGGATATTGGACTCGAGATGACATAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* *
1519809 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCTAATTTT
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
*
1519850 AGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC--CACAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
1519913 CGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * * *
1519954 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACGACACAAGCTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
*
1520019 CGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
* * * * *
1520060 AGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC-ACACAAGCTCAACTTCACAG
1 AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * * * * * * *
1520124 TGAAGGGGCGGTTGGCTGTCAACAAATAATTTTCCAGTTCC
66 CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
** * *
1520165 AGAG-CTAATTTCAACTTCACGGC-AGAGGATATTGGACTCGAAACAATACAA
1 AGAGTC-AATTTCAACTTCACATCGA-AGGATATTGGACTCGAGACAACACAA
1520216 CCTACTTGGA
Statistics
Matches: 595, Mismatches: 59, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
95 79 0.13
96 1 0.00
98 1 0.00
100 3 0.01
101 3 0.01
103 1 0.00
104 99 0.17
105 183 0.31
106 225 0.38
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (106 bp):
AGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTC
Found at i:1520728 original size:35 final size:35
Alignment explanation
Indices: 1520688--1520759 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1520678 CTAAAAAAGA
*
1520688 AGAGTTGGATTAGGACTCAAATAGTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1520723 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1520758 AG
1 AG
1520760 GGTTTTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:1521160 original size:17 final size:18
Alignment explanation
Indices: 1521134--1521173 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1521124 ATTATATGGA
1521134 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
1521150 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
1521168 TATTAT
1 TATTAT
1521174 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:1521240 original size:2 final size:2
Alignment explanation
Indices: 1521233--1521259 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1521223 TATTAATTAT
1521233 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1521260 CTTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1521357 original size:79 final size:79
Alignment explanation
Indices: 1521241--1521394 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 79
1521231 ATTATATATA
* *
1521241 TATATATATATATATATATCTTTAATATTTTACTTATAGT-CTATTATTACTATATATATT-GTA
1 TATATATATATATATATATCTTTAATAGTTTACTTATA-TACTATTA-TAATATATATATTCGTA
1521304 ATTATCTTTATCTAGT
64 ATTATCTTTATCTAGT
* * * *
1521320 TATATATATATTTTTATA-CTTTTAATAGTTTATTTATATACCTATTATAATATATATATTCTTA
1 TATATATATATATATATATC-TTTAATAGTTTACTTATATA-CTATTATAATATATATATTCGTA
*
1521384 ATTATTTTTAT
64 ATTATCTTTAT
1521395 TTGATTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.03
79 44 0.69
80 18 0.28
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (79 bp):
TATATATATATATATATATCTTTAATAGTTTACTTATATACTATTATAATATATATATTCGTAAT
TATCTTTATCTAGT
Found at i:1521437 original size:2 final size:2
Alignment explanation
Indices: 1521432--1521462 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1521422 ATCTTATAAC
1521432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1521463 TATTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1521510 original size:23 final size:23
Alignment explanation
Indices: 1521462--1521508 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1521452 TATATATATA
* *
1521462 TTATTTATTATTATTTTCATTTT
1 TTATTCATTATTATATTCATTTT
1521485 TTATTCATTATTATATT-ATTTT
1 TTATTCATTATTATATTCATTTT
1521507 TT
1 TT
1521509 TAAAATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTCATTATTATATTCATTTT
Found at i:1523268 original size:19 final size:18
Alignment explanation
Indices: 1523210--1523277 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
1523200 TTGAAAAGGT
*
1523210 ATAATAAAATAAATAATT
1 ATAATAAAATAAATAATA
* *
1523228 ATAATTAAAA-AAAGGAAAA
1 ATAA-TAAAATAAA-TAATA
1523247 ATAATAAATATAAATAATA
1 ATAATAAA-ATAAATAATA
1523266 ATAAT-AAATAAA
1 ATAATAAAATAAA
1523278 AAAGGGTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 5 0.12
18 13 0.32
19 20 0.49
20 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAATAAAATAAATAATA
Found at i:1523328 original size:12 final size:12
Alignment explanation
Indices: 1523311--1523341 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1523301 AATTATAATA
1523311 AAATAAAGAATT
1 AAATAAAGAATT
1523323 AAATAAAGAATT
1 AAATAAAGAATT
1523335 AAATAAA
1 AAATAAA
1523342 ATAACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (12 bp):
AAATAAAGAATT
Found at i:1524032 original size:15 final size:12
Alignment explanation
Indices: 1523999--1524040 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1523989 AAATACCTAA
1523999 AAAATAATATTT
1 AAAATAATATTT
1524011 AAAATAATATTCT
1 AAAATAATATT-T
* *
1524024 -AAATCATAATT
1 AAAATAATATTT
1524035 AAAATA
1 AAAATA
1524041 CTAAAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:1524034 original size:71 final size:73
Alignment explanation
Indices: 1523952--1524163 Score: 252
Period size: 71 Copynumber: 2.8 Consensus size: 73
1523942 TAAAACATCT
* * * *
1523952 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAA-ATAATAT-TTAAA
1 TAAATCATAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAAAGATAAAATATAAAA
*
1524014 ATAATATTC
65 ATAATATCC
1524023 TAAATCATAATTAAAATACTAAAACCTATTTAAACT-AAATACCTAAAACAAAGATAAAATATAA
1 TAAATCATAATTAAAATACTAAAACCTATTTAAACTAAAATACCT--AA-AAAGATAAAATATAA
1524087 AAATAATATCC
63 AAATAATATCC
* * *
1524098 TAAAACTTAATTAAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATA
1 TAAATCATAATT-AAAATACTAAAACCTATTTAAACTAAAATACCT--AA-AAAGATAAAATATA
1524163 A
62 A
1524164 TGTTTAAAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
70 13 0.10
71 28 0.22
72 2 0.02
73 3 0.02
74 6 0.05
75 22 0.18
76 24 0.19
77 27 0.22
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (73 bp):
TAAATCATAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAGATAAAATATAAAAA
TAATATCC
Found at i:1524129 original size:76 final size:76
Alignment explanation
Indices: 1523959--1524163 Score: 280
Period size: 77 Copynumber: 2.8 Consensus size: 76
1523949 TCTTAAATCC
* * *
1523959 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT--AA-AAA-ATAATAT-TTAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
* *
1524018 TATTCTAAATCA
65 TATCCTAAAACA
1524030 TAATTAAAATACTAAAACCTATTTAAACT-AAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
1524094 ATCCTAAAACT
66 ATCCTAAAACA
*
1524105 TAATTAAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAATT-AAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1524164 TGTTTAAAAT
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
70 13 0.11
71 22 0.18
72 2 0.02
73 3 0.03
74 6 0.05
75 22 0.18
76 24 0.20
77 27 0.23
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.29
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACA
Found at i:1526039 original size:24 final size:24
Alignment explanation
Indices: 1525984--1526058 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1525974 CTATTCGAAC
**
1525984 CAAATCAGTTTTTTCTGCACTATT
1 CAAATCAAATTTTTCTGCACTATT
* *
1526008 CTATTCAAATTTTTCTGCAC-AGTT
1 CAAATCAAATTTTTCTGCACTA-TT
*
1526032 CAAATCAATTCAGTTTTCTGCACTATT
1 CAAATCAA---ATTTTTCTGCACTATT
1526059 GTTTCGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 24 0.62
27 13 0.33
28 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (24 bp):
CAAATCAAATTTTTCTGCACTATT
Found at i:1529164 original size:18 final size:18
Alignment explanation
Indices: 1529108--1529167 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
1529098 TTGAAAATGT
*
1529108 ATAATAAAATAA-ATAATT
1 ATAATAAAATAATA-AATA
*
1529126 ATAATTAAAA-AATGGAA-A
1 ATAA-TAAAATAAT-AAATA
1529144 ATAATAAAATAATAAATA
1 ATAATAAAATAATAAATA
1529162 ATAATA
1 ATAATA
1529168 GTAGTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 7 0.21
18 20 0.59
19 7 0.21
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAATAAAATAATAAATA
Found at i:1529230 original size:11 final size:11
Alignment explanation
Indices: 1529214--1529243 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1529204 AAATATAATG
*
1529214 AAATAAAAATT
1 AAATAAAAAAT
1529225 AAATAAAAAAT
1 AAATAAAAAAT
1529236 AAATAAAA
1 AAATAAAA
1529244 TAACTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:1530036 original size:77 final size:76
Alignment explanation
Indices: 1529859--1530065 Score: 280
Period size: 77 Copynumber: 2.8 Consensus size: 76
1529849 TCTTAAATCC
* ** *
1529859 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT-AAA-AAA-ATAATGT-TTAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
* *
1529919 TATTCTAAATCA
65 TATCCTAAAACA
*
1529931 TAATTAAAATACTAAAACCTATTTAAACTAAGATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
1529996 ATCCTAAAACT
66 ATCCTAAAACA
*
1530007 TAATTAAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAATT-AAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1530066 TGTTTAAAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
71 5 0.04
72 30 0.25
73 3 0.03
74 3 0.03
75 5 0.04
76 22 0.18
77 51 0.43
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACA
Found at i:1531902 original size:24 final size:24
Alignment explanation
Indices: 1531847--1531921 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1531837 CTGTTCGAAC
