Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_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: 2005044
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:257379 original size:421 final size:421
Alignment explanation
Indices: 256502--257523 Score: 1597
Period size: 421 Copynumber: 2.4 Consensus size: 421
256492 ATTTAAGAAT
*
256502 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
* *
256567 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA--ACTAAATTATAC
60 GGATCAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATA-AAAAAAGTACTAAATTATAC
* * * *
256630 CCATTTAAAAAGTTATGGGCCAATTAAAAAATTGAATTAAGTAATAAGTATGGATCAATTTCATA
124 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCAGA
* *
256695 TGCAAATAAATTTTGGAGGATTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAAT
189 TGCAAATAAAATTTGGAGGACTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAAT
* * * * *
256760 TAAACAACACACATTGATGGGATCAAATCTAAATAGTTTTAAATTGTGATGTTGAAATTAATACA
254 TAAACAACACACA-T-AAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATACA
*
256825 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGAAATA
317 AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGAAATA
*
256890 AGTATGGGTCAATTTTAGATGCAAATAAAATTTGGAGGAC
382 AGTATGGGTCAATTTCAGATGCAAATAAAATTTGGAGGAC
256930 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* *
256995 AATCAAAATAATTTTAAATTTTGAGGCTAAAATTAATATAAAAAAGTACTAAATTATACCCATTT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATA-AAAAAAGTACTAAATTATACCCATTT
* *
257060 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGATGCAAA
130 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCAGATGCAAA
* * *
257125 TAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAATATTTAAATATATTAAACA
195 TAAAATTTGGAGGACTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACA
*
257190 ACACA-A-AAGGGATCAAATCAAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAAGT
260 ACACACATAAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATAC-AAAAAAGT
257253 ACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAAA-AAGTATG
324 ACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAG-AAATAAGTATG
*
257317 GGTCAATTTCAGGTGCAAATAAAATTTGGAGGAC
388 GGTCAATTTCAGATGCAAATAAAATTTGGAGGAC
*
257351 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAACATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* * *
257416 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAAAAAAATGTTCTAAAATATACTCATTT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAAAAAAA-GTACTAAATTATACCCATTT
* *
257481 AAAAAGTTATGAGCCAA-TTAATAAATATAAATAAGTAATAAGT
130 AAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
257524 TGAGAAAAAA
Statistics
Matches: 554, Mismatches: 34, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
420 52 0.09
421 252 0.45
422 51 0.09
423 1 0.00
424 143 0.26
427 1 0.00
428 54 0.10
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (421 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACCCATTTA
AAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCAGATGCAAAT
AAAATTTGGAGGACTAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
CACACATAAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAGTAC
TAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGAAATAAGTATGGGT
CAATTTCAGATGCAAATAAAATTTGGAGGAC
Found at i:257380 original size:211 final size:210
Alignment explanation
Indices: 256502--257523 Score: 1593
Period size: 210 Copynumber: 4.8 Consensus size: 210
256492 ATTTAAGAAT
*
256502 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
* *
256567 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA--ACTAAATTATAC
60 GGATCAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * * *
256630 CCATTTAAAAAGTTATGGGCCAATTAAAAAATTGAATTAAGTAATAAGTATGGATCAATTTCATA
125 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
* *
256695 TGCAAATAAATTTTGGAGGAT
190 TGCAAATAAAATTTGGAGGAC
* * *
256716 TAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---AAGGG
* * * *
256781 ATCAAATCTAAATAGTTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
62 ATCAAATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
* * *
256846 ATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGAAATAAGTATGGGTCAATTTTAGATG
127 ATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATG
256911 CAAATAAAATTTGGAGGAC
192 CAAATAAAATTTGGAGGAC
256930 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* * *
256995 AATCAAAATAATTTTAAATTTTGAGGCTAAAATTAATATAAAAAAGTACTAAATTATACCCATTT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
257060 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
257125 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
*
257140 TAAATTGAACAAATATGAAATTACAAATAAATATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
*
257205 AATCAAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAAGTACTAAATTATACCCATT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTATACCCATT
* *
257270 TAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAAAAAGTATGGGTCAATTTCAGGTGCAA
130 TAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
257335 ATAAAATTTGGAGGAC
195 ATAAAATTTGGAGGAC
*
257351 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAACATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* * *
257416 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATA-AAAAAATGTTCTAAAATATACTCATT
66 AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAA-GTACTAAATTATACCCATT
* *
257480 TAAAAAGTTATGAGCCAA-TTAATAAATATAAATAAGTAATAAGT
130 TAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
257524 TGAGAAAAAA
Statistics
Matches: 761, Mismatches: 42, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
209 10 0.01
210 297 0.39
211 203 0.27
212 49 0.06
213 1 0.00
214 201 0.26
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
AATCAAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:257560 original size:2 final size:2
Alignment explanation
Indices: 257547--257655 Score: 73
Period size: 2 Copynumber: 54.5 Consensus size: 2
257537 AAAACAACTA
* * *
257547 AT AT AG AT AT AT AT AT AT AT AT AT A- AT AT AA AGT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
257589 AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
* * *
257631 AT GT AT AA AGT AT AA AT -T AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT A
257656 CCAGGTATAA
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
1 4 0.05
2 73 0.90
3 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:257599 original size:35 final size:35
Alignment explanation
Indices: 257547--257655 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
