Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_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: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 23
Found at i:4728867 original size:146 final size:146
Alignment explanation
Indices: 4728691--4729054 Score: 517
Period size: 146 Copynumber: 2.5 Consensus size: 146
4728681 GCTGATATCA
*
4728691 ATACTTTTATTCCATTATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
1 ATACTTTTATTCCAGTATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
* * *
4728756 AGTATCGATATTTTTAATTTCGATCAA-AATATATGCAAAGTATG-AAAATGTCCAAGTATTGAT
66 AGTATCGATAATTATAATTTCGA--AACAATATATGCAAAGTATGAAAAATGTCCAAGTATCGAT
*
4728819 ACTTCTTATGTCCGTATGG
129 A-TTCTTACGTCCGTATGG
*
4728838 ATAC-TTTATTCCAGTATGCTTGTCAAACAATTTGCATGCCAAATGTATCGATACACATTATTAA
1 ATACTTTTATTCCAGTATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
* *
4728902 AGTATCGATAATTATAATTTCGAAACAATGTATGCAAAGTATGAAAAATGTCCATGTATCGATAT
66 AGTATCGATAATTATAATTTCGAAACAATATATGCAAAGTATGAAAAATGTCCAAGTATCGATAT
*
4728967 TCTTACGTCGGTATGG
131 TCTTACGTCCGTATGG
* * * * *
4728983 -TACTTTTATTCCAGTATGATTCTCAAATAATTTGCACG-TAAA-ATATCGATACACA-TATATA
1 ATACTTTTATTCCAGTATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTAT-TA
4729044 AAGTATCGATA
65 AAGTATCGATA
4729055 CTTGGAATTT
Statistics
Matches: 198, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
142 3 0.02
143 25 0.13
144 8 0.04
145 61 0.31
146 97 0.49
147 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (146 bp):
ATACTTTTATTCCAGTATGCTTGTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAA
AGTATCGATAATTATAATTTCGAAACAATATATGCAAAGTATGAAAAATGTCCAAGTATCGATAT
TCTTACGTCCGTATGG
Found at i:4729602 original size:195 final size:195
Alignment explanation
Indices: 4728976--4729761 Score: 977
Period size: 195 Copynumber: 4.1 Consensus size: 195
4728966 TTCTTACGTC
* *
4728976 GGTATGG-TACTTTTATTCCAGTATGA-TTCTCAAATAATTTGCACG-TAAAATATCGATACACA
1 GGTATGGATAC-TTTATTCCAGTAT-ACTTCTCAAACAATTTGCACGCAAAAATATCGATACACA
*
4729038 TATATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAA
64 TATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATA-GTAAATTAACAA
* *
4729103 TGTAAACGGTAAAAGTCTAC-CGTATAATGAAAATAGTG--TAAATACCAAGTATCAATACTCTT
128 TGTAAACGGTAAAAGTCTACTGGTATAATGATAATAG-GCATAAATACCAAGTATCAATA--CTT
4729165 TATATA
190 TATATA
* **
4729171 GGTATGGA-AC-TTATATACAGTATGTTTCTCAAACAATTTGCACGC-AAAATAT---T-CA-AT
1 GGTATGGATACTTTAT-TCCAGTATACTTCTCAAACAATTTGCACGCAAAAATATCGATACACAT
* * * *
4729228 GTA-AAAGTATCGATACTTGAAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAATAGT
65 ATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAAT-AGTAAATTAACAAT
* * * *
4729292 GTAAATGGTAAAAGTCTATTGCTATAATGATAATAGGCGTAAATACCAAGTATCAATAC--TATA
129 GTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCATAAATACCAAGTATCAATACTTTATA
4729355 TA
194 TA
* * *
4729357 GGTATAGATACTTTATTCCGGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGATACACAT
1 GGTATGGATACTTTATTCCAGTATACTTCTCAAACAATTTGCACGCAAAA-ATATCGATACACAT
4729422 ATATAAAGTATCGATACTTGGAATTTC-AAACCTATTACTTTAAAGTAAT-GTAAATTAACAATG
65 ATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGTAAATTAACAATG
* **
4729485 TAAACAGTAAAAGTCTACTGGTATAATGATAATAGGCAT-AATACCAAGTATTGATACTTTTATA
130 TAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCATAAATACCAAGTATCAATAC-TTTATA
4729549 TA
194 TA
* * * * **
4729551 GGTATGGATATTTGTATTCCAGTATACTTCTCAAACAATTTGCATGCAAAATGTATCAATACATG
1 GGTATGGATACTT-TATTCCAGTATACTTCTCAAACAATTTGCACGCAAAA-ATATCGATACACA
**
4729616 TATATAAAGTATCGATACTTGGAATTTCGAAACAAATTACTTTAAAGTAATAGGTAAATTAACAA
64 TATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATA-GTAAATTAACAA
* * * *
4729681 TGTAAATGGTACAAAGTCTACTGATATATTGATAATAGGCATAAATACCAAGTATC--GACTTTA
128 TGTAAACGGTA-AAAGTCTACTGGTATAATGATAATAGGCATAAATACCAAGTATCAATACTTTA
4729744 TATA
192 TATA
*
4729748 GGTATCGATACTTT
1 GGTATGGATACTTT
4729762 CGATCTAAAC
Statistics
Matches: 517, Mismatches: 47, Indels: 53
0.84 0.08 0.09
Matches are distributed among these distances:
186 13 0.03
187 29 0.06
188 81 0.16
189 22 0.04
190 21 0.04
191 17 0.03
192 47 0.09
193 6 0.01
194 75 0.15
195 103 0.20
196 21 0.04
197 19 0.04
198 23 0.04
199 28 0.05
200 12 0.02
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (195 bp):
GGTATGGATACTTTATTCCAGTATACTTCTCAAACAATTTGCACGCAAAAATATCGATACACATA
TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAGTAATAGTAAATTAACAATGT
AAACGGTAAAAGTCTACTGGTATAATGATAATAGGCATAAATACCAAGTATCAATACTTTATATA
Found at i:4730282 original size:17 final size:17
Alignment explanation
Indices: 4730262--4730301 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4730252 ACCAAAACCT
4730262 TCTTCTAACCAAGGTCA
1 TCTTCTAACCAAGGTCA
*
4730279 TCTTCTAACCAAGGTCT
1 TCTTCTAACCAAGGTCA
4730296 TCTTCT
1 TCTTCT
4730302 CAAGTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (17 bp):
TCTTCTAACCAAGGTCA
Found at i:4733102 original size:198 final size:189
Alignment explanation
Indices: 4732708--4733155 Score: 523
Period size: 198 Copynumber: 2.3 Consensus size: 189
4732698 CATGCAAAAT
* ** *
4732708 GTATCGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAATA-G-TAAAAAATAATGTAAACG
1 GTATTGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACG
* *
4732771 GTAAAAAGTCTATCGATATAATGATAATAGGCGTAAATATAAGTATAATACTATTTTATAGGTAG
66 GTAAAAAGTCTATCGATATAATGATAATAGGCGTAAATACAAGTATAATACTATTATATAGGTAG
* * *
4732836 GGTATTTTTCATTATGCTTCAAACAATTTGCACGCAAAATATCGATACATATATATAAA
131 GATATTTTTCAGTATGCTTCAAACAATTTACACGCAAAATATCGATACATATATATAAA
* *
4732895 GTATTGATACTTGGAATTTCGAAACCTATTGCTTTAAAGTAATAGGTTAATTAACAATGTAAACG
1 GTATTGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACG
* * * * *
4732960 GT-AAAGGTTTA-CTGCTATATTGATAATAGGCGTAAATACCAAGTATCGATACT-TTATATAGG
66 GTAAAAAGTCTATC-GATATAATGATAATAGGCGTAAATA-CAAGTAT-AATACTATTATATAGG
*
4733022 TATGGATACTTTTATTCCAGTATGTTTCTCAAACAATTTACACGCAAAATGTATCGATACATATA
128 TA-GGATA--TTT-TT-CAGTATG-CT-TCAAACAATTTACACGCAAAA--TATCGATACATATA
4733087 TATAACA
184 TATAA-A
** * *
4733094 -TATTGATACTTATAATTTTGAAATCC-ATCACTTTAAAGTAATAGGTTAAATTAACAACGTAA
1 GTATTGATACTTGGAATTTTGAAA-CCTATTACTTTAAAGTAATAGGTT-AATTAACAATGTAA
4733156 CAGTAATGTT
Statistics
Matches: 221, Mismatches: 23, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
187 42 0.19
188 31 0.14
189 33 0.15
190 9 0.04
192 3 0.01
193 2 0.01
194 6 0.03
195 1 0.00
196 20 0.09
198 58 0.26
199 16 0.07
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (189 bp):
GTATTGATACTTGGAATTTTGAAACCTATTACTTTAAAGTAATAGGTTAATTAACAATGTAAACG
GTAAAAAGTCTATCGATATAATGATAATAGGCGTAAATACAAGTATAATACTATTATATAGGTAG
GATATTTTTCAGTATGCTTCAAACAATTTACACGCAAAATATCGATACATATATATAAA
Found at i:4733491 original size:280 final size:282
Alignment explanation
Indices: 4733140--4733704 Score: 932
Period size: 280 Copynumber: 2.0 Consensus size: 282
4733130 AGTAATAGGT
4733140 TAAATTAACAACGTAACAGTAATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCAAGTA
1 TAAATTAACAACGTAACAGTAATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCAAGTA
4733205 TTGATACTCATATACAAAGTATCGATACATATAATTTC-AAACCTATTACTTTAAAGTAATAGGT
66 TTGATACTCATATACAAAGTATCGATAC--ATAATTTCAAAACCTATTACTTTAAAGTAATAGGT
*
4733269 AAATTAACAATGTACAA-GTAAACGTTTGTA-C-AAATAATAAAAATAAGCGTAAATGTCCA-GT
129 AAATTAACAATGTACAAGGTAAACGTTTGTACCGAAATAATAAAAATAAGCGTAAATATCCAGGT
4733330 ATCG-ATAT-TAAAGTATTGATACTTATAATTTTGAAA-CTATTACTTTAAAGTAATAGGAAATT
194 ATCGAATATATAAAGTATTGATACTTA-AATTTTGAAACCTATTAC-TTAAAGTAATAGGAAATT
4733392 AACAATGTAC-CAGTAAAACGTTTCGG
257 AACAATGTACACAGT-AAACGTTTCGG
4733418 TAAATTAACAACGTATACAGTAAATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCAAG
1 TAAATTAACAACGTA-ACAGT-AATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCAAG
4733483 TATTGATACTCATATACAAAGTATCGATACATAATTTCAAAACCTATTACTTTAAAGTAATAGGT
64 TATTGATACTCATATACAAAGTATCGATACATAATTTCAAAACCTATTACTTTAAAGTAATAGGT
*
4733548 AAATTAACAATGTACAAGGTAAACGTTTGTACCGATATAATAAAAATAAGCGTAAATATCCAGGT
129 AAATTAACAATGTACAAGGTAAACGTTTGTACCGAAATAATAAAAATAAGCGTAAATATCCAGGT
*
4733613 ATCGATACTCATATATAAAGTATTGATACTTAAATTTTGAAACCTATTACTTAAAGTAATAGGTA
194 ATCG--A---ATATATAAAGTATTGATACTTAAATTTTGAAACCTATTACTTAAAGTAATAGGAA
4733678 ATTAACAATGTACACAGTAAACGTTTC
254 ATTAACAATGTACACAGTAAACGTTTC
4733705 TATCGGTATA
Statistics
Matches: 268, Mismatches: 3, Indels: 21
0.92 0.01 0.07
Matches are distributed among these distances:
278 23 0.09
279 48 0.18
280 86 0.32
281 1 0.00
282 26 0.10
283 6 0.02
289 50 0.19
290 28 0.10
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (282 bp):
TAAATTAACAACGTAACAGTAATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCAAGTA
TTGATACTCATATACAAAGTATCGATACATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAA
ATTAACAATGTACAAGGTAAACGTTTGTACCGAAATAATAAAAATAAGCGTAAATATCCAGGTAT
CGAATATATAAAGTATTGATACTTAAATTTTGAAACCTATTACTTAAAGTAATAGGAAATTAACA
ATGTACACAGTAAACGTTTCGG
Found at i:4733732 original size:128 final size:129
Alignment explanation
Indices: 4733416--4733821 Score: 516
Period size: 129 Copynumber: 3.2 Consensus size: 129
4733406 AAAACGTTTC
* * * * * *
4733416 GGTAAATTAACAACGTATACAGTAAATGTTTCTACCAGTATAATGAAAATATGCATAAATGTCCA
1 GGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAAGCGTAAATGTCCA
* * * *
4733481 AGTATTGATACTCATATACAAAGTATCGATACATAATTTCAAAACCTATTACTTTAAAGTAATA
66 AGTATTGATACTCATATATAAAGTATAGATACTTAATTTCGAAACCTATTACTTTAAAGTAATA
* * * *
4733545 GGTAAATTAACAATGTACA-AGGTAAACGTTTGTACCGATATAATAAAAATAAGCGTAAATATCC
1 GGTAAATTAACAATGTACACA-GTAAACGTTTCTACCGGTATAATGAAAATAAGCGTAAATGTCC
* * * *
4733609 AGGTATCGATACTCATATATAAAGTATTGATACTTAAATTTTGAAACCTATTAC-TTAAAGTAAT
65 AAGTATTGATACTCATATATAAAGTATAGATACTT-AATTTCGAAACCTATTACTTTAAAGTAAT
4733673 A
129 A
* * *
4733674 GGT-AATTAACAATGTACACAGTAAACGTTTCTATCGGTATAATGAAAATAGGCGTAAATGTACA
1 GGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAAGCGTAAATGTCCA
* * * *