**
1531847 CAAATCAGTTTTTTCTGCACTATT
1 CAAATCAAATTTTTCTGCACTATT
* *
1531871 CTATTCAAATTTTTCTGCAC-AGTT
1 CAAATCAAATTTTTCTGCACTA-TT
*
1531895 CAAATCAAGTCAGTTTTCTGCACTATT
1 CAAATCAA---ATTTTTCTGCACTATT
1531922 GTTTCGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 24 0.62
27 13 0.33
28 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (24 bp):
CAAATCAAATTTTTCTGCACTATT
Found at i:1535008 original size:18 final size:18
Alignment explanation
Indices: 1534952--1535011 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
1534942 TTGAAAATGT
*
1534952 ATAATAAAATAA-ATAATT
1 ATAATAAAATAATA-AATA
*
1534970 ATAATTAAAA-AATGGAA-A
1 ATAA-TAAAATAAT-AAATA
1534988 ATAATAAAATAATAAATA
1 ATAATAAAATAATAAATA
1535006 ATAATA
1 ATAATA
1535012 GTAGTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 7 0.21
18 20 0.59
19 7 0.21
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAATAAAATAATAAATA
Found at i:1535767 original size:15 final size:12
Alignment explanation
Indices: 1535734--1535775 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1535724 AATACCTAAA
1535734 AAAATAATATTT
1 AAAATAATATTT
1535746 AAAATAATATTCT
1 AAAATAATATT-T
* *
1535759 -AAATCATAATT
1 AAAATAATATTT
1535770 AAAATA
1 AAAATA
1535776 CTAAAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:1535865 original size:77 final size:76
Alignment explanation
Indices: 1535693--1535899 Score: 289
Period size: 77 Copynumber: 2.8 Consensus size: 76
1535683 TCTTAAATCC
* * *
1535693 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT-AAA-AAA-ATAATAT-TTAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
* *
1535753 TATTCTAAATCA
65 TATCCTAAAACA
*
1535765 TAATTAAAATACTAAAACCTATTTAAACTAAGATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
1535830 ATCCTAAAACT
66 ATCCTAAAACA
*
1535841 TAATTAAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAATT-AAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1535900 TGTTTAAAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
71 5 0.04
72 30 0.25
73 3 0.03
74 3 0.03
75 6 0.05
76 22 0.18
77 51 0.43
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACA
Found at i:1537762 original size:24 final size:25
Alignment explanation
Indices: 1537735--1537800 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
1537725 CCAAATCAGT
*
1537735 TTTTTCTGCACTATTCAATTCAA-A
1 TTTTTCTGCACTATTCAAATCAACA
1537759 TTTTTCTGCAC-AGTTCAAATCAAGTCA
1 TTTTTCTGCACTA-TTCAAATCAA--CA
*
1537786 ATTTTCTGCACTATT
1 TTTTTCTGCACTATT
1537801 ATTTCGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 20 0.57
27 13 0.37
28 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (25 bp):
TTTTTCTGCACTATTCAAATCAACA
Found at i:1541646 original size:12 final size:12
Alignment explanation
Indices: 1541631--1541658 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1541621 ATACCTAAAA
1541631 AAATAATATTGT
1 AAATAATATTGT
1541643 AAATAATATTGT
1 AAATAATATTGT
1541655 AAAT
1 AAAT
1541659 CCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
AAATAATATTGT
Found at i:1541715 original size:44 final size:42
Alignment explanation
Indices: 1541665--1541794 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 42
1541655 AAATCCTAAT
1541665 TAAAATACTAAAATCTATTTAAACTAAAATACCTAAAACAAAGA
1 TAAAATA-TAAAA-CTATTTAAACTAAAATACCTAAAACAAAGA
* *
1541709 TAAAATATAAAA--A--T-AAC----AT-CCTAAAACTTAA-T
1 TAAAATATAAAACTATTTAAACTAAAATACCTAAAAC-AAAGA
*
1541741 TAAAATATTAAAACCTATTTAAACTAAAATACTTAAAACAAAGA
1 TAAAATA-TAAAA-CTATTTAAACTAAAATACCTAAAACAAAGA
1541785 TAAAATATAA
1 TAAAATATAA
1541795 TGTTTAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 29
0.66 0.05 0.29
Matches are distributed among these distances:
32 15 0.22
33 9 0.13
36 1 0.01
37 3 0.04
38 2 0.03
39 3 0.04
40 1 0.01
43 12 0.18
44 21 0.31
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.27
Consensus pattern (42 bp):
TAAAATATAAAACTATTTAAACTAAAATACCTAAAACAAAGA
Found at i:1541759 original size:76 final size:75
Alignment explanation
Indices: 1541588--1541794 Score: 260
Period size: 76 Copynumber: 2.8 Consensus size: 75
1541578 ATATTAAATT
* * **
1541588 CTAATTAAAACACTTAAAACTATTTAAACTAAAATACCT-AAA-AAA-ATAATAT-TGTAAATAA
1 CTAATTAAAATA-TTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
* ** *
1541649 TATTGTAAATC
65 CATCCTAAAAC
*
1541660 CTAATTAAAATACTAAAATCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 CTAATTAAAATATTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1541725 CATCCTAAAAC
65 CATCCTAAAAC
* *
1541736 TTAATTAAAATATTAAAACCTATTTAAACTAAAATACTTAAAACAAAGATAAAATATAA
1 CTAATTAAAATATTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1541795 TGTTTAAAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
71 5 0.04
72 31 0.26
73 3 0.03
74 3 0.03
75 6 0.05
76 69 0.59
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (75 bp):
CTAATTAAAATATTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAC
ATCCTAAAAC
Found at i:1543407 original size:26 final size:26
Alignment explanation
Indices: 1543378--1543431 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
1543368 CATTCAATTC
1543378 ATCTTCGTTTTAAGTATATTTTTACT
1 ATCTTCGTTTTAAGTATATTTTTACT
1543404 ATCTTCGTTTTAAGTATATTTTTACT
1 ATCTTCGTTTTAAGTATATTTTTACT
1543430 AT
1 AT
1543432 ATTTGAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.57
Consensus pattern (26 bp):
ATCTTCGTTTTAAGTATATTTTTACT
Found at i:1543907 original size:2 final size:2
Alignment explanation
Indices: 1543902--1543926 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1543892 TATATATATA
1543902 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1543927 CAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1545056 original size:607 final size:609
Alignment explanation
Indices: 1543912--1545135 Score: 2195
Period size: 607 Copynumber: 2.0 Consensus size: 609
1543902 TGTGTGTGTG
* *
1543912 TGTGTGTGTGTGTGTCAGAGAGAGAGAGCGTGCGCGTTTGTGTGTTATATAGGGTTAGAGAGATT
1 TGTGTGTGTGTGAGACAGAGAGAGAGAGCGTGCGCGTTTGTGTGTTATATAGGGTTAGAGAGATT
1543977 TTTTAACCCTAAATCAAACACCACCAAAACATTATAGACAATTACATTAAAACTAGAATAAATTT
66 TTTTAACCCTAAATCAAACACCACCAAAACATTATAGACAATTACATTAAAACTAGAATAAATTT
1544042 CCAAAAAAAATACATTCATTTCAACTCAACTAAAAAATTCAAATGAAATCTAAATAATGTACTCG
131 CCAAAAAAAATACATTCATTTCAACTCAACTAAAAAATTCAAATG-------AATAATGTACTCG
*
1544107 GAAACTTGACAACTCTATTTTCCATATACTTAGCTAGAGATAGAAATAATTCACATAATTTTATC
189 GAAACTTGACAACTCTAGTTTCCATATACTTAGCTAGAGATAGAAATAATTCACATAATTTTATC
*
1544172 TATGATTGAATCTAAAGGAATCCAAAAGACTTATTTTGAATTAGGGGTGTGCAAATAGATCTGAT
254 TATGATTGAATCTAAAGGAATCCAAAAGACTTATTTTGAATTAGGGGTGTGCAAATAGATCCGAT
* *
1544237 TCGATCGATCCGATCAGTTGATCTGATGATTCGATCTGAAAAATCGAATATTCAATCCATTTTTT
319 CCGATCGATCCGATCAGTTGATCTGATGATCCGATCTGAAAAATCGAATATTCAATCCATTTTTT
* *
1544302 ATTTTTAAGTAATTCGGATAAGATATTCGAAAAAAAATCGAATTATAGGATCAGATAAATTCCAA
384 AATTTTAAGTAATTCGGATAAGATATTCGAAAAAAAATCGAATGATAGGATCAGATAAATTCCAA
1544367 TTTCGGATTATCCAAAAATCTAAAAAAATTATACTTTTAGATTTTAGATAAAATTTAGTCCAATA
449 TTTCGGATTATCCAAAAATCTAAAAAAATTATACTTTTAGATTTTAGATAAAATTTAGTCCAATA
* * *
1544432 AATGGGTAATTCACTAATCTATTAAAACTCTAACCCAATAAAAATTATGATATTTAATTATTTAT
514 AAAGGCTAATTCACTAATCTATTAAAACTCTAACCCAATAAAAATTAGGATATTTAATTATTTAT
1544497 TGTATGTTAGTAAT-TATATATATATATATA
579 TGTATGTTAGTAATATATATATATATATATA
*
1544527 TGTGTGTGTGTGAGAGAGAGAGAGAGAGCGTGCGCGTTTGTGTGTTATATAGGGTTAGAGAGATT
1 TGTGTGTGTGTGAGACAGAGAGAGAGAGCGTGCGCGTTTGTGTGTTATATAGGGTTAGAGAGATT
1544592 TTTTAACCCTAAATCAAACACCACCAAAACATTATAGACAATTACATTAAAACTAGAATAAATTT
66 TTTTAACCCTAAATCAAACACCACCAAAACATTATAGACAATTACATTAAAACTAGAATAAATTT
1544657 CC-AAAAAAATACATTCATTTCAACTCAACTAAAAAATTCAAATG-ATAATGTACTCGGAAACTT
131 CCAAAAAAAATACATTCATTTCAACTCAACTAAAAAATTCAAATGAATAATGTACTCGGAAACTT
1544720 GACAACTCTAGTTTCCATATACTTAGCTAGAGATAGAAATAATTCACATAATTTTATCTATGATT
196 GACAACTCTAGTTTCCATATACTTAGCTAGAGATAGAAATAATTCACATAATTTTATCTATGATT
1544785 GAATCTAAAGGAATCCAAAAGACTTATTTTTGAATTAGGGGTGTGCAAATAGATCCGATCCGATC
261 GAATCTAAAGGAATCCAAAAGACTTA-TTTTGAATTAGGGGTGTGCAAATAGATCCGATCCGATC
* *
1544850 GATCTGATCAGTTGATCTGATGATCCGATCTGAAAAATTGAATATTCAATCCATTTTTTAATTTT
325 GATCCGATCAGTTGATCTGATGATCCGATCTGAAAAATCGAATATTCAATCCATTTTTTAATTTT
*
1544915 AGGTAATTCGGATAAGATATTC-AAAAAAAATCGAATGATAGGATCAGATAAATTCCAATTTCGG
390 AAGTAATTCGGATAAGATATTCGAAAAAAAATCGAATGATAGGATCAGATAAATTCCAATTTCGG
*
1544979 ATTATCCAAAAATCTAAAAAAAATTATACTTTTAGATTTTAGATAACATTTAGTCCAATAAAAGG
455 ATTATCCAAAAATCT-AAAAAAATTATACTTTTAGATTTTAGATAAAATTTAGTCCAATAAAAGG
1545044 CTAATTCACTAATCTATTAAAACTCTAACCCAATAAAAATTAGGATATTTAATTATTTATTGTAT
519 CTAATTCACTAATCTATTAAAACTCTAACCCAATAAAAATTAGGATATTTAATTATTTATTGTAT
1545109 GTTAGTAATATATATATATATATATA
584 GTTAGTAATATATATATATATATATA
1545135 T
1 T
1545136 AATATACTAA
Statistics
Matches: 590, Mismatches: 16, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
606 165 0.28
607 237 0.40
608 17 0.03
614 42 0.07
615 129 0.22
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (609 bp):
TGTGTGTGTGTGAGACAGAGAGAGAGAGCGTGCGCGTTTGTGTGTTATATAGGGTTAGAGAGATT
TTTTAACCCTAAATCAAACACCACCAAAACATTATAGACAATTACATTAAAACTAGAATAAATTT
CCAAAAAAAATACATTCATTTCAACTCAACTAAAAAATTCAAATGAATAATGTACTCGGAAACTT
GACAACTCTAGTTTCCATATACTTAGCTAGAGATAGAAATAATTCACATAATTTTATCTATGATT
GAATCTAAAGGAATCCAAAAGACTTATTTTGAATTAGGGGTGTGCAAATAGATCCGATCCGATCG
ATCCGATCAGTTGATCTGATGATCCGATCTGAAAAATCGAATATTCAATCCATTTTTTAATTTTA
AGTAATTCGGATAAGATATTCGAAAAAAAATCGAATGATAGGATCAGATAAATTCCAATTTCGGA
TTATCCAAAAATCTAAAAAAATTATACTTTTAGATTTTAGATAAAATTTAGTCCAATAAAAGGCT
AATTCACTAATCTATTAAAACTCTAACCCAATAAAAATTAGGATATTTAATTATTTATTGTATGT
TAGTAATATATATATATATATATA
Found at i:1551933 original size:2 final size:2
Alignment explanation