257537 AAAACAACTA
*
257547 ATATAGATATATA-TATATATATATAA-TATAAAGT
1 ATATATATATATATTATATATATA-AACTATAAAGT
* * *
257581 ATATGTATATGTATTATATATATAAACTATATAGT
1 ATATATATATATATTATATATATAAACTATAAAGT
* * * *
257616 TTATATATATATA-T-TATGTATAAAGTATAAATT
1 ATATATATATATATTATATATATAAACTATAAAGT
257649 ATATATA
1 ATATATA
257656 CCAGGTATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
33 21 0.34
34 13 0.21
35 27 0.44
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (35 bp):
ATATATATATATATTATATATATAAACTATAAAGT
Found at i:257826 original size:22 final size:22
Alignment explanation
Indices: 257798--257863 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 22
257788 ATATATTGTG
257798 TAAATTATATAGTTTAT-TGATA
1 TAAATTATATAGTTTATAT-ATA
257820 TAAATTATATAGTTTATATATA
1 TAAATTATATAGTTTATATATA
*
257842 TATATATATATATAGTATATAT
1 TA-A-AT-TATATAGTTTATAT
257864 GGGTTAGGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 22 0.56
23 2 0.05
24 2 0.05
25 13 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TAAATTATATAGTTTATATATA
Found at i:257839 original size:2 final size:2
Alignment explanation
Indices: 257834--257863 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
257824 TTATATAGTT
257834 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
257864 GGGTTAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:257952 original size:20 final size:20
Alignment explanation
Indices: 257924--257993 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
257914 AACTACATAA
*
257924 TATAATTTATATTTATATAC
1 TATATTTTATATTTATATAC
257944 TATATTTTATCCTATTTATATAAAC
1 TATATTTTA---TATTTATAT--AC
* *
257969 TATAGTTTACATTTATATAC
1 TATATTTTATATTTATATAC
257989 TATAT
1 TATAT
257994 ATATATGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 14 0.34
22 8 0.20
23 9 0.22
25 10 0.24
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (20 bp):
TATATTTTATATTTATATAC
Found at i:258022 original size:18 final size:18
Alignment explanation
Indices: 257961--258105 Score: 100
Period size: 18 Copynumber: 7.7 Consensus size: 18
257951 TATCCTATTT
257961 ATATAAACTATAGTTTAC
1 ATATAAACTATAGTTTAC
* *
257979 ATTTATATACTATA---TAT
1 A--TATAAACTATAGTTTAC
*
257996 ATATGAACTATAGTTTAC
1 ATATAAACTATAGTTTAC
*
258014 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAC
*
258034 ATACT-AACTATAGTTTAA
1 ATA-TAAACTATAGTTTAC
*
258052 ATATAAACTATAGTTGATATTT
1 ATATAAACTATAGTT--TA--C
258074 ATATATGAACTATAGTTTAC
1 ATATA--AACTATAGTTTAC
*
258094 ATATGAACTATA
1 ATATAAACTATA
258106 TATATAAACT
Statistics
Matches: 101, Mismatches: 11, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
15 9 0.09
17 4 0.04
18 39 0.39
20 31 0.31
21 1 0.01
22 7 0.07
24 10 0.10
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (18 bp):
ATATAAACTATAGTTTAC
Found at i:258024 original size:33 final size:33
Alignment explanation
Indices: 257960--258145 Score: 133
Period size: 33 Copynumber: 5.2 Consensus size: 33
257950 TTATCCTATT
* *
257960 TATATAAACTATAGTTTACATTTATATACTATATA
1 TATATGAACTATAGTTTACA--TATAAACTATATA
257995 TATATGAACTATAGTTTACATATAAACTATATA
1 TATATGAACTATAGTTTACATATAAACTATATA
* *
258028 GTTTATATACTAACTATAGTTTAAATATAAACTATAGTTGATATTTA
1 ---TATAT--GAACTATAGTTTACATATAAAC------T-ATA--TA
*
258075 TATATGAACTATAGTTTACATATGAACTATATA
1 TATATGAACTATAGTTTACATATAAACTATATA
* *
258108 TATA--AACTATATAGTTTACATATGACCTATATA
1 TATATGAAC--TATAGTTTACATATAAACTATATA
258141 TATAT
1 TATAT
258146 ATATATACTA
Statistics
Matches: 126, Mismatches: 8, Indels: 35
0.75 0.05 0.21
Matches are distributed among these distances:
31 3 0.02
33 45 0.36
35 22 0.17
36 6 0.05
38 20 0.16
42 19 0.15
44 6 0.05
45 3 0.02
47 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (33 bp):
TATATGAACTATAGTTTACATATAAACTATATA
Found at i:258107 original size:20 final size:20
Alignment explanation
Indices: 257996--258199 Score: 86
Period size: 20 Copynumber: 10.7 Consensus size: 20
257986 TACTATATAT
257996 ATATGAAC--TATAGTTTAC
1 ATATGAACTATATAGTTTAC
* *
258014 ATATAAACTATATAGTTTAT
1 ATATGAACTATATAGTTTAC
*
258034 ATACT-AAC--TATAGTTTAA
1 ATA-TGAACTATATAGTTTAC
* * *
258052 ATATAAACTATAGTTGATATTTAT
1 ATATGAACTATA--T-A-GTTTAC
258076 ATATGAAC--TATAGTTTAC
1 ATATGAACTATATAGTTTAC
258094 ATATGAACTATATA---T--
1 ATATGAACTATATAGTTTAC
258109 ATA--AACTATATAGTTTAC
1 ATATGAACTATATAGTTTAC
* * *
258127 ATATGACCTATATA-TATAT
1 ATATGAACTATATAGTTTAC
*
258146 ATAT--A-TACTATAGTTGATAT
1 ATATGAACTA-TATAGTT--TAC
*
258166 TTAT-ATACTATATAGTTTAC
1 ATATGA-ACTATATAGTTTAC
*
258186 ATATGACCTATATA
1 ATATGAACTATATA
258200 TATATACTAT
Statistics
Matches: 142, Mismatches: 17, Indels: 52
0.67 0.08 0.25
Matches are distributed among these distances:
13 9 0.06
15 3 0.02
16 3 0.02
17 6 0.04
18 38 0.27
19 8 0.06
20 48 0.34
21 2 0.01
22 11 0.08
23 3 0.02
24 11 0.08
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (20 bp):
ATATGAACTATATAGTTTAC
Found at i:258119 original size:42 final size:39
Alignment explanation
Indices: 257960--258160 Score: 173
Period size: 38 Copynumber: 5.4 Consensus size: 39
257950 TTATCCTATT
*
257960 TATATAAACTATAGTTTACAT-T----TATATACTATATA
1 TATATGAACTATAGTTTACATATAAACTATATA-TATATA
257995 TATATGAACTATAGTTTACATATAAACTATATAGT-T-TA
1 TATATGAACTATAGTTTACATATAAACTATATA-TATATA
* *
258033 TATACT-AACTATAGTTTAAATATAAACTATAGTTGATATTTA
1 TATA-TGAACTATAGTTTACATATAAACTATA--T-ATATATA
*
258075 TATATGAACTATAGTTTACATATGAACTATATATATA-A
1 TATATGAACTATAGTTTACATATAAACTATATATATATA
* * *
258113 -A-CT--A-TATAGTTTACATATGACCTATATATATATA
1 TATATGAACTATAGTTTACATATAAACTATATATATATA
258147 TATAT--ACTATAGTT
1 TATATGAACTATAGTT
258161 GATATTTATA
Statistics
Matches: 141, Mismatches: 9, Indels: 30
0.78 0.05 0.17
Matches are distributed among these distances:
33 27 0.19
34 2 0.01
35 21 0.15
36 4 0.03
37 8 0.06
38 31 0.22
39 6 0.04
40 10 0.07
41 3 0.02
42 29 0.21
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (39 bp):
TATATGAACTATAGTTTACATATAAACTATATATATATA
Found at i:258142 original size:2 final size:2
Alignment explanation
Indices: 258135--258259 Score: 78
Period size: 2 Copynumber: 60.0 Consensus size: 2
258125 ACATATGACC
*
258135 TA TA TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA
* * ** * *
258178 TA GTT TA CA TA TGA CC TA TA TA TA TA TA CTA TA GTT TA TA TT TA
1 TA -TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA
258222 TA TA T- TA TA TA TA T- TA TA TA TA TA TA -A TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
258260 ATTTACATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
1 4 0.04
2 79 0.82
3 13 0.14
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:258204 original size:33 final size:33