4733738 AGTATTGATAAT-GTCATAT-AATTATAGATACTTTAGTTTCGAAACCTATTACTTTAAAGTAAT
66 AGTATTGATACTCAT-ATATAAAGTATAGATAC-TTAATTTCGAAACCTATTACTTTAAAGTAAT
4733801 A
129 A
4733802 GGTAAATTAACAATGTACAC
1 GGTAAATTAACAATGTACAC
4733822 GTATTATGTT
Statistics
Matches: 238, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
127 27 0.11
128 82 0.34
129 113 0.47
130 16 0.07
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (129 bp):
GGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAAGCGTAAATGTCCA
AGTATTGATACTCATATATAAAGTATAGATACTTAATTTCGAAACCTATTACTTTAAAGTAATA
Found at i:4734420 original size:221 final size:224
Alignment explanation
Indices: 4733826--4734424 Score: 696
Period size: 222 Copynumber: 2.7 Consensus size: 224
4733816 GTACACGTAT
* * * *
4733826 TATGTTGATAATATTGAAAAAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTATG
1 TATGTTCATAATATT-AGAGAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAG
* * * * * * *
4733891 GTCTCATC-GACTTTAAACAGACGTTACATATTACATTAAATAAACGCTAC-TTTTATGTTATTA
65 GCCCCATCAG-CTTTAAACAGACGCTACCTATTACATTAAATAAGCACTACATGTTATGTTATTA
* * * * * *
4733954 TTGTTGATAATATTTCTAGT-ATT-ACATATTTTATATCGTCAGATTTCTTAGGCTCCATGAGCA
129 TGGTTGATAATGTTTCTAGTAATTAACCTATTTTATATCGTCAGATTTCTGAGACTCCATCAGCA
* * *
4734017 TAAACTTTGTAACGTTTTAGGCGCTGCCCAA
194 TAAACTTTGTAACGATTTAGACGCTACCCAA
* * *
4734048 TATGTTCATAATATTGAGAGAAAAAATGAGTAATTAACTTATTTTGTTATCGTCGGATTTCTAAG
1 TATGTTCATAATATT-AGAGAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAG
* * * * *
4734113 ACTCCATCAACTTTAAACAGATGCTACCTATTACATT-AATAAGCACTACATGTTATTTTATTAT
65 GCCCCATCAGCTTTAAACAGACGCTACCTATTACATTAAATAAGCACTACATGTTATGTTATTAT
* *
4734177 GGTTGATAATGTTTCTAGTAATTAACCTATTTT-TATCGTCATATTTCTGAGACTCCATCAGCTT
130 GGTTGATAATGTTTCTAGTAATTAACCTATTTTATATCGTCAGATTTCTGAGACTCCATCAGCAT
* *
4734241 AAACTTTGGTAAC-ATTTAGACGTTACCTAA
195 AAACTTT-GTAACGATTTAGACGCTACCCAA
* * * * *
4734271 TATGTTGATAA-ATT-GATACAAATTAAGTAATTAACCTAGTTTGTTATCGTCGAATTTCTAAGG
1 TATGTTCATAATATTAGAGAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGG
* * * *
4734334 CCCCATCAGC-TTAAAAAGACACAACCTATTACGTTAAATAAGCCACTACATGTTATGTTATTAT
66 CCCCATCAGCTTTAAACAGACGCTACCTATTACATTAAATAAG-CACTACATGTTATGTTATTAT
* *
4734398 GGTTAATAATGTTTCCAGTAATTAACC
130 GGTTGATAATGTTTCTAGTAATTAACC
4734425 GGTTATGTTA
Statistics
Matches: 319, Mismatches: 51, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
219 20 0.06
220 55 0.17
221 55 0.17
222 118 0.37
223 58 0.18
224 13 0.04
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (224 bp):
TATGTTCATAATATTAGAGAAAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGG
CCCCATCAGCTTTAAACAGACGCTACCTATTACATTAAATAAGCACTACATGTTATGTTATTATG
GTTGATAATGTTTCTAGTAATTAACCTATTTTATATCGTCAGATTTCTGAGACTCCATCAGCATA
AACTTTGTAACGATTTAGACGCTACCCAA
Found at i:4734693 original size:2 final size:2
Alignment explanation
Indices: 4734686--4734754 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
4734676 TCCTCACTAC
4734686 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4734727 TA TA TA TA TA TA TA TA TA GA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4734755 TTAATAAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4734769 original size:18 final size:19
Alignment explanation
Indices: 4734746--4734783 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4734736 ATATATATAG
*
4734746 AATATATATT-TAATAAAA
1 AATATAGATTATAATAAAA
*
4734764 AATATAGATTATTATAAAA
1 AATATAGATTATAATAAAA
4734783 A
1 A
4734784 TATTTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AATATAGATTATAATAAAA
Found at i:4736523 original size:5 final size:5
Alignment explanation
Indices: 4736513--4736585 Score: 66
Period size: 5 Copynumber: 15.4 Consensus size: 5
4736503 TAGATATAAA
* * **
4736513 AAAAT AAAAT -AAAT -AAAT AAAAT -AAAT -AAAT AAATT CAACC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
4736559 AAAA- AGAAAT AAAAT AAAAT AAAAT AA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AA
4736586 TAAATAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
4 17 0.30
5 39 0.68
6 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4736528 original size:4 final size:4
Alignment explanation
Indices: 4736508--4736601 Score: 61
Period size: 4 Copynumber: 22.2 Consensus size: 4
4736498 CATGTTAGAT
*
4736508 ATAA AAAA ATAAA ATAA ATAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA
1 ATAA ATAA AT-AA ATAA ATAA AT-AA ATAA ATAA ATAA A-T-AA --ATAA
*
4736557 AT-A A-AA AGAA ATAAA ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA A
4736602 GCATAGAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 24
0.74 0.03 0.24
Matches are distributed among these distances:
3 6 0.08
4 45 0.60
5 21 0.28
6 2 0.03
8 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:4737383 original size:37 final size:36
Alignment explanation
Indices: 4737326--4737427 Score: 147
Period size: 34 Copynumber: 2.9 Consensus size: 36
4737316 TTAGTAGAAC
*
4737326 TCTATCATATTTTTAAGAGTTTGAATCCTAGCAAAAT
1 TCTATCATATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
4737363 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCATATTTTTAGGAGTTTGAATCCTAGAAAAT
4737397 TCTATCATATTTTTAGGAGTTTGAATCCTAG
1 TCTATCATATTTTTAGGAGTTTGAATCCTAG
4737428 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
33 1 0.02
34 31 0.53
37 25 0.43
38 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTATCATATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:4738401 original size:106 final size:106
Alignment explanation
Indices: 4737975--4738700 Score: 952
Period size: 106 Copynumber: 7.0 Consensus size: 106
4737965 CATTGTTCCA
* * * * *
4737975 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTG-TG--AAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * *
4738037 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
4738078 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-T--GAA-AT-TTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
4738137 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
4738178 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TAGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
4738242 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * *
4738283 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCCGAAATTAGGAAGTTGTTTATTGATAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
4738348 CAGCGGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
4738389 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAGGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
4738454 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
4738495 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
4738560 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
4738601 AGTCCAATATCCTTCGTTGTGAAGTT-AATATCGGCTCTG--A----G-A-TTG-TTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAA-ATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* ** * * *
4738656 CTAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
4738698 AGT
1 AGT
4738701 GATATCCTCC
Statistics
Matches: 556, Mismatches: 56, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
97 54 0.10
98 6 0.01
99 4 0.01
100 77 0.14
101 2 0.00
102 3 0.01
103 35 0.06
104 4 0.01
105 98 0.18
106 273 0.49
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:4738530 original size:317 final size:309
Alignment explanation
Indices: 4737975--4738628 Score: 941
Period size: 317 Copynumber: 2.1 Consensus size: 309
4737965 CATTGTTCCA
* * * * * * *
4737975 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTGAACCAG
1 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCCGAAACTAGGAAATTGTTTGTGAACCAG
* * * *
4738040 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CCGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTG
*
4738105 AAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
131 AAATTGAATCTGAATGAAATTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * *
4738170 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TAG
196 TTGTCTGGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTAG
* *
4738234 TTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTTTGG
261 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
* * *
4738283 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCCGAAATTAGGAAGTTGTTTATTGATAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCCGAAACTAGGAAATTGTTT-GTG--AAC
* *
4738348 CAGCGGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAG
** ** *
4738413 TTGAAATTGGCTCTGAAATTGGGAGGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTT
128 TTGAAATTGAATCTG-AA-T--GA-AAT-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
4738478 GAACTTGCGTTGTCTGGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGA
187 GAACTTGCGTTGTCTGGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGA
* **
4738543 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
252 AGTTGTTAGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
4738601 AGTCCAATATCCTTCGTTGTGAAGTTAA
1 AGTCCAATATCCTTCGTTGTGAAGTTAA
4738629 TATCGGCTCT
Statistics
Matches: 305, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
308 47 0.15
309 2 0.01
311 75 0.25
312 2 0.01
313 1 0.00
315 2 0.01
316 1 0.00
317 100 0.33
318 75 0.25
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (309 bp):
AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGACTCCGAAACTAGGAAATTGTTTGTGAACCAG
CCGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGTCTCGAGTCCAATATCCTTCGATGTGAAGTTG
AAATTGAATCTGAATGAAATTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
TTGTCTGGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTAG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:4739492 original size:19 final size:20
Alignment explanation
Indices: 4739456--4739494 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4739446 GAACCCACCT
*
4739456 TTTTGTTCTTTTTCTTTTTC
1 TTTTGTTCTTTCTCTTTTTC
4739476 TTTTGTT-TTTCTCTTTTTC
1 TTTTGTTCTTTCTCTTTTTC