Indices: 1551926--1551975 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
1551916 AAATATTGAG
* * * *
1551926 TA TA TA TA TA TA TA TA CA TA T- TA TG TG TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1551967 TA TA -A TA TA
1 TA TA TA TA TA
1551976 GTGGAATTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1552023 original size:22 final size:22
Alignment explanation
Indices: 1551998--1552080 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
1551988 TCAATTAACG
*
1551998 AAAGTGCCTTAGCACTGGTACT
1 AAAGTGCCTTAGCACTGATACT
* *
1552020 AAAGTGCCTCAACACTGATA-T
1 AAAGTGCCTTAGCACTGATACT
* *
1552041 GAAAGTGCATTAGCACTTATACT
1 -AAAGTGCCTTAGCACTGATACT
1552064 AAAGTGCCTTAGCACTG
1 AAAGTGCCTTAGCACTG
1552081 CTGGGGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
21 1 0.02
22 48 0.96
23 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (22 bp):
AAAGTGCCTTAGCACTGATACT
Found at i:1552211 original size:77 final size:77
Alignment explanation
Indices: 1552123--1552276 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
1552113 TACTTTAGAC
1552123 GATCGTCACACATACAGGTACCTCAAGTGTCCTTAACATTTCCCTAGTGTCAAACAAAGACATAG
1 GATCGTCACACATACAGGTACCTCAAGTGTCCTTAACATTTCCCTAGTGTCAAACAAAGACATAG
1552188 AATCGTATATCA
66 AATCGTATATCA
1552200 GATCGTCACACATACAGGTACCTCAAGTGTCCTTAACATTTCCCTAGTGTCAAACAAAGACATAG
1 GATCGTCACACATACAGGTACCTCAAGTGTCCTTAACATTTCCCTAGTGTCAAACAAAGACATAG
1552265 AATCGTATATCA
66 AATCGTATATCA
1552277 TAAGGTTCTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (77 bp):
GATCGTCACACATACAGGTACCTCAAGTGTCCTTAACATTTCCCTAGTGTCAAACAAAGACATAG
AATCGTATATCA
Found at i:1553863 original size:27 final size:25
Alignment explanation
Indices: 1553833--1553886 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 25
1553823 ATTTAAGGTC
1553833 AAAAGTAAAATATTGTA-AAAAATCATT
1 AAAAG-AAAAT-TTG-ACAAAAATCATT
1553860 AAAAGAAAATTTGACCAAAAATCATT
1 AAAAGAAAATTTGA-CAAAAATCATT
1553886 A
1 A
1553887 TGATAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 1 0.04
25 3 0.12
26 16 0.64
27 5 0.20
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAGAAAATTTGACAAAAATCATT
Found at i:1554824 original size:19 final size:19
Alignment explanation
Indices: 1554800--1554863 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
1554790 TCTAATTTTG
1554800 GTATCGATACCTTAAGGGA
1 GTATCGATACCTTAAGGGA
* * *
1554819 GTATCGGTGCCATAGAAGGGTA
1 GTATCGATACC-T-TAAGGG-A
1554841 GTATCGATACCTTAAGGGA
1 GTATCGATACCTTAAGGGA
1554860 GTAT
1 GTAT
1554864 TGGTGCCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 14 0.39
20 6 0.17
21 6 0.17
22 10 0.28
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (19 bp):
GTATCGATACCTTAAGGGA
Found at i:1554844 original size:22 final size:21
Alignment explanation
Indices: 1554813--1554887 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 21
1554803 TCGATACCTT
1554813 AAGGGAGTATCGGTGCCATAG
1 AAGGGAGTATCGGTGCCATAG
* * *
1554834 AAGGGTAGTATCGATACC-T-T
1 AAGGG-AGTATCGGTGCCATAG
*
1554854 AAGGGAGTATTGGTGCCATAG
1 AAGGGAGTATCGGTGCCATAG
1554875 AAGGGTAGTATCG
1 AAGGG-AGTATCG
1554888 ATACCACGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 9 0.21
20 6 0.14
21 11 0.26
22 16 0.38
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (21 bp):
AAGGGAGTATCGGTGCCATAG
Found at i:1554857 original size:41 final size:41
Alignment explanation
Indices: 1554800--1554892 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
1554790 TCTAATTTTG
1554800 GTATCGATACCTTAAGGGAGTATCGGTGCCATAGAAGGGTA
1 GTATCGATACCTTAAGGGAGTATCGGTGCCATAGAAGGGTA
*
1554841 GTATCGATACCTTAAGGGAGTATTGGTGCCATAGAAGGGTA
1 GTATCGATACCTTAAGGGAGTATCGGTGCCATAGAAGGGTA
1554882 GTATCGATACC
1 GTATCGATACC
1554893 ACGAAAAGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (41 bp):
GTATCGATACCTTAAGGGAGTATCGGTGCCATAGAAGGGTA
Found at i:1554994 original size:20 final size:20
Alignment explanation
Indices: 1554966--1555007 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1554956 TATTGGTACC
* *
1554966 CTAGTGTAGAAGTATCGGTA
1 CTAGGGTAGAAGTATCGATA
*
1554986 CTAGGGTAGTAGTATCGATA
1 CTAGGGTAGAAGTATCGATA
1555006 CT
1 CT
1555008 TTTGAATCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (20 bp):
CTAGGGTAGAAGTATCGATA
Found at i:1555511 original size:79 final size:79
Alignment explanation
Indices: 1555416--1555685 Score: 398
Period size: 79 Copynumber: 3.4 Consensus size: 79
1555406 TTGAAAATAA
*
1555416 CTGAAATGTATATGGGTACATTGTCAACATAAAAGAATAATGCATATGGGTGCATTATTGGCATG
1 CTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATG
1555481 AAAGGATGCCATAG
66 AAAGGATGCCATAG
*
1555495 CTGAAATGTATATGGGTACATTGTCAGCAGAAAAGAATAATGCATATGGGTGCATTATTGGCATG
1 CTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATG
*
1555560 AAAGGATGTCATAG
66 AAAGGATGCCATAG
** * *
1555574 CTGAAATGTATATGTTTACATTGTCAGCATAAAAGAATAATGCATACT-GGTGCGTTATTGACAT
1 CTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATA-TGGGTGCATTATTGGCAT
* *
1555638 GAAAAGATGCCATTG
65 GAAAGGATGCCATAG
* * * * *
1555653 CTGAAATGCATATGGTTGCGTTATCAGCATAAA
1 CTGAAATGTATATGGGTACATTGTCAGCATAAA
1555686 TGTATATTTC
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 173 0.99
80 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
CTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGGCATG
AAAGGATGCCATAG
Found at i:1561125 original size:558 final size:557
Alignment explanation
Indices: 1560060--1561164 Score: 1728
Period size: 558 Copynumber: 2.0 Consensus size: 557
1560050 TTGGTGATAA
*
1560060 TGGCACAAGTCGAAAGGAATGAAATCAAAGACTTTGAAATAAGAGTGAATGTATATCTATACTAT
1 TGGCACAAGTCGAAAGGAATGAAATCAAAGACTTTGAAATAAGAGTGAATGGATATCTATACTAT
* * * *
1560125 AAGAGAAGACTTTGTATTCCCGAAGATGATGATTTGAGGATGAATATCTTGTATGAAGCACATTA
66 AAGAGAAGACTTTGTATTCCCGAAGATGATGATTTAAGGAGGAATATCTCGCATGAAGCACATTA
* * * * * * *
1560190 TAGCTCTCTGGCTATGCACCCAGCTGGAAATAAAATGTATCAAGACTTGAAAAGTCGTTACTGGT
131 TAGCCCTCTGACTATGCACCCAGCTAGAAATAAAATATATCAAGACTTGAAAAGCCATTACTAGT
1560255 AGTCTGGCATGAAAAGAACTGTAACAGAGTTTGTTGCTAAATATCTAACATGTCAGCAAGTGAAA
196 AGTCTGGCATGAAAAGAACTGTAACAGAGTTTGTTGCTAAATATCTAACATGTCAGCAAGTGAAA
*
1560320 GATGAACATCAGGTGCCATCTGGGTTACTGCAGACAATAACCATTCCTGAGTGGAAATGGGAGCA
261 GATGAACATCAGGTGCCATCTAGGTTACTGCAGACAATAACCATTCCTGAGTGGAAATGGGAGCA
* * * *
1560385 GGTTACAATGGATTTCGTTTCGGGGCTACATTTGTCACCGGGTAAAAAGATTCGATATGGGTACT
326 GGTTACAATGGATTTCATTTCAGGGCTACATTTGTCACCGAGTAAAAAGATTCGATAAGGGTACT
* * *
1560450 AGTAGACCGATTGACCAAGACGGCTCATTTTATTCCTGTTCAAGTGGATTACTCGATGGATAAGT
391 AGTAGACCGATTAACCAAGACGGCTCATTTTATTCCAGTTCAAGTGGATTACTCAATGGATAAGT
* *
1560515 ATGCGGAGTTGTACATTAAAGAAATAGTCAGACTGCATAAAGTAAATATATCAATAATATCTGAT
456 ATACAGAGTTGTACATTAAAGAAATAGTCAGACTGCATAAAGTAAATATATCAATAATATCTGAT
1560580 CGAGACCCAAGGTTTACTTCAAGGTTTTAAAATAAGAG
521 CGAGA-CCAAGGTTTACTTCAAGGTTTTAAAATAAGAG
* * * *
1560618 TGGCACAAGTTGGAAGGAATGAAATCAAAGACTTTGAAATAAGAGTGGATGGATGTCTATACTAT
1 TGGCACAAGTCGAAAGGAATGAAATCAAAGACTTTGAAATAAGAGTGAATGGATATCTATACTAT
*
1560683 AAG-GAAAGACTTTGTATTCCCGAAGATGATGATTTAAGGAGGGATATCTCGCATGAAGCACATT
66 AAGAG-AAGACTTTGTATTCCCGAAGATGATGATTTAAGGAGGAATATCTCGCATGAAGCACATT
* * *
1560747 ATAGCCCTCTGATTATGCACTCAGGTAGAAATAAAATATATCAAGACTTGAAAAGCCATTACTAG
130 ATAGCCCTCTGACTATGCACCCAGCTAGAAATAAAATATATCAAGACTTGAAAAGCCATTACTAG
* * **
1560812 TGGTTTGGCATGAAAAGAGTTGTAACAGAGTTTGTTGCTAAATATCTAACATGTCAGCAAGTGAA
195 TAGTCTGGCATGAAAAGAACTGTAACAGAGTTTGTTGCTAAATATCTAACATGTCAGCAAGTGAA
1560877 AGATGAACATCAGGTGCCATCTAGGTTACTGCAGACAATAACCATTCCTGAGTGGAAATGGGAGC
260 AGATGAACATCAGGTGCCATCTAGGTTACTGCAGACAATAACCATTCCTGAGTGGAAATGGGAGC
* * * * * *
1560942 GGGTTACGATGGATTTCATTTCAGGGCTACCTTTGTTACCGAGTAAAAAGGATTTGATAAGGTTA
325 AGGTTACAATGGATTTCATTTCAGGGCTACATTTGTCACCGAGTAAAAA-GATTCGATAAGGGTA
* * * *
1561007 CTAGTATACCGATTAACTAAGATGGCTCATTTTATTCCAGTTCGAGTGGATTACTCAATGGATAA
389 CTAGTAGACCGATTAACCAAGACGGCTCATTTTATTCCAGTTCAAGTGGATTACTCAATGGATAA
* ** **
1561072 GTATACAGA-TTGTACATTAAAGAAATAGTCAGACTGTATGGAGTACCTATATCAATAATATCTG
454 GTATACAGAGTTGTACATTAAAGAAATAGTCAGACTGCATAAAGTAAATATATCAATAATATCTG
1561136 ATCGAGACCAAGGTTTACTTCAAGGTTTT
519 ATCGAGACCAAGGTTTACTTCAAGGTTTT
1561165 GGAAGTCATT
Statistics
Matches: 496, Mismatches: 49, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
557 23 0.05
558 396 0.80
559 77 0.16
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (557 bp):
TGGCACAAGTCGAAAGGAATGAAATCAAAGACTTTGAAATAAGAGTGAATGGATATCTATACTAT
AAGAGAAGACTTTGTATTCCCGAAGATGATGATTTAAGGAGGAATATCTCGCATGAAGCACATTA
TAGCCCTCTGACTATGCACCCAGCTAGAAATAAAATATATCAAGACTTGAAAAGCCATTACTAGT
AGTCTGGCATGAAAAGAACTGTAACAGAGTTTGTTGCTAAATATCTAACATGTCAGCAAGTGAAA
GATGAACATCAGGTGCCATCTAGGTTACTGCAGACAATAACCATTCCTGAGTGGAAATGGGAGCA
GGTTACAATGGATTTCATTTCAGGGCTACATTTGTCACCGAGTAAAAAGATTCGATAAGGGTACT
AGTAGACCGATTAACCAAGACGGCTCATTTTATTCCAGTTCAAGTGGATTACTCAATGGATAAGT
ATACAGAGTTGTACATTAAAGAAATAGTCAGACTGCATAAAGTAAATATATCAATAATATCTGAT
CGAGACCAAGGTTTACTTCAAGGTTTTAAAATAAGAG
Found at i:1562941 original size:22 final size:22
Alignment explanation
Indices: 1562888--1562951 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
1562878 TCTAATTTCG
*
1562888 GTATCGATACC-T-TAAGGG-A
1 GTATCGATACCATAAAAGGGTA
* * *
1562907 GTATCGGTGCCATAGAAGGGTA
1 GTATCGATACCATAAAAGGGTA
1562929 GTATCGATACCATGAAAAGGGTA
1 GTATCGATACCAT-AAAAGGGTA
1562952 TCGATACCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 5 0.14
22 12 0.34
23 8 0.23
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (22 bp):
GTATCGATACCATAAAAGGGTA
Found at i:1563001 original size:96 final size:95
Alignment explanation
Indices: 1562829--1563009 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 95
1562819 ATACCATTGA
* *
1562829 GGTAGTATCGATACCATTAAAAGGGTATCGATACCAATCAAACATCGAATCTAATTTCGGTATCG