Alignment explanation
Indices: 258084--258210 Score: 160
Period size: 33 Copynumber: 4.1 Consensus size: 33
258074 ATATATGAAC
* *
258084 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGACCTATATATATATACTA
258117 TATAGTTTACATATGACCTATATATATATA-TA
1 TATAGTTTACATATGACCTATATATATATACTA
* * *
258149 TATACTATA-GT-TGA--TAT-T-TATATACTA
1 TATAGTTTACATATGACCTATATATATATACTA
258176 TATAGTTTACATATGACCTATATATATATACTA
1 TATAGTTTACATATGACCTATATATATATACTA
258209 TA
1 TA
258211 GTTTATATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
26 6 0.08
27 10 0.13
28 4 0.05
29 3 0.04
30 3 0.04
31 4 0.05
32 10 0.13
33 39 0.49
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TATAGTTTACATATGACCTATATATATATACTA
Found at i:258217 original size:20 final size:22
Alignment explanation
Indices: 258194--258281 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
258184 ACATATGACC
* *
258194 TATATATATATACTATA-GT-T
1 TATATATATATAATATATATAT
* *
258214 TATATTTATATATTATATATAT
1 TATATATATATAATATATATAT
258236 TATATATATATAATATATAGTAT
1 TATATATATATAATATATA-TAT
* * *
258259 AATTTACATATGAACTATATATA
1 TATATATATAT-AA-TATATATA
258282 AAAATCCTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
20 15 0.27
21 1 0.02
22 18 0.33
23 11 0.20
24 4 0.07
25 6 0.11
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
TATATATATATAATATATATAT
Found at i:258252 original size:53 final size:52
Alignment explanation
Indices: 258135--258254 Score: 163
Period size: 53 Copynumber: 2.3 Consensus size: 52
258125 ACATATGACC
258135 TATATATATATATATATACTATAGTTGATATTTATATACTATATAGTTTACA
1 TATATATATATATATATACTATAGTTGATATTTATATACTATATAGTTTACA
** * * *
258187 TATGACCTATATATATATACTATAGTTTATATTTATATATTATATA-TATTATA
1 TAT-ATATATATATATATACTATAGTTGATATTTATATACTATATAGT-TTACA
258240 TATATATA-ATATATA
1 TATATATATATATATA
258255 GTATAATTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 7 0.12
52 7 0.12
53 45 0.76
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (52 bp):
TATATATATATATATATACTATAGTTGATATTTATATACTATATAGTTTACA
Found at i:258342 original size:33 final size:33
Alignment explanation
Indices: 258303--258535 Score: 144
Period size: 33 Copynumber: 6.5 Consensus size: 33
258293 CCCTAAACCC
*
258303 TAAACTATACATTATATAGTTTATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
* *
258336 TAAACTATATAATATATATAGACTATATGGTATATATATA
1 TAAACTATAT-AT-TATATAG--TTTAT--TA-GTATATA
*
258376 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
*** *
258409 TAAACTATATAGTATATATAAACTATATATTATATA
1 TAAACTATATA-T-TATATAGTTTAT-TAGTATATA
* * * * *
258445 GTTCATTAGTATATATAACCTATA-TAGTATATGGTATATA
1 --T-A-AACTATATATTA--TATAGT-TTAT-TAGTATATA
* * *
258485 CAAACTATATATTTTATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
*
258518 TAAACTATATAGTATATA
1 TAAACTATATATTATATA
258536 TAAACTATAT
Statistics
Matches: 153, Mismatches: 29, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
33 49 0.32
34 11 0.07
35 16 0.10
36 19 0.12
37 5 0.03
38 9 0.06
39 6 0.04
40 38 0.25
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTTATTAGTATATA
Found at i:258428 original size:51 final size:51
Alignment explanation
Indices: 258366--258549 Score: 280
Period size: 51 Copynumber: 3.5 Consensus size: 51
258356 GACTATATGG
258366 TATA-TATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
1 TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
*
258416 TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTA
1 TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
*
258467 TATAGTATATGGTATATACAAACTATATATTTTATAGTTCATTAGTATATATAAACTA
1 TATAG--TA---TATAT--AAACTATATATTATATAGTTCATTAGTATATATAAACTA
258525 TATAGTATATATAAACTATATATTA
1 TATAGTATATATAAACTATATATTA
258550 ATTTATTAAT
Statistics
Matches: 122, Mismatches: 4, Indels: 15
0.87 0.03 0.11
Matches are distributed among these distances:
50 4 0.03
51 62 0.51
53 7 0.06
56 7 0.06
58 42 0.34
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (51 bp):
TATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTA
Found at i:258460 original size:73 final size:73
Alignment explanation
Indices: 258303--258444 Score: 230
Period size: 73 Copynumber: 1.9 Consensus size: 73
258293 CCCTAAACCC
* * * *
258303 TAAACTATACATTATATAGTTTATTAGTATATATAAACTATATAATATATATAGACTATATGGTA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACTATATAGTA
258368 TATATATA
66 TATATATA
* *
258376 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATATTA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACTATATAGTA
258441 TATA
66 TATA
258445 GTTCATTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (73 bp):
TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAATATATATAAACTATATAGTA
TATATATA
Found at i:258461 original size:2 final size:2
Alignment explanation
Indices: 258330--258444 Score: 51
Period size: 2 Copynumber: 55.0 Consensus size: 2
258320 AGTTTATTAG
* * *
258330 TA TA TA TA AA CTA TA TA -A TA TA TA TA GA CTA TA TGG TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA
* *
258372 TA TA TA AA CTA TA TA T- TA TA TA GT- TCA T- TA GTA TA TA TA AA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA T-A TA TA -TA TA TA TA TA
*
258413 CTA TA TA GTA TA TA TA AA CTA TA TA T- TA TA TA
1 -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
258445 GTTCATTAGT
Statistics
Matches: 86, Mismatches: 12, Indels: 30
0.67 0.09 0.23
Matches are distributed among these distances:
1 5 0.06
2 69 0.80
3 12 0.14
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:258474 original size:18 final size:18
Alignment explanation
Indices: 258327--258546 Score: 134
Period size: 18 Copynumber: 12.1 Consensus size: 18
258317 TATAGTTTAT
258327 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
258345 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
*
258363 TGGTATATATATATAAACTATA
1 ---TA-GTATATATAAACTATA
**
258385 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
258400 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
258418 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* ** *
258436 TATTATATAGTTCATTAGTA
1 TAGTATATA-TAAACTA-TA
* *
258456 TA-TATAACCTATATAGTATA
1 TAGTAT-A--TATAAACTATA
* *
258476 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
* **
258494 TA-T-TTTAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
258509 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
258527 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
258545 TA
1 TA
258547 TTAATTTATT
Statistics
Matches: 156, Mismatches: 26, Indels: 40
0.70 0.12 0.18
Matches are distributed among these distances:
15 8 0.05
16 14 0.09