4739495 AATTTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTGTTCTTTCTCTTTTTC
Found at i:4739572 original size:12 final size:12
Alignment explanation
Indices: 4739557--4739588 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
4739547 ATTTTTTCTC
4739557 TTTTTTTGTTGT
1 TTTTTTTGTTGT
4739569 TTTTTTTGTTGT
1 TTTTTTTGTTGT
4739581 TGTTTTTT
1 T-TTTTTT
4739589 TTCGACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTTGTTGT
Found at i:4739575 original size:15 final size:15
Alignment explanation
Indices: 4739557--4739590 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4739547 ATTTTTTCTC
4739557 TTTTT-TTGTTGTTT
1 TTTTTGTTGTTGTTT
4739571 TTTTTGTTGTTGTTT
1 TTTTTGTTGTTGTTT
4739586 TTTTT
1 TTTTT
4739591 CGACTTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (15 bp):
TTTTTGTTGTTGTTT
Found at i:4749961 original size:9 final size:9
Alignment explanation
Indices: 4749936--4750025 Score: 55
Period size: 9 Copynumber: 10.0 Consensus size: 9
4749926 CATGTTAGAT
4749936 ATAAA-AAA
1 ATAAATAAA
4749944 ATAAAATAAA
1 AT-AAATAAA
4749954 ATAAATAAA
1 ATAAATAAA
*
4749963 ATAAAT-CA
1 ATAAATAAA
* *
4749971 ATCAATTCAACC
1 AT-AAAT-AA-A
4749983 A-AAATAAAA
1 ATAAAT-AAA
*
4749992 AGAAATAAA
1 ATAAATAAA
*
4750001 ATAAA-ATA
1 ATAAATAAA
4750009 ATAAAT-AA
1 ATAAATAAA
4750017 ATAAATAAA
1 ATAAATAAA
4750026 GCATAGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
8 19 0.30
9 29 0.46
10 14 0.22
12 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (9 bp):
ATAAATAAA
Found at i:4749961 original size:14 final size:13
Alignment explanation
Indices: 4749936--4749967 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
4749926 CATGTTAGAT
4749936 ATAAAAAAATAAA
1 ATAAAAAAATAAA
4749949 ATAAAATAAATAAA
1 ATAAAA-AAATAAA
4749963 ATAAA
1 ATAAA
4749968 TCAATCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:4750008 original size:20 final size:20
Alignment explanation
Indices: 4749983--4750025 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4749973 CAATTCAACC
4749983 AAAATAA-AAAGAAATAAAAT
1 AAAATAATAAAGAAAT-AAAT
*
4750003 AAAATAATAAATAAATAAAT
1 AAAATAATAAAGAAATAAAT
4750023 AAA
1 AAA
4750026 GCATAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAATAATAAAGAAATAAAT
Found at i:4750771 original size:37 final size:36
Alignment explanation
Indices: 4750721--4750858 Score: 154
Period size: 37 Copynumber: 3.8 Consensus size: 36
4750711 GTGCTTGTGA
* * * *
4750721 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTGAATCCTAGTA-AAATCT
* * *
4750758 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAATTTGAATCCTAGTAAAAT-CT
* *
4750795 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAATTTGAATCCTAGTAAAATCT
*
4750829 ATCTTATTTTTAGGAATTTGAATCCTAGTA
1 ATCCTATTTTTAGGAATTTGAATCCTAGTA
4750859 GGACGAAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
34 26 0.30
35 4 0.05
36 4 0.05
37 53 0.61
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (36 bp):
ATCCTATTTTTAGGAATTTGAATCCTAGTAAAATCT
Found at i:4750837 original size:34 final size:35
Alignment explanation
Indices: 4750755--4750855 Score: 143
Period size: 34 Copynumber: 2.9 Consensus size: 35
4750745 TTAGTAGAAC
4750755 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
4750793 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
* *
4750826 TCTATCTTATTTTTAGGAATTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
4750856 GTAGGACGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
33 1 0.02
34 31 0.52
37 27 0.45
38 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:4751118 original size:17 final size:17
Alignment explanation
Indices: 4751096--4751131 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4751086 ACTCACCCTT
*
4751096 AATAAAATTTAAATCAA
1 AATAAAATATAAATCAA
*
4751113 AATAAAATATAAATTAA
1 AATAAAATATAAATCAA
4751130 AA
1 AA
4751132 ATCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAAATATAAATCAA
Found at i:4767200 original size:18 final size:18
Alignment explanation
Indices: 4767177--4767369 Score: 73
Period size: 18 Copynumber: 10.6 Consensus size: 18
4767167 AACGTGTTAG
4767177 ATAAAA-AAATGAAAATAA
1 ATAAAATAAA-GAAAATAA
*
4767195 ATAAAATAAAGAAAGTAA
1 ATAAAATAAAGAAAATAA
** * *
4767213 A-AAACGAACG-AAGTAA
1 ATAAAATAAAGAAAATAA
** *
4767229 AGGAAATAAA-AAAGATAC
1 ATAAAATAAAGAAA-ATAA
* *
4767247 AGAAAATAAAAAAAATAA
1 ATAAAATAAAGAAAATAA
4767265 AGTAAAGATAAA-AATGAATAAA
1 A-TAAA-ATAAAGAA--AAT-AA
4767287 ATAAAATAAAGAAAA-AA
1 ATAAAATAAAGAAAATAA
* * *
4767304 AGAATAATAATA-ATAATAT
1 ATAA-AATAA-AGAAAATAA
4767323 ATACATAAT-AAGAAAATAA
1 ATA-A-AATAAAGAAAATAA
*
4767342 ATAAAA-ATAAGAAGA-AA
1 ATAAAATA-AAGAAAATAA
4767359 ATACAAATAAA
1 ATA-AAATAAA
4767370 TTAATGAATA
Statistics
Matches: 135, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
16 7 0.05
17 24 0.18
18 50 0.37
19 27 0.20
20 15 0.11
21 9 0.07
22 3 0.02
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.16
Consensus pattern (18 bp):
ATAAAATAAAGAAAATAA
Found at i:4767287 original size:26 final size:25
Alignment explanation
Indices: 4767249--4767321 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
4767239 AAAGATACAG
* * *
4767249 AAAATAAAAAAAATAAAGTAAAGATA
1 AAAATGAATAAAATAAAATAAAGA-A
4767275 AAAATGAATAAAATAAAATAAAGAA
1 AAAATGAATAAAATAAAATAAAGAA
*
4767300 AAAAAGAATAATAATAATAATA
1 AAAATGAATAA-AATAA-AATA
4767322 TATACATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 11 0.27
26 26 0.63
27 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (25 bp):
AAAATGAATAAAATAAAATAAAGAA
Found at i:4767301 original size:9 final size:9
Alignment explanation
Indices: 4767187--4767313 Score: 66
Period size: 9 Copynumber: 13.9 Consensus size: 9
4767177 ATAAAAAAAT
4767187 GAAAATAAA
1 GAAAATAAA
*
4767196 TAAAATAAA
1 GAAAATAAA
*
4767205 GAAAGTAAA
1 GAAAATAAA
** *
4767214 -AAACGAAC
1 GAAAATAAA
*
4767222 G-AAGTAAA
1 GAAAATAAA
*
4767230 GGAAATAAA
1 GAAAATAAA
*
4767239 -AAAGATACA
1 GAAA-ATAAA
4767248 GAAAATAAA
1 GAAAATAAA
*
4767257 AAAAATAAA
1 GAAAATAAA
4767266 GTAAAGATAAA
1 G-AAA-ATAAA
4767277 -AATGAATAAAA
1 GAA--AAT-AAA
*
4767288 TAAAATAAA
1 GAAAATAAA
4767297 GAAAA-AAA
1 GAAAATAAA
4767305 GAATAATAA
1 GAA-AATAA
4767314 TAATAATATA
Statistics
Matches: 90, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
8 18 0.20
9 48 0.53
10 13 0.14
11 9 0.10
12 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.13
Consensus pattern (9 bp):
GAAAATAAA
Found at i:4767366 original size:17 final size:18
Alignment explanation
Indices: 4767318--4767368 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
4767308 TAATAATAAT
*
4767318 AATATATACATAATAAGAA
1 AATAAATACA-AATAAGAA
*
4767337 AATAAATAAAAATAAGAA
1 AATAAATACAAATAAGAA
*
4767355 GA-AAATACAAATAA
1 AATAAATACAAATAA
4767369 ATTAATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.39
18 9 0.32
19 8 0.29
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (18 bp):
AATAAATACAAATAAGAA
Found at i:4767370 original size:21 final size:21
Alignment explanation
Indices: 4767247--4767361 Score: 62
Period size: 21 Copynumber: 5.4 Consensus size: 21
4767237 AAAAAGATAC
4767247 AGAAAATAAA-AAAAAT-A-A
1 AGAAAATAAATAAAAATAAGA
*
4767265 AGTAAAGATAAA-AATGAATAA-A
1 AG-AAA-ATAAATAA-AAATAAGA
* *
4767287 ATAAAATAAAGAAAAA-AAGA
1 AGAAAATAAATAAAAATAAGA
* * *
4767307 ATAATAATAATAATATATACATAATA
1 AGAA-AAT-A-AATA-A-AAATAAGA
4767333 AGAAAATAAATAAAAATAAGA
1 AGAAAATAAATAAAAATAAGA
4767354 AGAAAATA
1 AGAAAATA
4767362 CAAATAAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.03
19 5 0.07
20 19 0.25
21 25 0.33
22 5 0.07
23 7 0.09
24 2 0.03
25 5 0.07
26 6 0.08
ACGTcount: A:0.73, C:0.01, G:0.08, T:0.18
Consensus pattern (21 bp):
AGAAAATAAATAAAAATAAGA
Found at i:4767451 original size:18 final size:20
Alignment explanation
Indices: 4767409--4767453 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
4767399 AAAAAAAGGT
4767409 AAATATAAGGAATAAAAATA
1 AAATATAAGGAATAAAAATA
*
4767429 AAATA-AAGGAA-AAACATA
1 AAATATAAGGAATAAAAATA
*
4767447 GAATATA
1 AAATATA
4767454 TAAAAAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
AAATATAAGGAATAAAAATA
Found at i:4767496 original size:3 final size:3
Alignment explanation
Indices: 4767488--4767529 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4767478 TAAAATAGAG
4767488 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4767530 AAACAGTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4768776 original size:17 final size:19
Alignment explanation
Indices: 4768751--4768799 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
4768741 ATGAAACAAG
*
4768751 TAATAAATATATAT-T-TA
1 TAATTAATATATATGTATA
4768768 TAATTAATATAATATGTATA
1 TAATTAATAT-ATATGTATA
*
4768788 TAAATAATATAT
1 TAATTAATATAT
4768800 GTGGCACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 3 0.11
20 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATTAATATATATGTATA
Found at i:4768800 original size:17 final size:17
Alignment explanation
Indices: 4768751--4768801 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
4768741 ATGAAACAAG
*
4768751 TAATAAATATATATTTA
1 TAATAAATATATATGTA
*
4768768 TAATTAATATAATATGTA
1 TAATAAATAT-ATATGTA
4768786 T-ATAAATAATATATGT
1 TAATAAAT-ATATATGT
4768802 GGCACATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
TAATAAATATATATGTA
Found at i:4769489 original size:84 final size:84
Alignment explanation
Indices: 4769343--4769946 Score: 742
Period size: 84 Copynumber: 7.2 Consensus size: 84
4769333 AACTCGAACA
* * * * ** *
4769343 TTTTGTTGACATATAGCCCTTCTTGCCTTGAGCTATGCTGTAAAATGACATGCCTTTGAGCTGAG
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTG-CAAATGATGTGCCTTGGAGCTGAG
* * *
4769408 TGTAATCGAACTCGAAGTTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * ** *
4769428 TTTTATTAGAAAATAGCCCTTCTTGCCTTGAACTATATTGCAAATGATGTGCCTTTGAGCTGAGC
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4769493 GTAGTCGAACTAGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* ** * * *