1 GGTAGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCG
**
1562894 ATACCTTAAGGGAGTATCGGTGCCATAGAAG
66 ATACCGGAAGGG-GTATCGGTGCCATAGAAG
* * *
1562925 GGTAGTATCGATACCATGAAAAGGGTATCGATACC-TTGAAACATCGAACCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCG
1562989 ATACCAGGAAGGGGTATCGGT
66 ATACC-GGAAGGGGTATCGGT
1563010 ACCCTAGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 38 0.49
96 39 0.51
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCG
ATACCGGAAGGGGTATCGGTGCCATAGAAG
Found at i:1563028 original size:95 final size:95
Alignment explanation
Indices: 1562832--1563012 Score: 249
Period size: 95 Copynumber: 1.9 Consensus size: 95
1562822 CCATTGAGGT
* *
1562832 AGTATCGATACCATTAAAAGGGTATCGATACCAATCAAACATCGAATCTAATTTCGGTATCGATA
1 AGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCGATA
** * *
1562897 CCTTAAGGGAGTATCGGTGCCATAGAAGGG
66 CCGGAAGGGAGTATCGGTACCATAGAAGAG
* * *
1562927 TAGTATCGATACCATGAAAAGGGTATCGATACC-TTGAAACATCGAACCTAATTTTGGTATCGAT
1 -AGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCGAT
1562991 ACCAGGAAGGG-GTATCGGTACC
65 ACC-GGAAGGGAGTATCGGTACC
1563013 CTAGTGTAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
95 40 0.53
96 36 0.47
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (95 bp):
AGTATCGATACCATGAAAAGGGTATCGATACCAATCAAACATCGAACCTAATTTCGGTATCGATA
CCGGAAGGGAGTATCGGTACCATAGAAGAG
Found at i:1563593 original size:79 final size:79
Alignment explanation
Indices: 1563458--1563731 Score: 406
Period size: 79 Copynumber: 3.5 Consensus size: 79
1563448 ACAATTGAAA
*
1563458 ATAGCTTAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATAGGTGCATTATTGG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATAGGTGCATTATTGG
*
1563523 CATGAAAGAATGCC
66 CATGAAAGAATGTC
* * *
1563537 ATAGCTGAAATGTATATGTGCACATTGTCAGCATAAAAGAATAATGCATATGGGTGCATTATTGG
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATAGGTGCATTATTGG
* *
1563602 CATGAAAGGATGTT
66 CATGAAAGAATGTC
* *
1563616 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATTGGTGCATTATTGA
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATAGGTGCATTATTGG
1563681 CATGAAA-ATATGTC
66 CATGAAAGA-ATGTC
* * * * *
1563695 ATTGCTGAAATGCATATGGGTGCATTATTAGCATAAA
1 ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAA
1563732 TGTATATTTT
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 176 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (79 bp):
ATAGCTGAAATGTATATGGGTACATTGTCAGCATAAAAGAATAATGCATATAGGTGCATTATTGG
CATGAAAGAATGTC
Found at i:1564828 original size:23 final size:23
Alignment explanation
Indices: 1564789--1564833 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1564779 TTTCTTTTCA
* *
1564789 AAATCTATTTTCTCTTTCAAATG
1 AAATCTATTTTCCCTTTAAAATG
1564812 AAATC-ATTTTCACCTTTAAAAT
1 AAATCTATTTTC-CCTTTAAAAT
1564834 TTGAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATCTATTTTCCCTTTAAAATG
Found at i:1567332 original size:13 final size:13
Alignment explanation
Indices: 1567314--1567354 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
1567304 AGGAACGGTT
1567314 AATGAAAATTAGA
1 AATGAAAATTAGA
1567327 AATGAAAATTAGA
1 AATGAAAATTAGA
*
1567340 AATGAAAATGAGA
1 AATGAAAATTAGA
1567353 AA
1 AA
1567355 AGATTAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (13 bp):
AATGAAAATTAGA
Found at i:1574291 original size:18 final size:18
Alignment explanation
Indices: 1574250--1574295 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
1574240 ACATTTGACT
* *
1574250 TTATTTATAATTTTTATA
1 TTATTTATAATTTTAAAA
1574268 TCTATTTATAATTTTAAAA
1 T-TATTTATAATTTTAAAA
1574287 TTATTTATA
1 TTATTTATA
1574296 TGACGTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTTATAATTTTAAAA
Found at i:1576118 original size:14 final size:14
Alignment explanation
Indices: 1576086--1576151 Score: 78
Period size: 14 Copynumber: 4.6 Consensus size: 14
1576076 GACCCAGTCG
*
1576086 CCGAGTCAACTCGAT
1 CCGAGTCAAC-CCAT
*
1576101 CTGAGTCAACCCAT
1 CCGAGTCAACCCAT
* *
1576115 CTGAGTCAACTCAT
1 CCGAGTCAACCCAT
*
1576129 CCGAGTCAACTCAT
1 CCGAGTCAACCCAT
1576143 CCGAGTCAA
1 CCGAGTCAA
1576152 TCTGTTGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
14 38 0.81
15 9 0.19
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (14 bp):
CCGAGTCAACCCAT
Found at i:1576143 original size:28 final size:29
Alignment explanation
Indices: 1576086--1576151 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
1576076 GACCCAGTCG
*
1576086 CCGAGTCAACTCGATCTGAGTCAACCCAT
1 CCGAGTCAACTCGATCCGAGTCAACCCAT
* *
1576115 CTGAGTCAACTC-ATCCGAGTCAACTCAT
1 CCGAGTCAACTCGATCCGAGTCAACCCAT
1576143 CCGAGTCAA
1 CCGAGTCAA
1576152 TCTGTTGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
CCGAGTCAACTCGATCCGAGTCAACCCAT
Found at i:1579724 original size:15 final size:15
Alignment explanation
Indices: 1579674--1579724 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
1579664 TCTTTTAGGT
1579674 GTTTAAGTTAATTGG
1 GTTTAAGTTAATTGG
*
1579689 GTCTTTAATATTTAA-TGG
1 G--TTT-A-AGTTAATTGG
1579707 GTTTAAGTTAATTGG
1 GTTTAAGTTAATTGG
1579722 GTT
1 GTT
1579725 AAACAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.17
15 8 0.28
16 3 0.10
17 3 0.10
18 5 0.17
19 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (15 bp):
GTTTAAGTTAATTGG
Found at i:1580339 original size:13 final size:13
Alignment explanation
Indices: 1580318--1580347 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1580308 TAAATTTTAT
1580318 TTTTCAAAAAATA
1 TTTTCAAAAAATA
*
1580331 TTTTGAAAAAATA
1 TTTTCAAAAAATA
1580344 TTTT
1 TTTT
1580348 ACAATGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTTCAAAAAATA
Found at i:1580457 original size:19 final size:20
Alignment explanation
Indices: 1580417--1580455 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1580407 ATTTATTATA
*
1580417 TAAACATAATAAATAATATT
1 TAAACATAATAAACAATATT
1580437 TAAA-ATAA-AAACAATATT
1 TAAACATAATAAACAATATT
1580455 T
1 T
1580456 TATTTCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAACATAATAAACAATATT
Found at i:1580720 original size:21 final size:21
Alignment explanation
Indices: 1580688--1580776 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
1580678 AATATGTAAA
1580688 TCGC-ATTGCGATTTTCCAAAT
1 TCGCAATT-CGATTTTCCAAAT
1580709 TCGCAATTCGATTTTCCAAAT
1 TCGCAATTCGATTTTCCAAAT
**
1580730 TCGCAACGCGA-TTTCCAAAT
1 TCGCAATTCGATTTTCCAAAT
* *
1580750 TCGCAATACTGAATTT-CAAAT
1 TCGCAATTC-GATTTTCCAAAT
1580771 TCGCAA
1 TCGCAA
1580777 CGCGAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
20 16 0.26
21 39 0.64
22 6 0.10
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (21 bp):
TCGCAATTCGATTTTCCAAAT
Found at i:1580745 original size:41 final size:42
Alignment explanation
Indices: 1580695--1580786 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 42
1580685 AAATCGCATT
* *
1580695 GCGATTTTCCAAATTCGCAATTC-GATTTTCCAAATTCGCAAC
1 GCGATTTTCCAAATTCGCAATACTGAATTT-CAAATTCGCAAC
1580737 GCGA-TTTCCAAATTCGCAATACTGAATTTCAAATTCGCAAC
1 GCGATTTTCCAAATTCGCAATACTGAATTTCAAATTCGCAAC
1580778 GCGAATTTT
1 GCG-ATTTT
1580787 GTTTTCGCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
41 32 0.71
42 10 0.22
43 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (42 bp):
GCGATTTTCCAAATTCGCAATACTGAATTTCAAATTCGCAAC
Found at i:1580754 original size:62 final size:62
Alignment explanation
Indices: 1580641--1580777 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 62
1580631 CAACGCGAAC
* ** * * *
1580641 TCCAATTTCGCAACTCAGTTTTCAAATTCGCAACGCGAATATGTAAATCGCATTGC-GATTT
1 TCCAAATTCGCAACTCAGTTTTCAAATTCGCAACGCGAATATCCAAATCGCAATACTGAATT
* *
1580702 TCCAAATTCGCAATTC-GATTTTCCAAATTCGCAACGCG-ATTTCCAAATTCGCAATACTGAATT
1 TCCAAATTCGCAACTCAG-TTTT-CAAATTCGCAACGCGAATATCCAAA-TCGCAATACTGAATT
1580765 T-CAAATTCGCAAC
1 TCCAAATTCGCAAC
1580778 GCGAATTTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 1 0.02
61 24 0.38
62 33 0.52
63 5 0.08
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (62 bp):
TCCAAATTCGCAACTCAGTTTTCAAATTCGCAACGCGAATATCCAAATCGCAATACTGAATT
Found at i:1580785 original size:20 final size:20
Alignment explanation
Indices: 1580623--1580837 Score: 132
Period size: 20 Copynumber: 10.6 Consensus size: 20
1580613 AAATGACCAA
* *
1580623 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGAATTT
* * *
1580643 CAATTTCGCAACTC-AGTTTT
1 CAAATTCGCAACGCGA-ATTT
1580663 CAAATTCGCAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
** *
1580685 -AAA-TCGCATTGCGATTTT
1 CAAATTCGCAACGCGAATTT
** *
1580703 CCAAATTCGCAATTCGATTTT
1 -CAAATTCGCAACGCGAATTT
1580724 CCAAATTCGCAACGCG-ATTT
1 -CAAATTCGCAACGCGAATTT
**
1580744 CCAAATTCGCAATACTGAATTT
1 -CAAATTCGCAACGC-GAATTT
1580766 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
**** * *
1580786 TGTTTTCGCAACTCGATTTT
1 CAAATTCGCAACGCGAATTT
* *
1580806 CGAATTCGCAACACGAATTT
1 CAAATTCGCAACGCGAATTT
* *
1580826 TAATTTCGCAAC
1 CAAATTCGCAAC
1580838 AGGTTTTAGT
Statistics
Matches: 152, Mismatches: 34, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 99 0.65
21 45 0.30
22 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:1580838 original size:20 final size:20
Alignment explanation
Indices: 1580749--1580857 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
1580739 GATTTCCAAA
* * *
1580749 TTCGCAATACTGAATTTCAAA
1 TTCGCAACAC-GAATTTTAAT
* **
1580770 TTCGCAACGCGAATTTTGTT
1 TTCGCAACACGAATTTTAAT
*
1580790 TTCGCAACTCG-ATTTTCGAA-
1 TTCGCAACACGAATTTT--AAT
1580810 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTAAT
* *
1580830 TTCGCAACA-G-GTTTTAGT
1 TTCGCAACACGAATTTTAAT
1580848 TTCGCAACAC
1 TTCGCAACAC
1580858 AAATGTTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