17 15 0.10
18 75 0.48
19 9 0.06
20 9 0.06
21 9 0.06
22 17 0.11
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:258484 original size:58 final size:58
Alignment explanation
Indices: 258414--258535 Score: 208
Period size: 58 Copynumber: 2.1 Consensus size: 58
258404 ATATATAAAC
* *
258414 TATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
1 TATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
* *
258472 TATATGGTATATACAAACTATATATTTTATAGTTCATTAGTATATATAAACTATATAG
1 TATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
258530 TATATA
1 TATATA
258536 TAAACTATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (58 bp):
TATATAGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
Found at i:258570 original size:109 final size:109
Alignment explanation
Indices: 258370--258570 Score: 316
Period size: 109 Copynumber: 1.8 Consensus size: 109
258360 ATATGGTATA
*
258370 TATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTAT
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTAT
* * *
258435 ATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGG
66 ATATTATATAGTTAATTAGAACATATAACCTATATAGTATATGG
*
258479 TATATACAAACTATATATTTTATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTAT
1 TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTAT
*
258544 ATATTAATTTA-TTAATATA-AACATATA
66 ATATT-ATATAGTTAAT-TAGAACATATA
258571 TATTAATTGA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
109 78 0.93
110 6 0.07
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (109 bp):
TATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTAT
ATATTATATAGTTAATTAGAACATATAACCTATATAGTATATGG
Found at i:258590 original size:26 final size:25
Alignment explanation
Indices: 258533--258590 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
258523 TATATAGTAT
* **
258533 ATATAAACTATATATTAATTTATTA
1 ATATAAACTATATATTAATTAAAGA
258558 ATATAAACATATATATTAATTGAAAGA
1 ATATAAAC-TATATATTAATT-AAAGA
258585 AT-TAAA
1 ATATAAA
258591 AAAATATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 16 0.57
27 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
ATATAAACTATATATTAATTAAAGA
Found at i:258672 original size:62 final size:61
Alignment explanation
Indices: 258605--258742 Score: 179
Period size: 62 Copynumber: 2.2 Consensus size: 61
258595 TATAAGGATC
* * *
258605 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATCATAA-CATTAAATTTGGATT
1 AAATTGAAAAAATTTGAAATATGAAGCTTAAATTAATAAATCA-AATCATTAAATTTGGACT
* * * *
258666 AAAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTAAATTATTAAATTTGGACT
1 -AAATTGAAAAAATTTGAAATATGAAGCTTAAATTAATAAATCAAATCATTAAATTTGGACT
*
258728 AAATTGAATAAATTT
1 AAATTGAAAAAATTT
258743 AAAACTAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
61 15 0.23
62 51 0.77
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.36
Consensus pattern (61 bp):
AAATTGAAAAAATTTGAAATATGAAGCTTAAATTAATAAATCAAATCATTAAATTTGGACT
Found at i:261279 original size:14 final size:14
Alignment explanation
Indices: 261260--261306 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
261250 ATTTTTTCTT
261260 TATATAAATTAAAC
1 TATATAAATTAAAC
261274 TATAT-AATT----
1 TATATAAATTAAAC
261283 TATATAAATTAAAC
1 TATATAAATTAAAC
*
261297 TATATTAATT
1 TATATAAATT
261307 TTTCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:261284 original size:23 final size:24
Alignment explanation
Indices: 261258--261307 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
261248 TTATTTTTTC
261258 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
261281 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
261305 TTT
1 TTT
261308 TTCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:261597 original size:16 final size:16
Alignment explanation
Indices: 261576--261630 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
261566 TGGATCATTT
*
261576 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
261592 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
*
261608 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
261624 ACAGGTC
1 ACAGGTC
261631 GGGTAATACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:261949 original size:24 final size:24
Alignment explanation
Indices: 261922--261979 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
261912 GCTTGCAAAT
* *
261922 GAACATGTTTGCGACCATATAAAC
1 GAACATGTTCGAGACCATATAAAC
261946 GAACATGTTCGAGACCATATAAAC
1 GAACATGTTCGAGACCATATAAAC
* *
261970 AAATATGTTC
1 GAACATGTTC
261980 TCGAACGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (24 bp):
GAACATGTTCGAGACCATATAAAC
Found at i:264378 original size:3 final size:3
Alignment explanation
Indices: 264372--264396 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
264362 ATACATCTGT
264372 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
264397 CTTAGTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:268950 original size:6 final size:6
Alignment explanation
Indices: 268939--268963 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
268929 AATATTGTAG
268939 ATTATA ATTATA ATTATA ATTATA A
1 ATTATA ATTATA ATTATA ATTATA A
268964 CGTACCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:270503 original size:42 final size:42
Alignment explanation
Indices: 270395--270505 Score: 186
Period size: 42 Copynumber: 2.6 Consensus size: 42
270385 ATTCCGGTGC
* * *
270395 TTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTCCCGTGT
1 TTGTTTCACGTAATTCGTTTTCCGGAAAACATTTTCCCATGT
*
270437 TTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCCATGT
1 TTGTTTCACGTAATTCGTTTTCCGGAAAACATTTTCCCATGT
270479 TTGTTTCACGTAATTCGTTTTCCGGAA
1 TTGTTTCACGTAATTCGTTTTCCGGAA
270506 TGTAATTCAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (42 bp):
TTGTTTCACGTAATTCGTTTTCCGGAAAACATTTTCCCATGT
Found at i:270721 original size:10 final size:10
Alignment explanation
Indices: 270706--270751 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
270696 TATTTAAAAT
270706 ATATTTATTA
1 ATATTTATTA
270716 ATATTTATAATA
1 ATATTTAT--TA
270728 ATATTATATT-
1 ATATT-TATTA
270738 ATATTT-TTA
1 ATATTTATTA
270747 ATATT
1 ATATT
270752 ATATAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:270739 original size:26 final size:25
Alignment explanation
Indices: 270677--270739 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
270667 CATTTTCATC
270677 AAAATATTA-ATTATTAAAATATTT
1 AAAATATTATATTATTAAAATATTT
*
270701 AAAATA-TAT-TTATTAATAT-TTAT
1 AAAATATTATATTATTAAAATATT-T
270724 AATAATATTATATTAT
1 AA-AATATTATATTAT
270740 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 14 0.42
24 10 0.30
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTATATTATTAAAATATTT
Found at i:270741 original size:22 final size:23
Alignment explanation
Indices: 270694--270755 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 23
270684 TAATTATTAA
*
270694 AATATTTAAAAT-ATATT-TATT
1 AATATTTATAATAATATTATATT
270715 AATATTTATAATAATATTATATT
1 AATATTTATAATAATATTATATT
270738 -ATATTT-T--TAATATTATAT
1 AATATTTATAATAATATTATAT
270756 AAAATAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 11 0.29
21 12 0.32
22 11 0.29
23 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATTTATAATAATATTATATT
Found at i:270808 original size:23 final size:24
Alignment explanation
Indices: 270782--270865 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
270772 TTATAATAAT
270782 ATAAGATATTTTATTT-TATTTTA
1 ATAAGATATTTTATTTATATTTTA
* *
270805 ATAATATATTTTTTTTATATTTTA
1 ATAAGATATTTTATTTATATTTTA
**
270829 ATAATGA-ATAATATTTATATATTTCA
1 ATAA-GATATTTTATTTATAT-TTT-A
270855 AT-A-ATATTTTA
1 ATAAGATATTTTA
270866 GTAAAGATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
23 15 0.31
24 25 0.52
25 5 0.10
26 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (24 bp):
ATAAGATATTTTATTTATATTTTA
Found at i:270825 original size:24 final size:24
Alignment explanation
Indices: 270782--270861 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 24
270772 TTATAATAAT
* *
270782 ATAAGATATTTTATTT-TATTTTA
1 ATAATATATTTTTTTTATATTTTA
270805 ATAATATATTTTTTTTATATTTTA
1 ATAATATATTTTTTTTATATTTTA
* * * *
270829 ATAATGAATAATATTTATATATTTCA
1 ATAAT--ATATTTTTTTTATATTTTA
270855 ATAATAT
1 ATAATAT
270862 TTTAGTAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
23 14 0.29
24 14 0.29
26 20 0.42
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (24 bp):
ATAATATATTTTTTTTATATTTTA
Found at i:270986 original size:14 final size:14
Alignment explanation
Indices: 270924--270988 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
270914 GCATTATTAC
270924 TTTAATAAATAATGT
1 TTTAATAAATAAT-T
* *
270939 TTAAATAATATTATT
1 TTTAATAA-ATAATT
*
270954 TATTATATTTAAT-ATT
1 T-TTA-A-TAAATAATT
270970 TTTAATAAATAATT
1 TTTAATAAATAATT
270984 TTTAA
1 TTTAA
270989 AAAACTCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.10
14 9 0.22
15 12 0.30
16 10 0.25
17 3 0.08
18 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTAATAAATAATT
Found at i:271117 original size:20 final size:20
Alignment explanation
Indices: 271059--271108 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
271049 TTTTCAGATG
271059 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
271079 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
271099 TTTTCCAGAA
1 TTTTCCAGAA
271109 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:271127 original size:15 final size:15
Alignment explanation
Indices: 271091--271172 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
271081 TTCCAGAAAT
**
271091 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
271106 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
271120 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
271135 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
271150 GTAATTCAAACTCCA
1 GTAATTCAAATTCCA
271165 GTAATTCA
1 GTAATTCA
271173 TTTTCTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:271143 original size:30 final size:30
Alignment explanation
Indices: 271091--271172 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
271081 TTCCAGAAAT
271091 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
271120 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
***
271150 GTAATTCAAACTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
271173 TTTTCTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:271168 original size:45 final size:44
Alignment explanation
Indices: 271091--271177 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
271081 TTCCAGAAAT
** *
271091 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
271135 GTAATTCAAATTCCAGTAATTCAAACTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAACTCCAGTAATTCATTTTC
271178 TGGAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
Found at i:271905 original size:7 final size:7
Alignment explanation
Indices: 271895--271981 Score: 54
Period size: 7 Copynumber: 12.7 Consensus size: 7
271885 TATATATATA
271895 ATATTTT
1 ATATTTT
271902 ATATTTT
1 ATATTTT
*
271909 -TATATT
1 ATATTTT
*
271915 A-ATTAT
1 ATATTTT
* *
271921 ATATATA
1 ATATTTT
271928 ATATTTT
1 ATATTTT
*
271935 TTATTTT
1 ATATTTT
*
271942 TTATTTT
1 ATATTTT
*
271949 A-ATTAT
1 ATATTTT
* *
271955 ATATATA
1 ATATTTT
*
271962 ATATTAT
1 ATATTTT
271969 ATATTTTT
1 ATA-TTTT
271977 ATATT
1 ATATT
271982 AATTATATAA
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
6 14 0.24
7 38 0.66
8 6 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
ATATTTT
Found at i:271927 original size:33 final size:33
Alignment explanation
Indices: 271885--271990 Score: 176
Period size: 33 Copynumber: 3.2 Consensus size: 33
271875 TGATCATATA
271885 TATATATATAATATTTTATATTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
* *
271918 TATATATATAATATTTTTTATTTTTTATTTTAAT
1 TATATATATAATATTTTATA-TTTTTATATTAAT
*
271952 TATATATATAATATTATATATTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
271985 TATATA
1 TATATA
271991 ATACAAACCT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
33 37 0.55
34 30 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TATATATATAATATTTTATATTTTTATATTAAT
Found at i:273174 original size:78 final size:79
Alignment explanation
Indices: 273044--273199 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 79
273034 ATCATTAAAC
273044 AATTGTTTATATGGAAACTTATTCAAACATCAATTGCATTAAGTCATTGAACACATTATATAGTG
1 AATTGTTTATATGGAAACTTATTCAAACATCAATTGCATTAAGTCATTGAACACATTATATAGTG
273109 CATCTTTTCAACTT
66 CATCTTTTCAACTT
* *
273123 AATTGTTTATATGG-AACTTATTCAAACATCAATTGCATTGAGTCATTGAACACATTATGTAGTG
1 AATTGTTTATATGGAAACTTATTCAAACATCAATTGCATTAAGTCATTGAACACATTATATAGTG
*
273187 CATCTTTTGAACT
66 CATCTTTTCAACT
273200 AGTCCAAGTC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 60 0.81
79 14 0.19
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (79 bp):
AATTGTTTATATGGAAACTTATTCAAACATCAATTGCATTAAGTCATTGAACACATTATATAGTG
CATCTTTTCAACTT
Found at i:278014 original size:19 final size:19
Alignment explanation
Indices: 277990--278027 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
277980 TTCTGGAGTT
277990 GCTAAATTGATCAAAGAAC
1 GCTAAATTGATCAAAGAAC
278009 GCTAAATTGATCAAAGAAC
1 GCTAAATTGATCAAAGAAC
278028 TTAAGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
GCTAAATTGATCAAAGAAC
Found at i:293072 original size:20 final size:20