4769512 TTTTTTTGATAGATAACCCTT-TTAGCCTTGAGTTATCCTGCAAATGATGTGCCTTGGAGCTGAG
1 TTTTGTTGGCAAATAACCCTTCTT-GCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* *
4769576 CGTAGTCAAACTCAAAGGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * *
4769596 TTTTGTTGGTAAATAACCCTTCTTGCCTTAAGCTATGTTGCAAATGATATGCCTTGGAGTTGAGC
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4769661 ATAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * *
4769680 TTTGGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGT
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4769745 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * *
4769764 TTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTACCTTGGAGCTGAGC
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
4769829 GTAGTAGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * *
4769848 TTTTGTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTACAAATGATGTGCCTTGGAACTGAGC
1 TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
4769913 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
4769932 TTTTGTTGGCAAATA
1 TTTTGTTGGCAAATA
4769947 GATGATCTAT
Statistics
Matches: 445, Mismatches: 72, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
83 2 0.00
84 409 0.92
85 34 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (84 bp):
TTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:4770192 original size:124 final size:124
Alignment explanation
Indices: 4770042--4770510 Score: 674
Period size: 124 Copynumber: 3.8 Consensus size: 124
4770032 CTTCACCGTA
* *
4770042 AAGTTGAAACCGTGGATAGCC-CCTTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCA
1 AAGTTGAAACCGTGGATA-CCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCG
* * * *
4770106 TGAAGTTGAAATCCAATCTGAAGATAAATGTTGCTGGCGGGCACGATTCCCTTCGTCGTG
65 TGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCCTTCGTCGTG
* *
4770166 AAGTTGAAATCGTGGATGACCTC-TTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCATCG
1 AAGTTGAAACCGTGGAT-ACCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCG
* * * * *
4770230 TGAAGTTAAAATCCAATCTAAATATTAATGTTACTGGTGAGCACGATTCCCTTCATCGTG
65 TGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCCTTCGTCGTG
* * *
4770290 AAGTTAAAACCGTAGATGACC-CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCTTCG
1 AAGTTGAAACCGTGGAT-ACCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCG
* * *
4770354 TGAAGTTGAAATCCAATCTGAAGATGAATGTTGCTGGTGAGAACGATTCCCTTCGTCATG
65 TGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCCTTCGTCGTG
* * * *
4770414 AAGTTGAAACCATGGATAGCTCATTCGTTGTGAAGTTGAGCCTTGGATTGGATATCCTTCGCCGT
1 AAGTTGAAACCGTGGATACCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGT
*
4770479 GAAGTTGAAATCCAATATAAAGATGAATGTTG
66 GAAGTTGAAATCCAATCTAAAGATGAATGTTG
4770511 TTTCGAGTCC
Statistics
Matches: 309, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
123 3 0.01
124 304 0.98
125 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (124 bp):
AAGTTGAAACCGTGGATACCTCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGT
GAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTCCCTTCGTCGTG
Found at i:4771871 original size:95 final size:95
Alignment explanation
Indices: 4771674--4771921 Score: 277
Period size: 95 Copynumber: 2.6 Consensus size: 95
4771664 AAAGCTGGGG
* * * *
4771674 CGTTTAACCAATTGCTCTAGAGGGATAGCTCAATATCATTGTATAT-ATATTAT-ATTACCTTTA
1 CGTTTAACCAATTGCTCTAGAGGGACAACTC-A-ATC-TT-TATTTAATATTATAATCACCTTTA
* * *
4771737 TCAGGCTACCTGAATATTATCCATAAAGTCGGGG
62 TCAGGCTACCTGAATATTATCCATAAAGGCGAGA
*
4771771 TGTTTAACCAATTGCTCTAGAGGGACAACTCAATCTTTATTTAATATTATAATCACCTTTATCAG
1 CGTTTAACCAATTGCTCTAGAGGGACAACTCAATCTTTATTTAATATTATAATCACCTTTATCAG
* * * *
4771836 GCTAGCTGAATCTTTTCCATAATGGCGAGA
66 GCTACCTGAATATTATCCATAAAGGCGAGA
* *
4771866 CGTTTAACCAATTGCGT-TATAGGGACAACTCAAGCTTTATTATATATATATATAAT
1 CGTTTAACCAATTGC-TCTAGAGGGACAACTCAATCTTTATT-TA-ATAT-TATAAT
4771922 ATTATAATAT
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
93 4 0.03
94 9 0.07
95 75 0.58
96 4 0.03
97 32 0.25
98 6 0.05
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (95 bp):
CGTTTAACCAATTGCTCTAGAGGGACAACTCAATCTTTATTTAATATTATAATCACCTTTATCAG
GCTACCTGAATATTATCCATAAAGGCGAGA
Found at i:4774257 original size:147 final size:149
Alignment explanation
Indices: 4774061--4774354 Score: 556
Period size: 147 Copynumber: 2.0 Consensus size: 149
4774051 CAGAGATAGA
4774061 AACTTTTCAAAAATTTGAAATCATTGAAAAAAATGTCAGTACAACTATTTATTTGAAAAATAAGC
1 AACTTTTCAAAAATTTGAAATCATTGAAAAAAATGTCAGTACAACTATTTATTTGAAAAATAAGC
*
4774126 AAAGGTAAATAATTGGAATCGAATAAATAAATTAAAATTAAAATTTACTATTTTTATATAAAAAG
66 AAAGGTAAATAATTGGAATCGAATAAATAAATTAAAATTAAAATTTACTATTTTCATATAAAAAG
4774191 ACAACCGAAAATTAATTCT
131 ACAACCGAAAATTAATTCT
*
4774210 AACTTTTC-AAAATTTGAAATCATTG-AAAAAATGTCAGTACAACTATTTATTTGAAAAATAATC
1 AACTTTTCAAAAATTTGAAATCATTGAAAAAAATGTCAGTACAACTATTTATTTGAAAAATAAGC
4774273 AAAGGTAAATAATTGGAATCGAATAAATAAATTAAAATTAAAATTTACTATTTTCATATAAAAAG
66 AAAGGTAAATAATTGGAATCGAATAAATAAATTAAAATTAAAATTTACTATTTTCATATAAAAAG
4774338 ACAACCGAAAATTAATT
131 ACAACCGAAAATTAATT
4774355 ATGGCCTGAC
Statistics
Matches: 143, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
147 118 0.83
148 17 0.12
149 8 0.06
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (149 bp):
AACTTTTCAAAAATTTGAAATCATTGAAAAAAATGTCAGTACAACTATTTATTTGAAAAATAAGC
AAAGGTAAATAATTGGAATCGAATAAATAAATTAAAATTAAAATTTACTATTTTCATATAAAAAG
ACAACCGAAAATTAATTCT
Found at i:4774803 original size:18 final size:19
Alignment explanation
Indices: 4774780--4774851 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 19
4774770 GAAGTAAAGG
* *
4774780 AAATAAAAAAGATACAG-A
1 AAATAAAAAAAATAAAGTA
4774798 AAATAAAAAAAATAAAGTA
1 AAATAAAAAAAATAAAGTA
* *
4774817 AAGATAAAAATGAATAAAATA
1 AA-ATAAAAA-AAATAAAGTA
4774838 AAATGAAGAAAAAA
1 AAAT-AA-AAAAAA
4774852 GAATAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.34
19 3 0.07
20 9 0.20
21 14 0.32
22 3 0.07
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.14
Consensus pattern (19 bp):
AAATAAAAAAAATAAAGTA
Found at i:4774825 original size:17 final size:15
Alignment explanation
Indices: 4774805--4775065 Score: 58
Period size: 17 Copynumber: 16.5 Consensus size: 15
4774795 AGAAAATAAA
4774805 AAAAATAAAGTAAAGAT
1 AAAAATAAA-TAAA-AT
*
4774822 AAAAATGAATAAAAT
1 AAAAATAAATAAAAT
* *
4774837 -AAAATGAAGAAAA-
1 AAAAATAAATAAAAT
*
4774850 AAGAAT-AATAATAAT
1 AAAAATAAATAA-AAT
* *
4774865 AATAATATATACATAAT
1 AAAAATAAATA-A-AAT
4774882 AAGCAAATAAATAAAAAT
1 AA--AAATAAAT-AAAAT
4774900 AAGAAGA-AAATACAAAT
1 AA-AA-ATAAATA-AAAT
* *
4774917 AAATGAATGAATAAAAC
1 AAA--AATAAATAAAAT
* * *
4774934 AAATATAAAGAAGAT
1 AAAAATAAATAAAAT
4774949 AAAAA-AAGATAAAGAT
1 AAAAATAA-ATAAA-AT
* *
4774965 AAGGAATAAA-AATA-
1 AA-AAATAAATAAAAT
*
4774979 AAAAATAAA-ATAAT
1 AAAAATAAATAAAAT
*
4774993 GGAAAAAATAGAAT-ATAT
1 ---AAAAATA-AATAAAAT
*
4775011 AAAAA-AAGTAAAAAT
1 AAAAATAAAT-AAAAT
* *
4775026 AGAAATAAGTAAAAT
1 AAAAATAAATAAAAT
4775041 AGAATAAT-AATAACAAT
1 A-AA-AATAAATAA-AAT
*
4775058 AATAATAA
1 AAAAATAA
4775066 TAATAACAGT
Statistics
Matches: 182, Mismatches: 32, Indels: 61
0.66 0.12 0.22
Matches are distributed among these distances:
13 14 0.08
14 23 0.13
15 43 0.24
16 26 0.14
17 51 0.28
18 17 0.09
19 7 0.04
20 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:4774832 original size:21 final size:20
Alignment explanation
Indices: 4774800--4774839 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4774790 GATACAGAAA
*
4774800 ATAAAAAAAATAAAGTAAAG
1 ATAAAAAAAATAAAATAAAG
*
4774820 ATAAAAATGAATAAAATAAA
1 ATAAAAA-AAATAAAATAAA
4774840 ATGAAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
ATAAAAAAAATAAAATAAAG
Found at i:4774835 original size:26 final size:25
Alignment explanation
Indices: 4774797--4774869 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
4774787 AAAGATACAG
* * *
4774797 AAAATAAAAAAAATAAAGTAAAGATA
1 AAAATGAATAAAATAAAATAAAGA-A
*
4774823 AAAATGAATAAAATAAAATGAAGAA
1 AAAATGAATAAAATAAAATAAAGAA
4774848 AAAA-GAATAATAATAATAATAA
1 AAAATGAATAA-AATAA-AATAA
4774870 TATATACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 6 0.15
25 10 0.25
26 24 0.60
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (25 bp):
AAAATGAATAAAATAAAATAAAGAA
Found at i:4774953 original size:21 final size:19
Alignment explanation
Indices: 4774900--4774953 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
4774890 AAATAAAAAT
*
4774900 AAGAAGAAAATACAAATAA
1 AAGAAGAAAAAACAAATAA
*
4774919 ATGAATGAATAAAACAAATATA
1 AAGAA-GAA-AAAACAAATA-A
4774941 AAGAAGATAAAAA
1 AAGAAGA-AAAAA
4774954 AAGATAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 3 0.11
21 15 0.54
22 6 0.21
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (19 bp):
AAGAAGAAAAAACAAATAA
Found at i:4774986 original size:26 final size:26
Alignment explanation
Indices: 4774951--4775000 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4774941 AAGAAGATAA
4774951 AAAAAGATAAAGATAA-GGAATAAAAAT
1 AAAAAGATAAA-ATAATGGAA-AAAAAT
4774978 AAAAA-ATAAAATAATGGAAAAAA
1 AAAAAGATAAAATAATGGAAAAAA
4775001 TAGAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 9 0.41
27 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (26 bp):
AAAAAGATAAAATAATGGAAAAAAAT
Found at i:4776271 original size:20 final size:20
Alignment explanation
Indices: 4776236--4776293 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
4776226 ATGAAACAGG
*
4776236 TAATAAATAT-ATATATTTA
1 TAATAAATATAATATATGTA
*
4776255 TAATTAATATAATATATGTA
1 TAATAAATATAATATATGTA
4776275 T-ATAAATAATAATATATGT
1 TAATAAAT-ATAATATATGT
4776294 GACACATAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.41
20 20 0.59
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TAATAAATATAATATATGTA
Found at i:4780753 original size:20 final size:20
Alignment explanation
Indices: 4780728--4780778 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4780718 GAACTGAGGT
* **