18 15 0.21
19 8 0.11
20 35 0.49
21 13 0.18
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (20 bp):
TTCGCAACACGAATTTTAAT
Found at i:1581015 original size:16 final size:16
Alignment explanation
Indices: 1580994--1581033 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1580984 TCCCCATCTC
*
1580994 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
1581010 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
1581026 TAATTTTT
1 TAATTTTT
1581034 CAATGATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:1583170 original size:15 final size:15
Alignment explanation
Indices: 1583150--1583180 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1583140 CGTTTGCATT
1583150 TAAAAATCACCTAAG
1 TAAAAATCACCTAAG
1583165 TAAAAATCACCTAAG
1 TAAAAATCACCTAAG
1583180 T
1 T
1583181 TAATAAGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (15 bp):
TAAAAATCACCTAAG
Found at i:1583344 original size:20 final size:20
Alignment explanation
Indices: 1583321--1583377 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1583311 AAATCGCAAC
*
1583321 GCGAATTTAACTTTCGCGTT
1 GCGAATTTAACTTTCACGTT
*
1583341 GCGAATTTCACTTTCACGTT
1 GCGAATTTAACTTTCACGTT
*
1583361 GCGAATTTGACTTTCAC
1 GCGAATTTAACTTTCAC
1583378 AACCATTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
GCGAATTTAACTTTCACGTT
Found at i:1583434 original size:29 final size:29
Alignment explanation
Indices: 1583361--1583435 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
1583351 CTTTCACGTT
* **
1583361 GCGAATTTGACTTTCACAACCATTGCAAC
1 GCGAATTTGACTTTCGCAACCAACGCAAC
1583390 GCGAATTTGACTTTCGCAACCAACGCAAC
1 GCGAATTTGACTTTCGCAACCAACGCAAC
1583419 GCGAATTTGACTTTCGC
1 GCGAATTTGACTTTCGC
1583436 GTTGCGAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
GCGAATTTGACTTTCGCAACCAACGCAAC
Found at i:1583604 original size:64 final size:64
Alignment explanation
Indices: 1583502--1583652 Score: 207
Period size: 64 Copynumber: 2.4 Consensus size: 64
1583492 AATTTAAAAC
* *
1583502 AACAAATTAACTTTTACAAATTAATTAAACAAGAAAAAAATAAGAATTATTTACAT-ATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTT-CATCATCAATTA
* * *** *
1583566 AACAAATCAACTTTTACAAATCAATTAAAGAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTCATCATCAATTA
1583630 AACAAATCAAC-TTTACAAATCAA
1 AACAAATCAACTTTTACAAATCAA
1583653 CTTTTACAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
63 14 0.18
64 64 0.82
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAAGAATTATTTCATCATCAATTA
Found at i:1583647 original size:13 final size:14
Alignment explanation
Indices: 1583631--1583663 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1583621 CATCAATTAA
1583631 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
1583644 ACAAATCAACTTTT
1 ACAAATCAACTTTT
1583658 ACAAAT
1 ACAAAT
1583664 ACATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1585025 original size:21 final size:20
Alignment explanation
Indices: 1584996--1585134 Score: 125
Period size: 21 Copynumber: 6.7 Consensus size: 20
1584986 ATGAATCGGG
* *
1584996 CTCTCGAACGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGG-C
**
1585017 CTCTTGAACGATGACAAGGGC
1 CTCTTGAACGATG-GGAGGGC
*
1585038 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGATGGGAG-GGC
* **
1585059 CTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGATGGGA-GGGC
**
1585080 CTCTTGAACGATGATAGGGGC
1 CTCTTGAACGATGGGA-GGGC
*
1585101 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGGGAG-GGC
1585122 CTCTTGAACGATG
1 CTCTTGAACGATG
1585135 ACAGGTGAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
20 3 0.03
21 90 0.92
22 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:1585062 original size:42 final size:41
Alignment explanation
Indices: 1584996--1585131 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 41
1584986 ATGAATCGGG
*
1584996 CTCTCGAACGGTGGGAGGGACCTCTTGAACGATGACAAGGGC
1 CTCTTGAACGGTGGGAGGG-CCTCTTGAACGATGACAAGGGC
* * *
1585038 CTCTTGAACGGTGGGAGAGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAG-GGCCTCTTGAACGATGACAAGGGC
* ** **
1585080 CTCTTGAACGATGATAGGGGCCTCTTGAACGAT-AGGAGAGGC
1 CTCTTGAACGGTGGGA-GGGCCTCTTGAACGATGACAAG-GGC
1585122 CTCTTGAACG
1 CTCTTGAACG
1585132 ATGACAGGTG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 75 0.94
43 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAAGGGC
Found at i:1585118 original size:63 final size:63
Alignment explanation
Indices: 1585011--1585135 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 63
1585001 GAACGGTGGG
* * *
1585011 AGGGACCTCTTGAACGATGACAAGGGCCTCTTGAACGGTGGGAGAGGCCTCTTGAAGGATGAT
1 AGGGACCTCTTGAACGATGACAAGGGCCTCTTGAACGATAGGAGAGGCCTCTTGAACGATGAT
* * *
1585074 AGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATAGGAGAGGCCTCTTGAACGATGA
1 AGGGACCTCTTGAACGATGACAAGGGCCTCTTGAACGATAGGAGAGGCCTCTTGAACGATGA
1585136 CAGGTGAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (63 bp):
AGGGACCTCTTGAACGATGACAAGGGCCTCTTGAACGATAGGAGAGGCCTCTTGAACGATGAT
Found at i:1586093 original size:16 final size:16
Alignment explanation
Indices: 1586074--1586115 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1586064 CAAATATCCA
1586074 AATATACAAACAATAT
1 AATATACAAACAATAT
1586090 AATATACAAACAATAT
1 AATATACAAACAATAT
*
1586106 AATACACAAA
1 AATATACAAA
1586116 TATCTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (16 bp):
AATATACAAACAATAT
Found at i:1587292 original size:20 final size:20
Alignment explanation
Indices: 1587269--1587353 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
1587259 TCGCACGCGA
1587269 ATTTGAAAAATCTCAATGCG
1 ATTTGAAAAATCTCAATGCG
* * * **
1587289 ATTT-ACATATTTGCGTTGCG
1 ATTTGAAAAATCT-CAATGCG
* * *
1587309 AATTGGAAAATCACAATGCG
1 ATTTGAAAAATCTCAATGCG
* *
1587329 AATTTGGAAAATCGCAATGCG
1 -ATTTGAAAAATCTCAATGCG
1587350 ATTT
1 ATTT
1587354 ACATATTCAC
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
19 5 0.11
20 21 0.45
21 21 0.45
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
ATTTGAAAAATCTCAATGCG
Found at i:1587337 original size:21 final size:20
Alignment explanation
Indices: 1587305--1587350 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1587295 ATATTTGCGT
1587305 TGCGAATTGGAAAATCACAA
1 TGCGAATTGGAAAATCACAA
*
1587325 TGCGAATTTGGAAAATCGCAA
1 TGCGAA-TTGGAAAATCACAA
1587346 TGCGA
1 TGCGA
1587351 TTTACATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (20 bp):
TGCGAATTGGAAAATCACAA
Found at i:1587460 original size:20 final size:20
Alignment explanation
Indices: 1587419--1587460 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1587409 GAATTCGAGA
* * *
1587419 TCGTGTTGCGATTTTCATTT
1 TCGTGTTGCGAATTTAAGTT
1587439 TCGTGTTGCGAATTTAAGTT
1 TCGTGTTGCGAATTTAAGTT
1587459 TC
1 TC
1587461 AAATAGTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (20 bp):
TCGTGTTGCGAATTTAAGTT
Found at i:1597338 original size:35 final size:35
Alignment explanation
Indices: 1597293--1597398 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 35
1597283 TATAAATGAT
*
1597293 AATATCTTTTAATTTAAAATATTTAAAAATATATT
1 AATATCTTTTAATTTAAAATATTTAAAAATATATA
* * *
1597328 GATATTTTTTAATAGTT--AA-ATTTAAAAAGATAATA
1 AATATCTTTTAAT--TTAAAATATTTAAAAATAT-ATA
* *
1597363 AATATCTTTTAATTTAAAAT-TTTCAAAAGATATA
1 AATATCTTTTAATTTAAAATATTTAAAAATATATA
1597397 AA
1 AA
1597399 ACTCATTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
33 2 0.03
34 16 0.28
35 38 0.66
37 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (35 bp):
AATATCTTTTAATTTAAAATATTTAAAAATATATA
Found at i:1597423 original size:70 final size:70
Alignment explanation
Indices: 1597293--1597423 Score: 151
Period size: 70 Copynumber: 1.9 Consensus size: 70
1597283 TATAAATGAT
* * * * *
1597293 AATATCTTTTAATTTAAAATATTTAAAAATATATTGATATTTTTTAATAGTTAAATTTAAAAAGA
1 AATATCTTTTAATTTAAAATATTTAAAAAGATATTAAAATATTTTAATAGTTAAACTTAAAAAGA
1597358 TAATA
66 TAATA
* *
1597363 AATATCTTTTAATTTAAAAT-TTTCAAAAGATA-TAAAACTCATTTTACTA-TTCAAACTTAAA
1 AATATCTTTTAATTTAAAATATTTAAAAAGATATTAAAA-T-ATTTTAATAGTT-AAACTTAAA
1597424 TATATATTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
68 3 0.06
69 13 0.25
70 35 0.69
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (70 bp):
AATATCTTTTAATTTAAAATATTTAAAAAGATATTAAAATATTTTAATAGTTAAACTTAAAAAGA
TAATA
Found at i:1598092 original size:13 final size:13
Alignment explanation
Indices: 1598074--1598100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1598064 GCCCCGATCC
1598074 AAAAAAATCTCCG
1 AAAAAAATCTCCG
1598087 AAAAAAATCTCCG
1 AAAAAAATCTCCG
1598100 A
1 A
1598101 TACCCAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAAAATCTCCG
Found at i:1598180 original size:20 final size:20
Alignment explanation
Indices: 1598152--1598189 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1598142 ACCCGAATTA
*
1598152 GACCGAATTTCAAATTTTCC
1 GACCAAATTTCAAATTTTCC
*
1598172 GACCAAATTTCAAGTTTT
1 GACCAAATTTCAAATTTT
1598190 TTCGTCGGAT
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:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCAAATTTCAAATTTTCC
Found at i:1598439 original size:2 final size:2
Alignment explanation
Indices: 1598432--1598462 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1598422 GATTTTCATT
1598432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1598463 GAGAAAATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1598690 original size:21 final size:21
Alignment explanation
Indices: 1598629--1598682 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1598619 TTCTTGAAAA
*
1598629 TCGCAATGCGATAGTACAAAT
1 TCGCATTGCGATAGTACAAAT
1598650 TCGCATTGCGATAGTACAAAT
1 TCGCATTGCGATAGTACAAAT
1598671 TCGCATTGCGAT
1 TCGCATTGCGAT
1598683 TTTCCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTACAAAT
Found at i:1598695 original size:21 final size:21
Alignment explanation
Indices: 1598603--1598702 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
1598593 AATCAGTTTC
*
1598603 CAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAATGCGATT-TTA
* **
1598624 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAATGCGATTTTA
* * **
1598645 CAAATTCGCATTGCGATAGTA
1 CAAAATCGCAATGCGATTTTA
* * *
1598666 CAAATTCGCATTGCGATTTTC
1 CAAAATCGCAATGCGATTTTA
*
1598687 CAAAATCGCAACGCGA
1 CAAAATCGCAATGCGA
1598703 ATATGAAAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 1 0.02
21 64 0.98
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (21 bp):
CAAAATCGCAATGCGATTTTA
Found at i:1598751 original size:20 final size:20
Alignment explanation
Indices: 1598689--1598918 Score: 232
Period size: 20 Copynumber: 11.5 Consensus size: 20
1598679 CGATTTTCCA
* ** *
1598689 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1598709 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1598729 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1598749 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1598769 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1598789 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1598809 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1598829 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1598849 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1598869 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1598889 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1598909 AAATCACAAC
1 AAATCGCAAC
1598919 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1602128 original size:33 final size:33
Alignment explanation
Indices: 1602077--1602309 Score: 255
Period size: 33 Copynumber: 6.9 Consensus size: 33
1602067 CGGAAATTAC
*
1602077 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
1602110 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
1602144 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
1602177 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
1602210 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
1602243 AATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
1602280 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAAAATCGCAATGCGAAAT
1602310 TATAAAAGCA
Statistics
Matches: 179, Mismatches: 8, Indels: 26
0.84 0.04 0.12
Matches are distributed among these distances:
32 15 0.08
33 103 0.58
34 30 0.17
35 7 0.04
36 3 0.02
37 11 0.06
38 10 0.06
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:1602163 original size:14 final size:14
Alignment explanation
Indices: 1602144--1602198 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1602134 CGGAAATGAA
1602144 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1602158 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1602177 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1602191 AATCGCAA
1 AATCGCAA
1602199 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1602166 original size:67 final size:66
Alignment explanation
Indices: 1602077--1602309 Score: 285
Period size: 67 Copynumber: 3.5 Consensus size: 66
1602067 CGGAAATTAC
1602077 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGC-GAAATG
1602142 AA
65 AA
* *
1602144 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGAAATG
1602208 AA
65 AA
* * * * * *
1602210 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC
1 AATCGCAA--CG--A-GAGAATCGCAATGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATGC
1602273 G-AATGAA
59 GAAATGAA
1602280 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
1602310 TATAAAAGCA
Statistics
Matches: 144, Mismatches: 13, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
64 3 0.02
65 13 0.09
66 17 0.12
67 54 0.38
68 5 0.03
70 16 0.11
71 27 0.19
72 8 0.06
73 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (66 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGAAATGA
A
Found at i:1602182 original size:19 final size:19
Alignment explanation
Indices: 1602091--1602287 Score: 202
Period size: 19 Copynumber: 11.4 Consensus size: 19
1602081 GCAACGAGAG
1602091 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1602110 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1602124 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1602144 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1602158 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1602177 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1602191 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1602210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1602229 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1602243 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1602262 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
1602280 AATCGCAA
1 AATCGCAA
1602288 CGAGAGAATC
Statistics
Matches: 149, Mismatches: 8, Indels: 43
0.75 0.04 0.22
Matches are distributed among these distances:
14 42 0.28
15 3 0.02
16 7 0.05
17 6 0.04
18 18 0.12
19 60 0.40
20 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1602222 original size:52 final size:51
Alignment explanation
Indices: 1602077--1602309 Score: 311
Period size: 52 Copynumber: 4.6 Consensus size: 51
1602067 CGGAAATTAC
*
1602077 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAA
* * *
1602124 AATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCG-AATGAA
1602177 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAA
1602229 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAA
1602280 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAACGAGAGAATCGCAATGCGAAAT
1602310 TATAAAAGCA
Statistics
Matches: 165, Mismatches: 7, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
46 7 0.04
47 15 0.09
48 9 0.05
49 2 0.01
50 1 0.01
51 38 0.23
52 66 0.40
53 20 0.12
54 7 0.04
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (51 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAA
Found at i:1602374 original size:52 final size:52
Alignment explanation
Indices: 1602317--1602430 Score: 219
Period size: 52 Copynumber: 2.2 Consensus size: 52
1602307 AATTATAAAA
1602317 GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTC
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTC
*
1602369 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTC
1602421 GCATTGCGAT
1 GCATTGCGAT
1602431 AGTCATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
GCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTCATTTC
Found at i:1602438 original size:19 final size:19
Alignment explanation
Indices: 1602334--1602430 Score: 141
Period size: 19 Copynumber: 5.4 Consensus size: 19
1602324 GATTCTCTCG
*
1602334 TTGCGATTTTCATTCCGCA
1 TTGCGATTTTCATTTCGCA
1602353 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1602372 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1602386 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1602405 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1602424 TTGCGAT
1 TTGCGAT
1602431 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 50 0.71
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1604529 original size:14 final size:14
Alignment explanation
Indices: 1604510--1604566 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1604500 GCGAAATGAA
*
1604510 AATCGCAACGACAG
1 AATCGCAACGAAAG
1604524 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1604541 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1604557 AATCGCAACG
1 AATCGCAACG
1604567 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1604542 original size:33 final size:33
Alignment explanation
Indices: 1604491--1604583 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1604481 GCGAAACCAA
* *
1604491 AATCACAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1604524 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1604557 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1604584 TGCGATTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1604548 original size:19 final size:19
Alignment explanation
Indices: 1604454--1604588 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1604444 TAGTTTACTT
* *
1604454 TCGCAACCCGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1604474 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
1604493 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1604512 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1604526 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1604545 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1604559 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1604578 TCGCAATGCGA
1 TCGCAACGCGA
1604589 TTTGGTTTCG
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 45 0.47
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1604605 original size:18 final size:17
Alignment explanation
Indices: 1604584--1604673 Score: 70
Period size: 18 Copynumber: 5.5 Consensus size: 17
1604574 AAAATCGCAA
1604584 TGCGATTTGGTTTCGCGT
1 TGCGATTTGG-TTCGCGT
1604602 TGCGATCTT-G-T--CGT
1 TGCGAT-TTGGTTCGCGT
1604616 TGCGATTTTGGTTCGCGT
1 TGCGA-TTTGGTTCGCGT
1604634 TGCGATTCT-G-T--CGT
1 TGCGATT-TGGTTCGCGT
*
1604648 TGCAATTTGGTTTCGCGT
1 TGCGATTTGG-TTCGCGT
1604666 TGCGATTT
1 TGCGATTT
1604674 TAAGTTTGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 1 0.02
14 20 0.34
15 2 0.03
16 4 0.07
17 3 0.05
18 26 0.45
19 2 0.03
ACGTcount: A:0.08, C:0.18, G:0.30, T:0.44
Consensus pattern (17 bp):
TGCGATTTGGTTCGCGT
Found at i:1604631 original size:32 final size:32
Alignment explanation
Indices: 1604584--1604672 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 32