Alignment explanation
Indices: 293047--293085 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
293037 AATTAAACAC
293047 AAAATTTTAATTTTTTTATA
1 AAAATTTTAATTTTTTTATA
293067 AAAATTTTAATTTTTTTAT
1 AAAATTTTAATTTTTTTAT
293086 TTCGATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AAAATTTTAATTTTTTTATA
Found at i:293336 original size:13 final size:13
Alignment explanation
Indices: 293305--293347 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
293295 GATCACTTTA
293305 ATAATA-TCTATTT
1 ATAATATTC-ATTT
293318 -TAATATTCATTT
1 ATAATATTCATTT
*
293330 ATAATATTTATTT
1 ATAATATTCATTT
293343 ATAAT
1 ATAAT
293348 TTGATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAATATTCATTT
Found at i:293341 original size:25 final size:25
Alignment explanation
Indices: 293305--293355 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
293295 GATCACTTTA
293305 ATAATATCTATTT-TAATATTCATTT
1 ATAATATCTATTTATAAT-TTCATTT
* *
293330 ATAATATTTATTTATAATTTGATTT
1 ATAATATCTATTTATAATTTCATTT
293355 A
1 A
293356 ATCATTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATAATATCTATTTATAATTTCATTT
Found at i:302165 original size:2 final size:2
Alignment explanation
Indices: 302117--302147 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
302107 CATGTCTGAA
302117 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
302148 AACCTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:311331 original size:14 final size:14
Alignment explanation
Indices: 311312--311347 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
311302 GGAGCGATCC
311312 AACGGTGAACGATG
1 AACGGTGAACGATG
311326 AACGGTGAACGATG
1 AACGGTGAACGATG
311340 AACGGTGA
1 AACGGTGA
311348 CTGATCAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (14 bp):
AACGGTGAACGATG
Found at i:311867 original size:30 final size:29
Alignment explanation
Indices: 311815--311897 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 29
311805 GTTTAGACCC
311815 TTAA-ATTTCTATTTTTGA-TATTTTAGTCCT
1 TTAACATTT-TATTTTT-ATTATTTTAGT-CT
*
311845 TTAACCTTTTATTTTTATTATTTGT-GTCT
1 TTAACATTTTATTTTTATTATTT-TAGTCT
* *
311874 TTTACATTTTATTTAT-TTATTTTA
1 TTAACATTTTATTTTTATTATTTTA
311898 CATATTTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 1 0.02
28 6 0.13
29 16 0.36
30 18 0.40
31 4 0.09
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (29 bp):
TTAACATTTTATTTTTATTATTTTAGTCT
Found at i:311912 original size:20 final size:20
Alignment explanation
Indices: 311889--311926 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
311879 ATTTTATTTA
311889 TTTA-TTTTACATATTTTTCT
1 TTTATTTTTA-ATATTTTTCT
311909 TTTATTTTTAATATTTTT
1 TTTATTTTTAATATTTTT
311927 TAATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTTTAATATTTTTCT
Found at i:315943 original size:100 final size:99
Alignment explanation
Indices: 315809--316068 Score: 353
Period size: 100 Copynumber: 2.6 Consensus size: 99
315799 ATATTACATA
* * * *
315809 TATACAATAAAGCTTGAATTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAC
* *
315874 ATTCAGCTAAGCCTGATAAAGGTGATTATAATATT
66 ATTCAACT-AGCCTGATAAAGGTGATTATAATATC
* * * **
315909 TATATAATAAAGCTTGAGTTGTCCCTATAGAGCAATTGGTTAAATGCCTTGGCTTTATGGATAAC
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAC
315974 ATTCAACTAGCCTGATAAAGGTGATTATAATATC
66 ATTCAACTAGCCTGATAAAGGTGATTATAATATC
* ** *
316008 TATACAATGATA--TTGAGCGGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTACGGAT
1 TATACAAT-AAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
316069 CTAGCTAGCC
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
98 42 0.30
99 32 0.23
100 65 0.47
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAC
ATTCAACTAGCCTGATAAAGGTGATTATAATATC
Found at i:317073 original size:83 final size:83
Alignment explanation
Indices: 316850--318359 Score: 1850
Period size: 83 Copynumber: 18.3 Consensus size: 83
316840 AGAAGCACCT
* * * *
316850 TCAACAAAAACCCTTCAAGTTCGATTACACTCATCTCAAAGGCACA--ATTTACAGCATAATTCA
1 TCAACAAAGA-CCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCA
*
316913 AGGCTAGAAGGGTTATCTA
65 AGGCTAGAAGGGTTATCTG
* * *
316932 TCAACAAAATACCTTCAAGTTCGATTACACTTAGCTCAAAGGCACATCATTTACAGCATAACTCA
1 TCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCA
*
316997 AGGCTAGAAGGGTTATCTA
65 AGGCTAGAAGGGTTATCTG
* * * **
317016 TCAATAAAGACCTTTGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGTAGCATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * *
317081 GGCGAGAAGGGATATATG
66 GGCTAGAAGGGTTATCTG
* * * *
317099 CCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGG--CATCATTTGCAGCAT-ACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
317161 GG-TAAGAAGGGTTATCT-
66 GGCT-AGAAGGGTTATCTG
* **
317178 TCCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAATATAACTCA
1 T-CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCA
317243 AGGCTAGAAGGGTTA--T-
65 AGGCTAGAAGGGTTATCTG
* * * *
317259 T------AGACCTTCGAGTTCAATTACACTCAGCTCAAAAGCACATCATTTGCAGCATAGCTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * *
317318 GGCAAGAAGGGCTATCTA
66 GGCTAGAAGGGTTATCTG
* * * *
317336 CCAACTAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAACTAAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
317401 GGCTAGAAGGGTTATTTG
66 GGCTAGAAGGGTTATCTG
* ** *
317419 TCAACAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * * * *
317484 GGCAATAAGAGTTATTTA
66 GGCTAGAAGGGTTATCTG
* * * * *
317502 CCAACCAAGACCTTCGAGTTCGATTACACTCATCTCAAAGACACATCATTTACAGTATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
317567 GGCTAGAAAGGTTATCTG
66 GGCTAGAAGGGTTATCTG
* * * *
317585 TCAACAAAGACCTTCGAGTCCGATTACACTCACCTCAAAGGCACATCATTTGCAGAATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
317650 GGCAAGAAGGGTTATCTG
66 GGCTAGAAGGGTTATCTG
* * * ** * *
317668 CCAACCAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCACATCATTTGTAGTATAGCTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
317733 GG-TAAGAAGGGTTATCTG
66 GGCT-AGAAGGGTTATCTG
* * *
317751 TCAACCAAGACCTTCGAGTTCACGATTACACTCAGCTCAAAGACACATAATTTACAGCATAACTC
1 TCAACAAAGACCTTCGAGTT--CGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTC
*
317816 AAGGCTAAAAGGGTTATCTG
64 AAGGCTAGAAGGGTTATCTG
* * * * *
317836 TTAACAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACACATCATTTGCAGCATAGCTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
317901 GGCAAGAAGGGTTATCTG
66 GGCTAGAAGGGTTATCTG
* * * * *
317919 CCAACCAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGGTACATCATTTACAACATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
317984 GGCTAGAAGGGTTATATG
66 GGCTAGAAGGGTTATCTG
* * * *