4780728 AGTATCGATACTGACTTATC
1 AGTATCGATACTGACTCAAA
*
4780748 AGTATCGATATTGACTCAAA
1 AGTATCGATACTGACTCAAA
4780768 AGTATCGATAC
1 AGTATCGATAC
4780779 CTCCATTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTGACTCAAA
Found at i:4786518 original size:24 final size:25
Alignment explanation
Indices: 4786491--4786542 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
4786481 GAATGTCACT
*
4786491 TTACCAAACCCAGCG-TACCAAAAC
1 TTACCAAACCCAACGCTACCAAAAC
* *
4786515 TTACCGACCCCAACGTCTACCAAAAC
1 TTACCAAACCCAACG-CTACCAAAAC
4786541 TT
1 TT
4786543 TAGACTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
26 11 0.48
ACGTcount: A:0.37, C:0.38, G:0.08, T:0.17
Consensus pattern (25 bp):
TTACCAAACCCAACGCTACCAAAAC
Found at i:4796307 original size:58 final size:58
Alignment explanation
Indices: 4796240--4796589 Score: 601
Period size: 58 Copynumber: 6.0 Consensus size: 58
4796230 CATAAGTTCA
* *
4796240 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTCCACACAAAGTGCCT
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
4796298 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTTGCACACAAAGTGCCC
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCC
*
4796357 AATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* * *
4796415 AATCCGGAAATTCATAAACAAATTATGAATCTCTTAACTTTTTGCACTCAAAGTGCCC
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* * *
4796473 AATACAGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAATGTCC
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
*
4796531 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACATTTTGCACACAAAGTGCCC
1 AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
4796589 A
1 A
4796590 TTTGGTAATC
Statistics
Matches: 274, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
58 219 0.80
59 55 0.20
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (58 bp):
AATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
Found at i:4797752 original size:13 final size:13
Alignment explanation
Indices: 4797743--4797798 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
4797733 CTATGACACG
*
4797743 CATTTATGACACA
1 CATTTATGACGCA
* *
4797756 CATTTATGATGCT
1 CATTTATGACGCA
*
4797769 CATTTATGATGCA
1 CATTTATGACGCA
*
4797782 CATTTATGACGCG
1 CATTTATGACGCA
4797795 CATT
1 CATT
4797799 GCGCGTCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTTATGACGCA
Found at i:4797798 original size:26 final size:26
Alignment explanation
Indices: 4797734--4797798 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
4797724 GTCATAAATC
*
4797734 TATGACACGCATTTATGACACACATT
1 TATGACGCGCATTTATGACACACATT
* * **
4797760 TATGATGCTCATTTATGATGCACATT
1 TATGACGCGCATTTATGACACACATT
4797786 TATGACGCGCATT
1 TATGACGCGCATT
4797799 GCGCGTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (26 bp):
TATGACGCGCATTTATGACACACATT
Found at i:4804855 original size:52 final size:54
Alignment explanation
Indices: 4804777--4804883 Score: 164
Period size: 52 Copynumber: 2.0 Consensus size: 54
4804767 TTATAATATT
* * *
4804777 CTTGTGATTAGTTGTAATTCCCTAACTCTAGGCTAGTCTCTTA-TT-TATGTGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
*
4804829 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTTCTATGTGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
4804883 C
1 C
4804884 ACATCTTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 39 0.80
53 2 0.04
54 8 0.16
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (54 bp):
CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
Found at i:4805072 original size:58 final size:58
Alignment explanation
Indices: 4804991--4805417 Score: 667
Period size: 58 Copynumber: 7.4 Consensus size: 58
4804981 AATTTCCTAG
* * *
4804991 TTTTTCCACATAAAGTG-CCAATACGAAAATTCATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
* * *
4805048 TTCTTGCACACAAAGTGCCTAATACAGAAATTCATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
* *
4805106 TTTTTGCACACAAAGTGCCCAATACAGAAATTCATAAATAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
*
4805164 TTTTTGCACACAAAGTGCCCAATCCGGAAATTCATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
* *
4805222 TTTTTGCACTCAAAGTGCCCAATATGGAAATTCATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
* * *
4805280 ATTTTGCACACAAAGTGCCTAATACGGAAATACATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
* * * *
4805338 TTTTAGCACACAAAAATGCCCAAAACGGAAATTCATAAACAAATTACGAATTTCTTAAC
1 TTTTTGCACAC-AAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
*
4805397 TTTTTCCACACAAAGTGCCCA
1 TTTTTGCACACAAAGTGCCCA
4805418 TTTGGTAATC
Statistics
Matches: 338, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
57 14 0.04
58 273 0.81
59 51 0.15
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (58 bp):
TTTTTGCACACAAAGTGCCCAATACGGAAATTCATAAACAAATTATGAATTTCTTAAC
Found at i:4807606 original size:22 final size:20
Alignment explanation
Indices: 4807574--4807613 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
4807564 AAATCTAAAG
4807574 TTATTATATATTTTATATTTT
1 TTATTATATATTTT-TATTTT
4807595 TTATATATATATTTTTATT
1 TTAT-TATATATTTTTATT
4807614 AAAAATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTATATATTTTTATTTT
Found at i:4820156 original size:31 final size:31
Alignment explanation
Indices: 4820121--4820183 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
4820111 TGTTAGGTTT
4820121 ACATAAAACTAGCCTTGTTTGACGCTCGAGA
1 ACATAAAACTAGCCTTGTTTGACGCTCGAGA
*
4820152 ACATAAAACTAGCCTTGTTTGATGCTCGAGA
1 ACATAAAACTAGCCTTGTTTGACGCTCGAGA
4820183 A
1 A
4820184 ACAACCAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
ACATAAAACTAGCCTTGTTTGACGCTCGAGA
Found at i:4837714 original size:21 final size:21
Alignment explanation
Indices: 4837690--4837744 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
4837680 GAGGATTCAT
*
4837690 TGGTCTTTCGGGATAATACAG
1 TGGTCCTTCGGGATAATACAG
4837711 TGGTCCTTCGGGATAATACAG
1 TGGTCCTTCGGGATAATACAG
4837732 TGGTCCTTCGGGA
1 TGGTCCTTCGGGA
4837745 CAAATTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (21 bp):
TGGTCCTTCGGGATAATACAG
Found at i:4842471 original size:6 final size:7
Alignment explanation
Indices: 4842454--4842482 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4842444 TGAATCACGT
4842454 GGGGGAA
1 GGGGGAA
4842461 GGGGGAA
1 GGGGGAA
4842468 GGGGGAA
1 GGGGGAA
4842475 GGGGGAA
1 GGGGGAA
4842482 G
1 G
4842483 AGTTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (7 bp):
GGGGGAA
Found at i:4843963 original size:20 final size:21
Alignment explanation
Indices: 4843920--4843975 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
4843910 GGGTTTCATA
*
4843920 GGTCCTTCGGGACAATATAAT
1 GGTCCTTCGGGACAATACAAT
* *
4843941 GGTCCTTC-GGATAATACAGT
1 GGTCCTTCGGGACAATACAAT
*
4843961 GGTCCTTTGGGACAA
1 GGTCCTTCGGGACAA
4843976 ATTTTATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (21 bp):
GGTCCTTCGGGACAATACAAT
Found at i:4847024 original size:20 final size:20
Alignment explanation
Indices: 4846984--4847024 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4846974 TGCATCAAGG
*
4846984 TCTTTGTCGAGGCCATGAAA
1 TCTTTGTCGAAGCCATGAAA
4847004 TCTTTCGTCGAAGCCAT-AAA
1 TCTTT-GTCGAAGCCATGAAA
4847024 T
1 T
4847025 TCCTACAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (20 bp):
TCTTTGTCGAAGCCATGAAA
Found at i:4862494 original size:35 final size:36
Alignment explanation
Indices: 4862407--4862515 Score: 166
Period size: 36 Copynumber: 3.1 Consensus size: 36
4862397 GAAGGTGAAT
4862407 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
*
4862443 AAGAAGAACGAAAGGAAGAATCGGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* * **
4862479 AAG-TGAACGAGAGGAAGCATAAGCACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
4862514 AA
1 AA
4862516 TTGTTCATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
35 29 0.43
36 38 0.57
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (36 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
Found at i:4863534 original size:17 final size:16
Alignment explanation
Indices: 4863512--4863545 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4863502 TAAAAATAGT
4863512 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
4863529 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
4863545 A
1 A
4863546 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:4873769 original size:17 final size:16
Alignment explanation
Indices: 4873747--4873780 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
4873737 TAAAAACAAT
4873747 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
4873764 AAATAAAAAGAAAATA
1 AAATAAAAAGAAAATA
4873780 A
1 A
4873781 TCCTCACGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:4875814 original size:14 final size:14
Alignment explanation
Indices: 4875783--4875831 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4875773 AGAGTTGGGG
*
4875783 TTAGGGTTTAAGGGT
1 TTAGGGTTTAA-AGT
*
4875798 TTAGGGTTTAAAAT
1 TTAGGGTTTAAAGT
**
4875812 TTAATGTTTAAAGT
1 TTAGGGTTTAAAGT
4875826 TTAGGG
1 TTAGGG
4875832 ATTAGTGTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:4875872 original size:27 final size:27
Alignment explanation
Indices: 4875828--4875935 Score: 67
Period size: 27 Copynumber: 3.9 Consensus size: 27
4875818 TTTAAAGTTT
* * *
4875828 AGGGATTAGTGTTAAGGTTTAAGG-TCA
1 AGGGTTTAGGGTT-AGGTTTAAGGTTAA
* * **
4875855 TGGGTTTAGGATTTAGGTGGAAGGTTAA
1 AGGGTTTAGG-GTTAGGTTTAAGGTTAA
* **
4875883 AGGGTTTAGGGTTAGGTTTAAGATATTT
1 AGGGTTTAGGGTTAGGTTTAAGGT-TAA
*
4875911 A-GGTTTATGGTTAGAGTTTAAGGTT
1 AGGGTTTAGGGTTAG-GTTTAAGGTT
4875936 TAGGTTTAGA
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
27 38 0.62
28 23 0.38
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.39
Consensus pattern (27 bp):
AGGGTTTAGGGTTAGGTTTAAGGTTAA
Found at i:4877155 original size:33 final size:33
Alignment explanation
Indices: 4877118--4877184 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4877108 AAAAAGTCGA
4877118 GAATGAAAAATAAAAAAGATCAAACGAACCATT