1604574 AAAATCGCAA
1604584 TGCGATTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTGGTTTCGCGTTGCGATTC-TGTCGT
1604616 TGCGATTTTGG-TTCGCGTTGCGATTCTGTCGT
1 TGCGA-TTTGGTTTCGCGTTGCGATTCTGTCGT
*
1604648 TGCAATTTGGTTTCGCGTTGCGATT
1 TGCGATTTGGTTTCGCGTTGCGATT
1604673 TTAAGTTTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
31 5 0.09
32 41 0.77
33 7 0.13
ACGTcount: A:0.08, C:0.18, G:0.30, T:0.44
Consensus pattern (32 bp):
TGCGATTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1604976 original size:92 final size:93
Alignment explanation
Indices: 1604737--1605199 Score: 852
Period size: 91 Copynumber: 5.1 Consensus size: 93
1604727 ATGGATTGCA
1604737 TTAC-TTCAACCAAAAGACAAAACAAAGAC-AA-ACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1604799 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1604827 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGT-TTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1604891 TAGCA-AATTGGCAGCAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1604917 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TTAAAGAATACACAGT
1604982 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
1605011 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1605075 TAGCAGAATTGGCAGC-ACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1605102 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1605167 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1605195 TTACT
1 TTACT
1605200 AAGCAATCTA
Statistics
Matches: 363, Mismatches: 1, Indels: 15
0.96 0.00 0.04
Matches are distributed among these distances:
90 51 0.14
91 107 0.29
92 106 0.29
93 51 0.14
94 48 0.13
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1605047 original size:184 final size:183
Alignment explanation
Indices: 1604736--1605199 Score: 848
Period size: 184 Copynumber: 2.5 Consensus size: 183
1604726 AATGGATTGC
1604736 ATTAC-TTCAACCAAAAGACAAAACAAAGAC-AA-ACTATTTCACAGTGTTAAAGAATACACAGT
1 ATTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGT
1604798 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
66 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
1604863 TATTTCACAGT-TTAAAGAATACACAGTTTAGCA-AATTGGCAGCAACCGAACAA
131 TATTTCACAGTGTT-AAGAATACACAGTTTAGCAGAATTGGCAGC-ACCGAACAA
1604916 ATTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTTAAAGAATACACAG
1 ATTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG-TTAAAGAATACACAG
1604981 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
65 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
1605046 CTATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCACCGAACAA
130 CTATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCACCGAACAA
1605100 ATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG
1 A-TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG
*
1605165 TTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
65 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1605200 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 1, Indels: 10
0.96 0.00 0.03
Matches are distributed among these distances:
180 5 0.02
181 25 0.09
182 2 0.01
183 14 0.05
184 170 0.62
185 60 0.22
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (183 bp):
ATTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
TATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCACCGAACAA
Found at i:1606040 original size:217 final size:212
Alignment explanation
Indices: 1605664--1606092 Score: 740
Period size: 217 Copynumber: 2.0 Consensus size: 212
1605654 TCATCCGTGC
1605664 CATCAAAAAACTCTGACTAGCTTGCCACCAATCAGTGGGCAAGCTCCTCGTGGGTGTCACTTTTG
1 CATCAAAAAACTCTGACTAGCTTGCCACCAATCAGTGGGCAAGCTCCTCGTGGGTGTCACTTTTG
1605729 TAATGGAATGTTGGGCCTCCTAAAATATAAAAACTCAAACAAAGTTAAACGTCTACTATTAATAA
66 TAATGGAATGTTGGGCCTCCTAAAATATAAAAACTCAAACAAAGTTAAACGTCTACTATTAATAA
1605794 CTGTTTATATTTATATGAAAGTATTTGTGTTAACTTACATTATTTATTGTCGCATATGGTATTAA
131 CTGTTTATATTTATATGAAAGTATTTGTGTTAACTTACATTATTTATTGT-GCATATGGTATTAA
1605859 GTCTTCCCAATCCAACAG
195 GTCTTCCCAATCCAACAG
*
1605877 CATCAAAAAAACTCTGACTAGCTTGCCACCAATCAGT-GGCAAGCTCTTCCTCCGTGGGTGTCAG
1 CATC-AAAAAACTCTGACTAGCTTGCCACCAATCAGTGGGCAAG--C-TCCT-CGTGGGTGTCAC
1605941 TCTTTGTAATGGAATGTT-GGCCTCCT-AAATATAAAAACTCAAACAAAGTTAAAACGTCTACTA
61 T-TTTGTAATGGAATGTTGGGCCTCCTAAAATATAAAAACTCAAACAAAGTT-AAACGTCTACTA
1606004 TTAATAACTTGTTTATA-TTATATGAAAGTATTTGTGTTAACTTACATTATTTATTGTGCATATG
124 TTAATAAC-TGTTTATATTTATATGAAAGTATTTGTGTTAACTTACATTATTTATTGTGCATATG
1606068 GTATTAAGTCTTCCCAATCCAACAG
188 GTATTAAGTCTTCCCAATCCAACAG
1606093 AGTTTTCCTC
Statistics
Matches: 207, Mismatches: 1, Indels: 13
0.94 0.00 0.06
Matches are distributed among these distances:
213 10 0.05
214 32 0.15
215 1 0.00
216 60 0.29
217 80 0.39
218 24 0.12
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (212 bp):
CATCAAAAAACTCTGACTAGCTTGCCACCAATCAGTGGGCAAGCTCCTCGTGGGTGTCACTTTTG
TAATGGAATGTTGGGCCTCCTAAAATATAAAAACTCAAACAAAGTTAAACGTCTACTATTAATAA
CTGTTTATATTTATATGAAAGTATTTGTGTTAACTTACATTATTTATTGTGCATATGGTATTAAG
TCTTCCCAATCCAACAG
Found at i:1607112 original size:14 final size:14
Alignment explanation
Indices: 1607093--1607182 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1607083 TTGAAATGAA
1607093 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1607107 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
1607126 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1607140 AATCGCAACGCGAAACGAA
1 AATCGCAA--CG--A-GAG
1607159 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1607173 AATCGCAACG
1 AATCGCAACG
1607183 CGAAACGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.08
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1607124 original size:33 final size:33
Alignment explanation
Indices: 1607085--1607199 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1607075 TCTTTTGGTT
*
1607085 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAGAATCGCAACGC
* *
1607118 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAGAATCGCAACGC
1607151 GAAACGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAGAATCGCAACGC
1607184 GAAACGAAAATCGCAA
1 GAAACGAAAATCGCAA
1607200 TGCGATTTGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (33 bp):
GAAACGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1607131 original size:19 final size:18
Alignment explanation
Indices: 1607107--1607204 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 18
1607097 GCAACGAGAG
*
1607107 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAA-GAA
*
1607126 AATCGCAA--CG--AGAG
1 AATCGCAACGCGAAAGAA
1607140 AATCGCAACGCGAAACGAA
1 AATCGCAACGCGAAA-GAA
*
1607159 AATCGCAA--CG--AGAG
1 AATCGCAACGCGAAAGAA
1607173 AATCGCAACGCGAAACGAA
1 AATCGCAACGCGAAA-GAA
*
1607192 AATCGCAATGCGA
1 AATCGCAACGCGA
1607205 TTTGGTTTCG
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:1607234 original size:14 final size:14
Alignment explanation
Indices: 1607215--1607271 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1607205 TTTGGTTTCG
1607215 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1607229 CGTTGCGATTTTCGTTTCG
1 CGTTGCGA--TTC---TCT
1607248 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1607262 CGTTGCGATT
1 CGTTGCGATT
1607272 TCATTTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.07, C:0.25, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1607249 original size:33 final size:33
Alignment explanation
Indices: 1607200--1607272 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
1607190 AAAATCGCAA
*
1607200 TGCGA-TTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCGTTTCGCGTTGCGATTCTCTCGT
1607232 TGCGATTTTCGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCGTTTCGCGTTGCGATTCTCTCGT
1607265 TGCGATTT
1 TGCGATTT
1607273 CATTTCTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 5 0.13
33 34 0.87
ACGTcount: A:0.07, C:0.22, G:0.26, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCGTTTCGCGTTGCGATTCTCTCGT
Found at i:1607281 original size:20 final size:21
Alignment explanation
Indices: 1607256--1607330 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 21
1607246 CGCGTTGCGA
1607256 TTCTCTCGTTGCGA-TTTCAT
1 TTCTCTCGTTGCGACTTTCAT
**
1607276 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGACTTTCAT
*
1607296 -T-TCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGACTTTCAT
*
1607315 TTATCTCGTTGCGACT
1 TTCTCTCGTTGCGACT
1607331 CTTCTGCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 14 0.31
19 1 0.02
20 15 0.33
21 15 0.33
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGACTTTCAT
Found at i:1607440 original size:33 final size:33
Alignment explanation
Indices: 1607398--1607464 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1607388 TACTAACTTG
*
1607398 AATCGCAACGAGAGAATAGCAACGCGAAATGAA
1 AATCGCAACGACAGAATAGCAACGCGAAATGAA
* *
1607431 AATCGCAACGACAGAATCGTAACGCGAAATGAA
1 AATCGCAACGACAGAATAGCAACGCGAAATGAA
1607464 A
1 A
1607465 TCTAAGTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.10
Consensus pattern (33 bp):
AATCGCAACGACAGAATAGCAACGCGAAATGAA
Found at i:1607696 original size:22 final size:22
Alignment explanation
Indices: 1607644--1607698 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1607634 ATGGTTGGAG
**
1607644 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1607666 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1607688 GGATTTCTTCG
1 GGATTTCTTCG
1607699 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1607907 original size:20 final size:20
Alignment explanation
Indices: 1607842--1607993 Score: 193
Period size: 20 Copynumber: 7.7 Consensus size: 20