318002 TCAACAAATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * *
318067 GGCAAAAAGGGCTATCTG
66 GGCTAGAAGGGTTATCTG
* * * * *
318085 CCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTATAGTATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
318150 GGCTATAAGGGTTATCTG
66 GGCTAGAAGGGTTATCTG
* * *
318168 TCAACAAAGACCTTCGATTTCGATTACACT-AGCTCAAATGCACATCATTTGCAGCATAACTCAA
1 TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* *
318232 GGCAAGAAGGGTTATCTA
66 GGCTAGAAGGGTTATCTG
* * ** *
318250 CCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCGTATCATTTACAGCATAACTCG
1 TCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCA
* *
318315 AGGCGAGAAGGGTTATCCG
65 AGGCTAGAAGGGTTATCTG
* * * *
318334 TCATCAAATACCTTTGAGTTTGATTA
1 TCAACAAAGACCTTCGAGTTCGATTA
318360 TATTAAGCAT
Statistics
Matches: 1233, Mismatches: 171, Indels: 47
0.85 0.12 0.03
Matches are distributed among these distances:
74 64 0.05
76 1 0.00
80 58 0.05
81 16 0.01
82 98 0.08
83 837 0.68
84 87 0.07
85 71 0.06
86 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (83 bp):
TCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
GGCTAGAAGGGTTATCTG
Found at i:318642 original size:31 final size:31
Alignment explanation
Indices: 318607--318668 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
318597 AGGTCTTTAA
*
318607 ACCGAGAAGAAGACCGAAGGGTAACGAGAAG
1 ACCGAGAAGAAGACCGAAGGGCAACGAGAAG
318638 ACCGAGAAGAAGACCGAAGGGCAACGAGAAG
1 ACCGAGAAGAAGACCGAAGGGCAACGAGAAG
318669 CCACATTCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.18, G:0.35, T:0.02
Consensus pattern (31 bp):
ACCGAGAAGAAGACCGAAGGGCAACGAGAAG
Found at i:318667 original size:19 final size:18
Alignment explanation
Indices: 318614--318668 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
318604 TAAACCGAGA
318614 AGAAGACCGAAGGGTAACG
1 AGAAGACCGAAGGG-AACG
318633 AGAAGACCG-A--G-A--
1 AGAAGACCGAAGGGAACG
318645 AGAAGACCGAAGGGCAACG
1 AGAAGACCGAAGGG-AACG
318664 AGAAG
1 AGAAG
318669 CCACATTCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
12 9 0.31
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 14 0.48
ACGTcount: A:0.45, C:0.16, G:0.36, T:0.02
Consensus pattern (18 bp):
AGAAGACCGAAGGGAACG
Found at i:320801 original size:15 final size:15
Alignment explanation
Indices: 320781--320846 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
320771 TTAAAGTAAT
*
320781 TTATAAAATGTTAAA
1 TTATAAAATATTAAA
320796 TTATAAAATATTAAA
1 TTATAAAATATTAAA
*
320811 TGTAT-AATTA-TAAA
1 T-TATAAAATATTAAA
*
320825 TTAGTTAAAATTTTAAA
1 TTA--TAAAATATTAAA
320842 -TATAA
1 TTATAA
320847 TTTAATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.05
14 8 0.19
15 20 0.48
16 8 0.19
17 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TTATAAAATATTAAA
Found at i:320813 original size:22 final size:24
Alignment explanation
Indices: 320784--320877 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 24
320774 AAGTAATTTA
320784 TAAAATGTTAAATTATAAAATA-T
1 TAAAATGTTAAATTATAAAATAGT
*
320807 T-AAATG-TATAATTATAAATTAGT
1 TAAAATGTTA-AATTATAAAATAGT
* ** *
320830 TAAAATTTTAAA-TATAATTTAAT
1 TAAAATGTTAAATTATAAAATAGT
*
320853 TAAAAT-TCAATATCTATAAAATAGT
1 TAAAATGTTAA-AT-TATAAAATAGT
320878 AGTTTGAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
21 2 0.04
22 19 0.34
23 19 0.34
24 6 0.11
25 10 0.18
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAAATGTTAAATTATAAAATAGT
Found at i:320845 original size:23 final size:22
Alignment explanation
Indices: 320784--320859 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
320774 AAGTAATTTA
* *
320784 TAAAATGTTAAATTATAAAATAT
1 TAAAATTTTAAA-TATAAATTAT
* *
320807 T-AAATGTATAATTATAAATTAGT
1 TAAAAT-TTTAAATATAAATTA-T
*
320830 TAAAATTTTAAATATAATTTAAT
1 TAAAATTTTAAATATAAATT-AT
320853 TAAAATT
1 TAAAATT
320860 CAATATCTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 12 0.29
23 25 0.60
24 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAATTTTAAATATAAATTAT
Found at i:320845 original size:29 final size:28
Alignment explanation
Indices: 320792--320848 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
320782 TATAAAATGT
320792 TAAATTATAAAATATTAAATGTATAATTA
1 TAAATTATAAAATATTAAA-GTATAATTA
*
320821 TAAATTAGTTAAAATTTTAAA-TATAATT
1 TAAATTA--TAAAATATTAAAGTATAATT
320849 TAATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 14 0.56
31 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
TAAATTATAAAATATTAAAGTATAATTA
Found at i:321049 original size:121 final size:119
Alignment explanation
Indices: 320847--321085 Score: 329
Period size: 121 Copynumber: 2.0 Consensus size: 119
320837 TTAAATATAA
* * *
320847 TTTAATTAAAATTCAATATCTATAAAATAGTAGTTTGAGAATAAACTATATCATTGACTACCTAA
1 TTTAATTAAAATACAATATCTATAAAACAGTAGTTTGAGAATAAACTATATCATTGACCACCTAA
* *
320912 CTATTTATCTATTTTACTTTAACCACCGATTTTTTAATTTTTTAAATCGAAATG
66 CTATTTATCTATTTTACTTTAACCACCAATTTTTCAATTTTTTAAATCGAAATG
* * ** *
320966 TTTAATTAAAATACAATATCTATAAAAACATTAGTTTTTAGGGTAAA-TCATATGATTGACCACC
1 TTTAATTAAAATACAATATCTAT-AAAACAGTAG-TTTGAGAATAAACT-ATATCATTGACCACC
*
321030 TAACTATTTAT-TCCTTTTACTTTAACCACCAATTTTTCAATTTTTTAAATCGAAAT
63 TAACTATTTATCT-ATTTTACTTTAACCACCAATTTTTCAATTTTTTAAATCGAAAT
321086 ACCTAACTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
119 22 0.21
120 10 0.10
121 73 0.70
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (119 bp):
TTTAATTAAAATACAATATCTATAAAACAGTAGTTTGAGAATAAACTATATCATTGACCACCTAA
CTATTTATCTATTTTACTTTAACCACCAATTTTTCAATTTTTTAAATCGAAATG
Found at i:329562 original size:15 final size:15
Alignment explanation
Indices: 329542--329570 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
329532 TACACTATTT
329542 TAGGTTTATTTTATG
1 TAGGTTTATTTTATG
329557 TAGGTTTATTTTAT
1 TAGGTTTATTTTAT
329571 ATAATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (15 bp):
TAGGTTTATTTTATG
Found at i:336286 original size:14 final size:14
Alignment explanation
Indices: 336267--336296 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
336257 AAAATTGAAC
336267 TTATCAACGACAAA
1 TTATCAACGACAAA
336281 TTATCAACGACAAA
1 TTATCAACGACAAA
336295 TT
1 TT
336297 GTATGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
TTATCAACGACAAA
Found at i:338544 original size:21 final size:21
Alignment explanation
Indices: 338506--338545 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
338496 ATGTGTCTTT
*
338506 ATTGATATATGTTGATTTTTA
1 ATTGATATATGTTAATTTTTA
338527 ATTGATATA-GTTTAATTTT
1 ATTGATATATG-TTAATTTT
338546 ATGTTTTTTA
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:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
ATTGATATATGTTAATTTTTA
Found at i:338545 original size:20 final size:21