1 GAATGAAAAATAAAAAAGATCAAACGAACCATT
4877151 GAATGAAAAATAAAAAAGATCAAACGAACCATT
1 GAATGAAAAATAAAAAAGATCAAACGAACCATT
4877184 G
1 G
4877185 TTATAATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.60, C:0.12, G:0.13, T:0.15
Consensus pattern (33 bp):
GAATGAAAAATAAAAAAGATCAAACGAACCATT
Found at i:4883055 original size:20 final size:20
Alignment explanation
Indices: 4883017--4883055 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4883007 TTACACCAAA
*
4883017 AAATATTTAAAAAATAAAAG
1 AAATATTTAAAAAACAAAAG
* *
4883037 AAATATTTAGATAACAAAA
1 AAATATTTAAAAAACAAAA
4883056 TATGAATGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATATTTAAAAAACAAAAG
Found at i:4888238 original size:21 final size:21
Alignment explanation
Indices: 4888197--4888240 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4888187 ATTTCTCTTT
*
4888197 TAAATAAAATTTATATAATAA
1 TAAATAAAATATATATAATAA
*
4888218 TAAATAAAGATATA-ATTATAA
1 TAAATAAA-ATATATATAATAA
4888239 TA
1 TA
4888241 CTTAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATAAAATATATATAATAA
Found at i:4891009 original size:11 final size:11
Alignment explanation
Indices: 4890973--4891012 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4890963 TTAGTCTTCT
4890973 TCTCTT-TTT-
1 TCTCTTCTTTA
4890982 TCTCTTCCTTTA
1 TCTCTT-CTTTA
4890994 T-TCTTCTTTA
1 TCTCTTCTTTA
4891004 TCTCTTCTT
1 TCTCTTCTT
4891013 CCTCTCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.22
10 6 0.22
11 14 0.52
12 1 0.04
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTCTTCTTTA
Found at i:4895393 original size:20 final size:20
Alignment explanation
Indices: 4895359--4895413 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4895349 CAAAGGGTGG
*
4895359 GGGTTTATGGTTTAAGGTCTA
1 GGGTTTAAGGTTTAA-GTCTA
*
4895380 GGGTTTAA-GTTTAAGTTTA
1 GGGTTTAAGGTTTAAGTCTA
*
4895399 TGGTTTAAGGTTTAA
1 GGGTTTAAGGTTTAA
4895414 AGGTTTATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.37
20 12 0.40
21 7 0.23
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (20 bp):
GGGTTTAAGGTTTAAGTCTA
Found at i:4895413 original size:7 final size:7
Alignment explanation
Indices: 4895360--4895420 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
4895350 AAAGGGTGGG
*
4895360 GGTTTAT
1 GGTTTAA
4895367 GGTTTAA
1 GGTTTAA
* *
4895374 GGTCTAG
1 GGTTTAA
4895381 GGTTTAA
1 GGTTTAA
4895388 -GTTTAA
1 GGTTTAA
*
4895394 -GTTTAT
1 GGTTTAA
4895400 GGTTTAA
1 GGTTTAA
4895407 GGTTTAAA
1 GGTTT-AA
4895415 GGTTTA
1 GGTTTA
4895421 TAGGGGTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
6 11 0.24
7 27 0.60
8 7 0.16
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (7 bp):
GGTTTAA
Found at i:4896491 original size:24 final size:22
Alignment explanation
Indices: 4896414--4896492 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 22
4896404 TTGGCCAGGG
*
4896414 AGTATCGATACTACTTTGTAGTGT
1 AGTATCGATACTACTATGTA--GT
*
4896438 AGTATCGATACTATCCATG--G-
1 AGTATCGATACTA-CTATGTAGT
*
4896458 AGTATTGATACTACTATGTAAAGT
1 AGTATCGATACTACTATGT--AGT
4896482 AGTATCGATAC
1 AGTATCGATAC
4896493 CGATCATAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 4 0.09
20 12 0.27
21 1 0.02
23 1 0.02
24 23 0.52
25 3 0.07
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (22 bp):
AGTATCGATACTACTATGTAGT
Found at i:4897291 original size:17 final size:17
Alignment explanation
Indices: 4897265--4897320 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
4897255 TCATTCAAAA
*
4897265 ACAAACATCCAAAACAC
1 ACAAATATCCAAAACAC
4897282 ACAAATATCC-AAACA-
1 ACAAATATCCAAAACAC
*
4897297 ACCTAATATCCAAAACAC
1 A-CAAATATCCAAAACAC
*
4897315 ATAAAT
1 ACAAAT
4897321 CCATCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 17 0.53
18 1 0.03
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (17 bp):
ACAAATATCCAAAACAC
Found at i:4907128 original size:19 final size:19
Alignment explanation
Indices: 4907097--4907138 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4907087 AGTTTCTTAG
*
4907097 TTTATTTTGATTTTAAATT
1 TTTATTTTGATTTCAAATT
*
4907116 TTTATTCTT-ATTTCAAGTT
1 TTTATT-TTGATTTCAAATT
4907135 TTTA
1 TTTA
4907139 CCTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTATTTTGATTTCAAATT
Found at i:4907773 original size:22 final size:20
Alignment explanation
Indices: 4907737--4907786 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
4907727 CATAATTATT
4907737 TAAAAAAATTAAATAAAAATA
1 TAAAAAAATTAAATAAAAA-A
* *
4907758 CTAAAAATATTTAATAAAAAA
1 -TAAAAAAATTAAATAAAAAA
4907779 TAAAAAAA
1 TAAAAAAA
4907787 AATTAGGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 1 0.04
22 17 0.68
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAAAATTAAATAAAAAA
Found at i:4912826 original size:25 final size:25
Alignment explanation
Indices: 4912797--4912845 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4912787 TCATATCATT
4912797 TGCACCAATGGTACCAG-TCATAATG
1 TGCACCAAT-GTACCAGATCATAATG
*
4912822 TGCACGAATGTACCAGATCATAAT
1 TGCACCAATGTACCAGATCATAAT
4912846 CAGTATTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (25 bp):
TGCACCAATGTACCAGATCATAATG
Found at i:4917388 original size:19 final size:19
Alignment explanation
Indices: 4917364--4917400 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4917354 GCTTGAATCG
4917364 AATGTTAAAATATTGATTT
1 AATGTTAAAATATTGATTT
* *
4917383 AATGTTGAGATATTGATT
1 AATGTTAAAATATTGATT
4917401 ATAGATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (19 bp):
AATGTTAAAATATTGATTT
Found at i:4918108 original size:66 final size:66
Alignment explanation
Indices: 4918015--4918163 Score: 165
Period size: 66 Copynumber: 2.3 Consensus size: 66
4918005 AAGTCAGTGA
* * * * * * *
4918015 TGCACGAGGTGAAGTGATTACTGAATATTGTA-TTGATCACACGATAAGACTCATGTACCTTTTT
1 TGCATGAGGTGGAGTGATAACTAAATATTGTACAT-ATCACACGATAAGACTCATGTACCTATAT
4918079 GG
65 GG
* * * * *
4918081 TGCATGAGGTGGAGTGATAATTAAATATTGTACATATCACTCGATGAGACTCGTGTATCTATATG
1 TGCATGAGGTGGAGTGATAACTAAATATTGTACATATCACACGATAAGACTCATGTACCTATATG
4918146 G
66 G
*
4918147 TGCATAAGGTGGAGTGA
1 TGCATGAGGTGGAGTGA
4918164 CTATATAGTA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
66 68 0.99
67 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (66 bp):
TGCATGAGGTGGAGTGATAACTAAATATTGTACATATCACACGATAAGACTCATGTACCTATATG
G
Found at i:4922498 original size:2 final size:2
Alignment explanation
Indices: 4922491--4922517 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4922481 AAAACTGCGA
4922491 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4922518 CATACGATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4931984 original size:18 final size:18
Alignment explanation
Indices: 4931961--4932011 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
4931951 TGTCACAAAC
4931961 GATAATCGTGCTTCCAAT
1 GATAATCGTGCTTCCAAT
**
4931979 GATAATCGTAATTCCAAT
1 GATAATCGTGCTTCCAAT
*
4931997 GATAATCTTGCTTCC
1 GATAATCGTGCTTCC
4932012 TACAGTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
GATAATCGTGCTTCCAAT
Found at i:4939134 original size:61 final size:61
Alignment explanation
Indices: 4939050--4939173 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
4939040 TAAGCATTCT
4939050 CGCTTAGTGAAGGTTTGGGTTACTTAGCTGAGTTTCGACCTCGAAAACGACTAAGGCCGCA
1 CGCTTAGTGAAGGTTTGGGTTACTTAGCTGAGTTTCGACCTCGAAAACGACTAAGGCCGCA
4939111 CGCTTAGTGAAGGTTTGGGTTACTTAGCTGAGTTTCGACCTCGAAAACGACTAAGGCCGCA
1 CGCTTAGTGAAGGTTTGGGTTACTTAGCTGAGTTTCGACCTCGAAAACGACTAAGGCCGCA
4939172 CG
1 CG
4939174 AGCTTGCTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (61 bp):
CGCTTAGTGAAGGTTTGGGTTACTTAGCTGAGTTTCGACCTCGAAAACGACTAAGGCCGCA
Found at i:4942932 original size:24 final size:26
Alignment explanation
Indices: 4942899--4942946 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4942889 AGAATAATCC
4942899 AAAAGTTTAATA-ATC-AATATAAAAA
1 AAAAGTTTAA-AGATCAAATATAAAAA
4942924 AAAAG-TTAAAGATCAAATATAAA
1 AAAAGTTTAAAGATCAAATATAAA
4942947 TATTATTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 7 0.33
25 13 0.62
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (26 bp):
AAAAGTTTAAAGATCAAATATAAAAA
Found at i:4945467 original size:18 final size:17
Alignment explanation
Indices: 4945426--4945475 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
4945416 ATCGAGTCTG
*
4945426 GGTCGTATCTGGATCAT
1 GGTCGAATCTGGATCAT
*
4945443 GGATCGAATCTGGATCCT
1 GG-TCGAATCTGGATCAT
4945461 AGGTCGAATCCTGGA
1 -GGTCGAAT-CTGGA
4945476 CTGTTGAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 19 0.68
19 7 0.25
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (17 bp):
GGTCGAATCTGGATCAT
Found at i:4952669 original size:10 final size:10
Alignment explanation
Indices: 4952654--4952688 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
4952644 TTTATCATAC
4952654 CAAATTCTCT
1 CAAATTCTCT
4952664 CAAATTCTCT
1 CAAATTCTCT
4952674 -AAATTTCTCT
1 CAAA-TTCTCT
4952684 CAAAT
1 CAAAT
4952689 ATTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.13
10 17 0.74
11 3 0.13
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:4952693 original size:12 final size:12
Alignment explanation
Indices: 4952657--4952695 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
4952647 ATCATACCAA
4952657 ATTCTCTC-AA-
1 ATTCTCTCAAAT
4952667 ATTCTCT-AAAT
1 ATTCTCTCAAAT
4952678 -TTCTCTCAAAT
1 ATTCTCTCAAAT
4952689 ATTCTCT
1 ATTCTCT
4952696 TTTTAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 15 0.60
11 4 0.16
12 6 0.24
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTCTCTCAAAT
Found at i:4953052 original size:111 final size:111
Alignment explanation
Indices: 4952815--4953146 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
4952805 TGGAAATCAC
*
4952815 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
4952880 T-ATTAGTTAATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
4952925 ATATATCGACATTTTGCTGATACAATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
4952990 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