1607832 CTTTAAATAT
1607842 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
***
1607862 CG-GTTGCGA-TTATTTATTA
1 CGCGTTGCGATTTACGGA-TA
*
1607881 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1607900 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1607920 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1607940 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1607960 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1607980 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
1607994 TGTTTTGCGG
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
18 4 0.04
19 18 0.16
20 88 0.80
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1608026 original size:60 final size:59
Alignment explanation
Indices: 1607842--1608032 Score: 217
Period size: 60 Copynumber: 3.2 Consensus size: 59
1607832 CTTTAAATAT
1607842 CGCGTTGCGATTTACGGATACG-GTTGCGA-TTATTTATTATC-GTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATTT-TTA-CGGTTGCGATTTACGGATA
* * ****
1607900 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATTTTTACG-GTTGCGATTTACGGATA
* * * ** *
1607960 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTTTTGCGGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTAT-TTTTACGGTTGCGATTTACGGATA
1608020 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1608033 TGGAAAATCG
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
58 22 0.20
59 8 0.07
60 76 0.70
61 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (59 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATTTTTACGGTTGCGATTTACGGATA
Found at i:1608049 original size:21 final size:21
Alignment explanation
Indices: 1608019--1608102 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
1608009 ATTTTCATAT
*
1608019 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1608040 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1608061 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1608082 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
1608103 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.94
22 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1609614 original size:17 final size:18
Alignment explanation
Indices: 1609592--1609625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1609582 ATCCATTCAT
1609592 ATATTG-TTTATTTTTTA
1 ATATTGTTTTATTTTTTA
1609609 ATATTGTTTTATTTTTT
1 ATATTGTTTTATTTTTT
1609626 TTAATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
ATATTGTTTTATTTTTTA
Found at i:1609633 original size:17 final size:18
Alignment explanation
Indices: 1609598--1609635 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1609588 TCATATATTG
*
1609598 TTTATTTTTTAATATTGT
1 TTTATTTTTTAATAATGT
*
1609616 TTTATTTTTT-TTAATGT
1 TTTATTTTTTAATAATGT
1609633 TTT
1 TTT
1609636 TTTCCATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTATTTTTTAATAATGT
Found at i:1610736 original size:6 final size:6
Alignment explanation
Indices: 1610725--1610751 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1610715 GGCTTTCAAA
1610725 CTCCCT CTCCCT CTCCCT CTCCCT CTC
1 CTCCCT CTCCCT CTCCCT CTCCCT CTC
1610752 TTGAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCCCT
Found at i:1612697 original size:18 final size:20
Alignment explanation
Indices: 1612672--1612720 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1612662 AAAAATCATG
1612672 AATATTATATT-T-TTAAAA
1 AATATTATATTCTATTAAAA
* *
1612690 ATTATTATTTTCTATTAAAA
1 AATATTATATTCTATTAAAA
*
1612710 AATATTTTATT
1 AATATTATATT
1612721 ATTCTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 9 0.38
19 1 0.04
20 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTATATTCTATTAAAA
Found at i:1612725 original size:23 final size:21
Alignment explanation
Indices: 1612686--1612728 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1612676 TTATATTTTT
1612686 AAAAATTATTATTTTCTATTA
1 AAAAATTATTATTTTCTATTA
*
1612707 AAAAATATTTTATTATTCTATT
1 AAAAAT-TATTATT-TTCTATT
1612729 TACAGCATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAAATTATTATTTTCTATTA
Found at i:1613573 original size:2 final size:2
Alignment explanation
Indices: 1613566--1613607 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1613556 TTTGAAGTAA
1613566 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
1613608 TAACTAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1625995 original size:17 final size:18
Alignment explanation
Indices: 1625959--1625995 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1625949 CTCCACACTT
1625959 TATTCATTCATAATAATA
1 TATTCATTCATAATAATA
1625977 TATTCA-TCAATAA-AATA
1 TATTCATTC-ATAATAATA
1625994 TA
1 TA
1625996 GACATTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTCATTCATAATAATA
Found at i:1633093 original size:11 final size:10
Alignment explanation
Indices: 1633070--1633114 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
1633060 GAAAAAAATG
*
1633070 AAAAAATAAA
1 AAAAAAGAAA
1633080 AAAAAAGAAGA
1 AAAAAAGAA-A
*
1633091 AAAAATGAAA
1 AAAAAAGAAA
1633101 AAAAGAAGAAA
1 AAAA-AAGAAA
1633112 AAA
1 AAA
1633115 TGAAAAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 13 0.43
11 17 0.57
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:1633101 original size:16 final size:15
Alignment explanation
Indices: 1633054--1633140 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 15
1633044 GCTTGAAGAA
*
1633054 GAAAAGGAAAAAAAT
1 GAAAAGAAAAAAAAT
*
1633069 GAAAA-AATAAAAA-
1 GAAAAGAAAAAAAAT
1633082 -AAAAGAAGAAAAAAT
1 GAAAAGAA-AAAAAAT
1633097 GAAAAAAAGAAGAAAAAAT
1 G---AAAAGAA-AAAAAAT
*
1633116 GAAAAGGAAAAAAAGT
1 GAAAA-GAAAAAAAAT
1633132 GAAAA-AAAA
1 GAAAAGAAAA
1633141 GTAAAGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
12 4 0.07
13 2 0.03
14 15 0.25
15 5 0.08
16 15 0.25
17 3 0.05
19 16 0.27
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (15 bp):
GAAAAGAAAAAAAAT
Found at i:1633112 original size:28 final size:27
Alignment explanation
Indices: 1633049--1633113 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
1633039 ATTTTGCTTG
*
1633049 AAGAAG-AAAAGGAAAAAAATGAAAAA
1 AAGAAGAAAAAGAAAAAAAATGAAAAA
*
1633075 ATA-AAAAAAAAGAAGAAAAAATGAAAAA
1 A-AGAAGAAAAAGAA-AAAAAATGAAAAA
1633103 AAGAAGAAAAA
1 AAGAAGAAAAA
1633114 ATGAAAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.09
27 8 0.25
28 21 0.66
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (27 bp):
AAGAAGAAAAAGAAAAAAAATGAAAAA
Found at i:1633137 original size:10 final size:9
Alignment explanation
Indices: 1633055--1633139 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
1633045 CTTGAAGAAG
1633055 AAAAGGAAA
1 AAAAGGAAA
*
1633064 AAAATGAAA
1 AAAAGGAAA
*
1633073 AAATA-AAAA
1 AAA-AGGAAA
*
1633082 AAAAGAAGAA
1 AAAAGGA-AA
*
1633092 AAAATGAAA
1 AAAAGGAAA
1633101 AAAA-GAAGA
1 AAAAGGAA-A
**
1633110 AAAA--ATG
1 AAAAGGAAA
1633117 AAAAGGAAA
1 AAAAGGAAA
1633126 AAAAGTGAAA
1 AAAAG-GAAA
1633136 AAAA
1 AAAA
1633140 AGTAAAGAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.07
8 5 0.08
9 36 0.59
10 16 0.26
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (9 bp):
AAAAGGAAA
Found at i:1633139 original size:19 final size:19
Alignment explanation
Indices: 1633048--1633120 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 19
1633038 TATTTTGCTT
*
1633048 GAAGAAGAAAAGGAAAAAAA
1 GAAGAA-AAAATGAAAAAAA
1633068 TGAA-AAAATAA--AAAAAAA
1 -GAAGAAAA-AATGAAAAAAA
1633086 GAAGAAAAAATGAAAAAAA
1 GAAGAAAAAATGAAAAAAA
1633105 GAAGAAAAAATGAAAA
1 GAAGAAAAAATGAAAA
1633121 GGAAAAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.10
18 11 0.23
19 25 0.52
20 4 0.08
21 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
GAAGAAAAAATGAAAAAAA
Found at i:1633139 original size:25 final size:25
Alignment explanation
Indices: 1633092--1633138 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1633082 AAAAGAAGAA
*
1633092 AAAATGAAAAAAAGAAGAAAAAATG
1 AAAAGGAAAAAAAGAAGAAAAAATG
*
1633117 AAAAGGAAAAAAAG-TGAAAAAA
1 AAAAGGAAAAAAAGAAGAAAAAA
1633139 AAGTAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (25 bp):
AAAAGGAAAAAAAGAAGAAAAAATG
Found at i:1635083 original size:14 final size:14
Alignment explanation
Indices: 1635064--1635090 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1635054 ACTTTTCTGT
1635064 TTTTCTTAGTTTAG
1 TTTTCTTAGTTTAG
1635078 TTTTCTTAGTTTA
1 TTTTCTTAGTTTA
1635091 CGCGCATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (14 bp):
TTTTCTTAGTTTAG
Found at i:1638676 original size:20 final size:19
Alignment explanation
Indices: 1638634--1638677 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1638624 AGTAATTTAA
*
1638634 GTATCGATACCAAGGGTGG
1 GTATCGATACCAAGGGTGC
*
1638653 GTATCGATACCCAAGGGTTC
1 GTATCGATA-CCAAGGGTGC
1638673 GTATC
1 GTATC
1638678 AATATCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (19 bp):
GTATCGATACCAAGGGTGC
Found at i:1655956 original size:21 final size:21
Alignment explanation
Indices: 1655915--1655956 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1655905 GTTAGATATT
* *
1655915 TTTTCTACTTTCAATCGTTTA
1 TTTTCTACTATCAATCATTTA
1655936 TTTTCTA-TATCAACTCATTTA
1 TTTTCTACTATCAA-TCATTTA
1655957 AACACATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.24, C:0.19, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTCTACTATCAATCATTTA
Found at i:1656767 original size:24 final size:26
Alignment explanation
Indices: 1656730--1656777 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
1656720 TGTTTCTACG
1656730 TTTTGTTCTACAAAATATT-TTTTGT
1 TTTTGTTCTACAAAATATTATTTTGT
* *
1656755 TTTTGTT-TTCAAATTATTATTTT
1 TTTTGTTCTACAAAATATTATTTT
1656778 TTTCAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTGTTCTACAAAATATTATTTTGT
Done.