4953036 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
4953101 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
4953147 TTTTTGTAAT
Statistics
Matches: 212, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
110 62 0.29
111 150 0.71
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:4954652 original size:18 final size:18
Alignment explanation
Indices: 4954629--4954668 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4954619 CCAGCAGCCA
4954629 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
4954647 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
4954665 CCGC
1 CCGC
4954669 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:4955011 original size:9 final size:9
Alignment explanation
Indices: 4954999--4955030 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4954989 ACCTGCTCAG
*
4954999 GACGACGAC
1 GACGACGAT
4955008 GACGACGAT
1 GACGACGAT
4955017 GACGACGAT
1 GACGACGAT
4955026 GACGA
1 GACGA
4955031 TGGTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.25, G:0.34, T:0.06
Consensus pattern (9 bp):
GACGACGAT
Found at i:4959751 original size:6 final size:6
Alignment explanation
Indices: 4959740--4959766 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4959730 CAATTGGATT
4959740 GAATTA GAATTA GAATTA GAATTA GAA
1 GAATTA GAATTA GAATTA GAATTA GAA
4959767 ATAGGTTTTC
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:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (6 bp):
GAATTA
Found at i:4964432 original size:70 final size:70
Alignment explanation
Indices: 4964309--4964444 Score: 236
Period size: 70 Copynumber: 1.9 Consensus size: 70
4964299 TTATGTAATA
*
4964309 TTTCAAGTTTGAATCTCGACGTAAACACTAACAAGTAACACTATTTTAAACATTTGAAGCCATGT
1 TTTCAAGTTTGAATCACGACGTAAACACTAACAAGTAACACTATTTTAAACATTTGAAGCCATGT
4964374 TCTTG
66 TCTTG
* * *
4964379 TTTCGAGTTTGAATCACGTCGTAAACACTAACAAGTAACACTATTTTATACATTTGAAGCCATGT
1 TTTCAAGTTTGAATCACGACGTAAACACTAACAAGTAACACTATTTTAAACATTTGAAGCCATGT
4964444 T
66 T
4964445 ATGTCTTTCA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (70 bp):
TTTCAAGTTTGAATCACGACGTAAACACTAACAAGTAACACTATTTTAAACATTTGAAGCCATGT
TCTTG
Found at i:4966053 original size:36 final size:36
Alignment explanation
Indices: 4966012--4966087 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
4966002 ATTTTCGGGA
*
4966012 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4966048 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4966084 TTTT
1 TTTT
4966088 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:4971027 original size:36 final size:36
Alignment explanation
Indices: 4970986--4971061 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
4970976 ATTTTCGGGA
*
4970986 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4971022 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
4971058 TTTT
1 TTTT
4971062 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:4972281 original size:27 final size:27
Alignment explanation
Indices: 4972250--4972317 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
4972240 TGAGATGGAG
*
4972250 AATGAGAAGATGAAAAAGGAAAAGATA
1 AATGAGAAGATGAAAAAGAAAAAGATA
4972277 AATGAGAAGATGAAAAAGAAAAAGATA
1 AATGAGAAGATGAAAAAGAAAAAGATA
4972304 AATGAGAAGATGAA
1 AATGAGAAGATGAA
4972318 TGAAAACCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (27 bp):
AATGAGAAGATGAAAAAGAAAAAGATA
Found at i:4973225 original size:20 final size:21
Alignment explanation
Indices: 4973200--4973255 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
4973190 ATTATATTTT
4973200 ATATTAATATAATTATAAA-A
1 ATATTAATATAATTATAAATA
* * *
4973220 ATATTATTTTTATTA-AAATA
1 ATATTAATATAATTATAAATA
*
4973240 ATATTTATATAATTAT
1 ATATTAATATAATTAT
4973256 TTATTTAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTAATATAATTATAAATA
Found at i:4973237 original size:17 final size:17
Alignment explanation
Indices: 4973212--4973251 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4973202 ATTAATATAA
*
4973212 TTATAAAAATATTATTT
1 TTATAAAAATAATATTT
*
4973229 TTATTAAAATAATATTT
1 TTATAAAAATAATATTT
*
4973246 ATATAA
1 TTATAA
4973252 TTATTTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAAAAATAATATTT
Found at i:4973275 original size:21 final size:22
Alignment explanation
Indices: 4973242--4973282 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4973232 TTAAAATAAT
*
4973242 ATTTATATAATTATTTATTTAA
1 ATTTATATAATTAATTATTTAA
4973264 ATTTAT-TAATTAATTATTT
1 ATTTATATAATTAATTATTT
4973283 TTTGTGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTATATAATTAATTATTTAA
Found at i:4973431 original size:24 final size:25
Alignment explanation
Indices: 4973381--4973438 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
4973371 AGCGATATGG
*
4973381 TAATATTT-TTTTTATAATTAATGT
1 TAATATTTATTGTTATAATTAATGT
**
4973405 TAATATTTATTGTTATGTTTAAT-T
1 TAATATTTATTGTTATAATTAATGT
4973429 TAA-ATTTATT
1 TAATATTTATT
4973439 ATGAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 12 0.40
25 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
TAATATTTATTGTTATAATTAATGT
Found at i:4975062 original size:42 final size:42
Alignment explanation
Indices: 4974986--4975085 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
4974976 ATGCCACAAT
* * *
4974986 GGTACATGCCTAGCCCTCCACTTCAGATGCCATCTCCTCAGG
1 GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
* * * *
4975028 GGTATATGCCAAGCCCACCAGTTCATATGTCATCTCCGCAGG
1 GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
* * *
4975070 GTTACATTCCTAGCCC
1 GGTACATGCCAAGCCC
4975086 GCCAGGTTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
Found at i:4975114 original size:21 final size:21
Alignment explanation
Indices: 4975063--4975114 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4975053 TATGTCATCT
*
4975063 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
4975084 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
4975105 CCGCAGGGTT
1 CCGCAGGGTT
4975115 TTATACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:4975692 original size:34 final size:34
Alignment explanation
Indices: 4975636--4975742 Score: 169
Period size: 34 Copynumber: 3.1 Consensus size: 34
4975626 ATAAATGTTT
4975636 TTAAAATATAAATTATAATATTCGAAATTTAAAA
1 TTAAAATATAAATTATAATATTCGAAATTTAAAA
* * * *
4975670 TTAAAATAAAAATAATATTATTCGAAATTTAAAT
1 TTAAAATATAAATTATAATATTCGAAATTTAAAA
*
4975704 TTAAAATATAAATTATAATATTCGAAATTTAACA
1 TTAAAATATAAATTATAATATTCGAAATTTAAAA
4975738 TTAAA
1 TTAAA
4975743 TTCAAGTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (34 bp):
TTAAAATATAAATTATAATATTCGAAATTTAAAA
Found at i:4976038 original size:30 final size:30
Alignment explanation
Indices: 4975993--4976068 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
4975983 AAAACTGAAT
*
4975993 TAAACGGGGACGGGGAAAAA-TCGTTTATGC
1 TAAACGGGGACGGGGAAAAACT-ATTTATGC
* * *
4976023 TAAACAGGGATGGGGAAAAACTATTTATGT
1 TAAACGGGGACGGGGAAAAACTATTTATGC
4976053 TAAACGGGGACGGGGA
1 TAAACGGGGACGGGGA
4976069 CGGGTTTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.34, T:0.20
Consensus pattern (30 bp):
TAAACGGGGACGGGGAAAAACTATTTATGC
Found at i:4976359 original size:19 final size:19
Alignment explanation
Indices: 4976335--4976372 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4976325 ATTCCAATGA
*
4976335 TTTTTTAAGCGGGGACGGG
1 TTTTTTAAACGGGGACGGG
4976354 TTTTTTAAACGGGGACGGG
1 TTTTTTAAACGGGGACGGG
4976373 GGGACCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.32
Consensus pattern (19 bp):
TTTTTTAAACGGGGACGGG
Found at i:4977014 original size:127 final size:127
Alignment explanation
Indices: 4976634--4977143 Score: 858
Period size: 127 Copynumber: 4.0 Consensus size: 127
4976624 GCGCTTTAAA
4976634 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
4976699 CAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCCCCCCCGGGAACGCGCCTTCACG
66 CAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCACG
* *
4976761 GTCCCCTAAGGAATAATATGTATTGACATAAATAGTTCCCGGGGGACATAATAAGTGACATAATA
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGAC---ATAAGTGACATAATA
* * * *
4976826 GGGTAATGATATCATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
63 GGGCAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCACG
*
4976891 GTCCCCTAAGGAATAATAGGTATTGACACGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
4976956 CAATGATAACATATTCTCGGACAAAATAATGGAAGGCGCTCCCCCGGGAACGCGCCTTCACG
66 CAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCACG
* *
4977018 GTCCCCTAAGGAATAATATGTATTGATATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* *
4977083 CAATGATAACATATTTTCTGACAAAATAATGAAAGGCGCGCCCCCGAGAACGCGCCTTCAC
66 CAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCAC
4977144 ATGAATAGTA
Statistics
Matches: 357, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
127 238 0.67
130 119 0.33
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (127 bp):
GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
CAATGATAACATATTCTCTGACAAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCACG
Found at i:4979011 original size:139 final size:139
Alignment explanation
Indices: 4978761--4979038 Score: 529
Period size: 139 Copynumber: 2.0 Consensus size: 139
4978751 TTGAGTTCGA
4978761 AACTCAACATCATTACGTGAATGATCGAGTGGTTCGTGATCGCTGCCAATTCTACCGTGTCTTTT
1 AACTCAACATCATTACGTGAATGATCGAGTGGTTCGTGATCGCTGCCAATTCTACCGTGTCTTTT
*
4978826 GGACTTACCCTTAATGTATTAATGCAGTCAAGTACTGTAAACCAGTTGTCCAAATTGATGGTACT
66 GGACTTACCCTCAATGTATTAATGCAGTCAAGTACTGTAAACCAGTTGTCCAAATTGATGGTACT
4978891 TTCTTGTAT
131 TTCTTGTAT
*
4978900 AACTCAACATCATTACGTGAATGATCGAGTGGTTCGTGATCGCTGCTAATTCTACCGTGTCTTTT
1 AACTCAACATCATTACGTGAATGATCGAGTGGTTCGTGATCGCTGCCAATTCTACCGTGTCTTTT
*
4978965 GGACTTACCCTCAGTGTATTAATGCAGTCAAGTACTGTAAACCAGTTGTCCAAATTGATGGTACT
66 GGACTTACCCTCAATGTATTAATGCAGTCAAGTACTGTAAACCAGTTGTCCAAATTGATGGTACT
4979030 TTCTTGTAT
131 TTCTTGTAT
4979039 GAGAATTCAA
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (139 bp):
AACTCAACATCATTACGTGAATGATCGAGTGGTTCGTGATCGCTGCCAATTCTACCGTGTCTTTT
GGACTTACCCTCAATGTATTAATGCAGTCAAGTACTGTAAACCAGTTGTCCAAATTGATGGTACT
TTCTTGTAT
Found at i:4981259 original size:51 final size:51
Alignment explanation
Indices: 4981180--4981307 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 51
4981170 TAGCAGTAAA
* **
4981180 GCGCCCCCTTGAACCGCGCTATATGCTGATTTGGCG-T-CACGTGGGGTATAGC
1 GCGCCCCC-TGAACCGCGCTATACGCTGACATGG-GTTACACGT-GGGTATAGC
* *
4981232 GCGCCCCCTGTACCGCGCTATACGCTGACATGGGTTACACGTGTGTATAGC
1 GCGCCCCCTGAACCGCGCTATACGCTGACATGGGTTACACGTGGGTATAGC
* **
4981283 GCGCCCCCTGATCCGTTCTATACGC
1 GCGCCCCCTGAACCGCGCTATACGC
4981308 CACGTAGGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 51 0.78
52 13 0.20
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (51 bp):
GCGCCCCCTGAACCGCGCTATACGCTGACATGGGTTACACGTGGGTATAGC
Found at i:4984484 original size:65 final size:65
Alignment explanation
Indices: 4984352--4984511 Score: 232
Period size: 65 Copynumber: 2.5 Consensus size: 65
4984342 GCACCAAGTG
* ***
4984352 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGAGTGCATCGATGCATGGCTTA
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* **
4984416 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
* *
4984481 TGCATCGGTGCATGGAATGCATTCGATGTTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT
4984512 CAATTAATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 27 0.32
65 58 0.68
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGGAGAA
Found at i:4984500 original size:17 final size:19
Alignment explanation
Indices: 4984462--4984508 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
4984452 ATATTCAGAG
4984462 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
4984481 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
4984498 TGCATTCGATG
1 TGCA-TCGATG
4984509 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:4984531 original size:65 final size:62
Alignment explanation
Indices: 4984352--4984558 Score: 211
Period size: 65 Copynumber: 3.2 Consensus size: 62
4984342 GCACCAAGTG
* **
4984352 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG-AGA
* *
4984416 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
4984480 A
62 A
* * * * *
4984481 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
4984546 TGCATCGGTGCAT
1 TGCATCGATGCAT
4984559 CACCTCAAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
63 2 0.02
64 35 0.29
65 78 0.64
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:4984751 original size:20 final size:21
Alignment explanation
Indices: 4984728--4984767 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4984718 GAATCGAATA
4984728 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
4984748 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
4984768 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:4985015 original size:2 final size:2
Alignment explanation
Indices: 4985004--4985047 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4984994 TAGCCAATTG
4985004 AT AT -T 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
4985045 AT A
1 AT A
4985048 GGCTGCTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4989871 original size:22 final size:21
Alignment explanation
Indices: 4989829--4989868 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4989819 GAGTTTGTTT
*
4989829 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4989850 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4989869 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4991848 original size:64 final size:61
Alignment explanation
Indices: 4991780--4991957 Score: 178
Period size: 64 Copynumber: 2.8 Consensus size: 61
4991770 GAACACTTGA
* * *
4991780 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCAGTCGATGTTTGAAAATAGCCTGAG
1 TGCATCGATGCACC-A--GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
* **
4991844 TGCATCGATGCATGGCCA-TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCA---CCAGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
** *
4991908 TGCATCGATGCATGGAGAATGCATCGGTGCATGAAATGCATTCGATGTTT
1 TGCATCGATGCA-CCAG--TGCATCGATGCATGAAATGCATTCGATGTTT
4991958 CAATTAATTC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 26 0.27
64 40 0.42
65 26 0.27
66 1 0.01
67 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (61 bp):
TGCATCGATGCACCAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:4991947 original size:17 final size:19
Alignment explanation
Indices: 4991908--4991954 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
4991898 ATATTCAGAG
4991908 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
4991927 TGCATCGGTGCAT-GA-AA
1 TGCATCGATGCATGGAGAA
4991944 TGCATTCGATG
1 TGCA-TCGATG
4991955 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
19 12 0.48
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:4991955 original size:65 final size:62
Alignment explanation
Indices: 4991799--4992004 Score: 225
Period size: 65 Copynumber: 3.2 Consensus size: 62
4991789 GCACCAAGTG
* ** * *
4991799 TGCATCGATGCATGAAATGCAGTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGGCCA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGG-GA
*
4991862 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATTCAGAGTGCATCGATGCATGG-G-A
* * * * *
4991927 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAATTAATTCACTAATGCATCGATGCATGGTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-ATTCA-GAGTGCATCGATGCATGG--G
4991991 A
62 A
*
4991992 TGCATCGGTGCAT
1 TGCATCGATGCAT
4992005 CACCTCAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
63 29 0.23
64 37 0.30
65 57 0.46
66 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATTCAGAGTGCATCGATGCATGGGA
Found at i:4992197 original size:20 final size:21
Alignment explanation
Indices: 4992174--4992213 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4992164 GAATCGAATA
4992174 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
4992194 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
4992214 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:4993617 original size:35 final size:34
Alignment explanation
Indices: 4993532--4993618 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
4993522 ATTTGGTATT
* *
4993532 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGA
* *
4993566 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGA
4993604 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
4993619 ACTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGA
Found at i:4994200 original size:18 final size:18
Alignment explanation
Indices: 4994177--4994215 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4994167 AAAGGCGATG
*
4994177 GCGACATCATATATGGCT
1 GCGACATCATAAATGGCT
*
4994195 GCGACATCATAAATGGTT
1 GCGACATCATAAATGGCT
4994213 GCG
1 GCG
4994216 GTGGCTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (18 bp):
GCGACATCATAAATGGCT
Found at i:4995908 original size:17 final size:18
Alignment explanation
Indices: 4995888--4995921 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4995878 GAATTATATT
4995888 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
4995905 AGTAAAATACTTAAATA
1 AGTAAAATACTTAAATA
4995922 CATAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:5001602 original size:18 final size:21
Alignment explanation
Indices: 5001581--5001619 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
5001571 TTGTAAGGTA
5001581 ATTT-TTTTA-ATAT-ATTAT
1 ATTTATTTTATATATGATTAT
5001599 ATTTATTTTATATATGATTAT
1 ATTTATTTTATATATGATTAT
5001620 TTGAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTATTTTATATATGATTAT
Found at i:5001863 original size:16 final size:16
Alignment explanation
Indices: 5001841--5001880 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
5001831 TTGCATATAT
5001841 AACTCTCAATATTTCA
1 AACTCTCAATATTTCA
*
5001857 GACTCTCAATATTTCA
1 AACTCTCAATATTTCA
5001873 AACTCTCA
1 AACTCTCA
5001881 GAATGACGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (16 bp):
AACTCTCAATATTTCA
Found at i:5006643 original size:21 final size:21
Alignment explanation
Indices: 5006594--5006643 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
5006584 TAGCATCAGC
5006594 ACTGTTCATGGTATCGATACT
1 ACTGTTCATGGTATCGATACT
** *
5006615 ACAATTCATGGTATCGATATT
1 ACTGTTCATGGTATCGATACT
5006636 ACTGTTCA
1 ACTGTTCA
5006644 CACAATATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (21 bp):
ACTGTTCATGGTATCGATACT
Found at i:5006668 original size:20 final size:20
Alignment explanation
Indices: 5006635--5006704 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
5006625 GTATCGATAT
* *
5006635 TACTGTTCACACAATATCAG
1 TACTATTCATACAATATCAG
*
5006655 TATTATTCATACAATATCAG
1 TACTATTCATACAATATCAG
*
5006675 TACTATCCATACAATAT--G
1 TACTATTCATACAATATCAG
5006693 TTACTATTCATA
1 -TACTATTCATA
5006705 AAAAATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 1 0.02
19 10 0.23
20 32 0.74
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (20 bp):
TACTATTCATACAATATCAG
Found at i:5008073 original size:19 final size:20
Alignment explanation
Indices: 5008037--5008084 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5008027 TCTAAATCAT
* *
5008037 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
5008057 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
5008076 CTTTCAAAA
1 TTTTCAAAA
5008085 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:5009303 original size:21 final size:21
Alignment explanation
Indices: 5009277--5009345 Score: 129
Period size: 21 Copynumber: 3.3 Consensus size: 21
5009267 CAGAACAAGT
*
5009277 AGTATCGGTACTCATTCATTG
1 AGTATCAGTACTCATTCATTG
5009298 AGTATCAGTACTCATTCATTG
1 AGTATCAGTACTCATTCATTG
5009319 AGTATCAGTACTCATTCATTG
1 AGTATCAGTACTCATTCATTG
5009340 AGTATC
1 AGTATC
5009346 GATCCTACCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (21 bp):
AGTATCAGTACTCATTCATTG
Done.