Alignment explanation
Indices: 338506--338546 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
338496 ATGTGTCTTT
*
338506 ATTGATATATGTTGATTTTTA
1 ATTGATATATGTTGAATTTTA
*
338527 ATTGATATA-GTTTAATTTTA
1 ATTGATATATGTTGAATTTTA
338547 TGTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
ATTGATATATGTTGAATTTTA
Found at i:339731 original size:6 final size:6
Alignment explanation
Indices: 339720--339747 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
339710 TTTCTCACTT
339720 TAACCC TAACCC TAACCC TAACCC TAAC
1 TAACCC TAACCC TAACCC TAACCC TAAC
339748 TGTTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (6 bp):
TAACCC
Found at i:345493 original size:13 final size:13
Alignment explanation
Indices: 345475--345499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345465 CGTTTAACAG
345475 GAAAAAAATACCA
1 GAAAAAAATACCA
345488 GAAAAAAATACC
1 GAAAAAAATACC
345500 TCTTCCTCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (13 bp):
GAAAAAAATACCA
Found at i:359343 original size:2 final size:2
Alignment explanation
Indices: 359336--359362 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
359326 TTATTGTCCA
359336 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
359363 ACAAATTTGG
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:360676 original size:46 final size:46
Alignment explanation
Indices: 360609--360703 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
360599 CGGAGCACTC
*
360609 ATAGGAGGGCTAAACTAGGTAAATCTATGATCCTTTAATAATGCAG
1 ATAGGAGGGCTAAACTAGGTAAATCTAGGATCCTTTAATAATGCAG
*
360655 ATAGGAGGGCTAAACTAGGTAAATCTAGGATCCTTTAATAATGTAG
1 ATAGGAGGGCTAAACTAGGTAAATCTAGGATCCTTTAATAATGCAG
360701 ATA
1 ATA
360704 TGTTATGGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (46 bp):
ATAGGAGGGCTAAACTAGGTAAATCTAGGATCCTTTAATAATGCAG
Found at i:369238 original size:27 final size:26
Alignment explanation
Indices: 369211--369268 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
369201 TTTTCAAATT
369211 TTTTAAAAATTAAAAATAAAA-ACTATT
1 TTTTAAAAA-TAAAAATAAAATA-TATT
369238 TTTTAAAAATAAAAATAAAATATATT
1 TTTTAAAAATAAAAATAAAATATATT
369264 TTTTA
1 TTTTA
369269 GAATCAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTTAAAAATAAAAATAAAATATATT
Found at i:369894 original size:13 final size:13
Alignment explanation
Indices: 369856--369897 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
369846 GGTTTAAAAT
369856 AAATAAATATTCAA
1 AAATAAATATT-AA
369870 AAA-AAATAATTAA
1 AAATAAAT-ATTAA
*
369883 AAATAACTATTAA
1 AAATAAATATTAA
369896 AA
1 AA
369898 TTTCAACCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAAATATTAA
Found at i:370462 original size:21 final size:20
Alignment explanation
Indices: 370398--370490 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 20
370388 AAATGACCAA
*
370398 CAAATTCGCAACGC-GAATTC
1 CAAATTCGCAAC-CTGAATTT
* * * *
370418 CAATTTCGTAA-CTCAGTTT
1 CAAATTCGCAACCTGAATTT
370437 CCAAATTCGCAACACTGAATTT
1 -CAAATTCGCAAC-CTGAATTT
370459 CAAATTCGCAACCTG-ATTT
1 CAAATTCGCAACCTGAATTT
*
370478 CTGAATTCGCAAC
1 C-AAATTCGCAAC
370491 GCGAATTTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.02
19 8 0.14
20 31 0.53
21 12 0.21
22 6 0.10
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (20 bp):
CAAATTCGCAACCTGAATTT
Found at i:370484 original size:20 final size:21
Alignment explanation
Indices: 370438--370498 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
370428 ACTCAGTTTC
370438 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACACTGAATTT
370459 CAAATTCGCAAC-CTG-ATTT
1 CAAATTCGCAACACTGAATTT
* *
370478 CTGAATTCGCAACGC-GAATTT
1 C-AAATTCGCAACACTGAATTT
370499 TGTTTTCGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 5 0.14
20 14 0.39
21 17 0.47
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (21 bp):
CAAATTCGCAACACTGAATTT
Found at i:370507 original size:40 final size:41
Alignment explanation
Indices: 370400--370550 Score: 119
Period size: 40 Copynumber: 3.7 Consensus size: 41
370390 ATGACCAACA
* * ** * * **
370400 AATTCGCAACGCGAATTCCAATTTCGTAA-CTCAGTTTCCA
1 AATTCGCAACACAAATTTTAATTTCGCAACCTCATTTTCTG
* * * *
370440 AATTCGCAACACTGAATTTCAAATTCGCAACCTGA-TTTCTG
1 AATTCGCAACAC-AAATTTTAATTTCGCAACCTCATTTTCTG
* * ** *
370481 AATTCGCAACGCGAATTTTGTTTTCGCAA-CTCATTTTTTG
1 AATTCGCAACACAAATTTTAATTTCGCAACCTCATTTTCTG
370521 AATTCGCAACACAAATTTTAATTTCGCAAC
1 AATTCGCAACACAAATTTTAATTTCGCAAC
370551 AGGTTTTAGT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 54 0.61
41 29 0.33
42 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (41 bp):
AATTCGCAACACAAATTTTAATTTCGCAACCTCATTTTCTG
Found at i:370539 original size:20 final size:20
Alignment explanation
Indices: 370440--370551 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
370430 TCAGTTTCCA
* **
370440 AATTCGCAACACTGAATTTCA
1 AATTCGCAACAC-AAATTTTG
**
370461 AATTCGCAAC-CTGATTTCTG
1 AATTCGCAACACAAATTT-TG
* *
370481 AATTCGCAACGCGAATTTTG
1 AATTCGCAACACAAATTTTG
** * **
370501 TTTTCGCAACTCATTTTTTG
1 AATTCGCAACACAAATTTTG
370521 AATTCGCAACACAAATTTT-
1 AATTCGCAACACAAATTTTG
370540 AATTTCGCAACA
1 AA-TTCGCAACA
370552 GGTTTTAGTT
Statistics
Matches: 71, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
19 6 0.08
20 50 0.70
21 15 0.21
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
AATTCGCAACACAAATTTTG
Found at i:370742 original size:16 final size:15
Alignment explanation
Indices: 370707--370746 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
370697 TCCCCATCTC
*
370707 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
370722 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
370738 TAATTTTTT
1 TAATTTTTT
370747 AATGATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:373674 original size:18 final size:18
Alignment explanation
Indices: 373648--373683 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
373638 AAGCAAAAGG
*
373648 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
*
373666 AAATTAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
373684 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:373919 original size:29 final size:29
Alignment explanation
Indices: 373886--373988 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 29
373876 TTTCCTTGAA
*
373886 ATCGCAACGCGAGTTTGACTTTCGCAACC
1 ATCGCAACGCGAATTTGACTTTCGCAACC
*
373915 ATCGCAACACGAATTTGACTTTCG-----
1 ATCGCAACGCGAATTTGACTTTCGCAACC
**
373939 -T-GTTA--CGAATTTGACTTTCGCAACC
1 ATCGCAACGCGAATTTGACTTTCGCAACC
373964 ATCGCAACGCGAATTTGACTTTCGC
1 ATCGCAACGCGAATTTGACTTTCGC
373989 GTTGCAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
20 15 0.25
22 2 0.03
23 1 0.02
26 1 0.02
27 2 0.03
29 38 0.64
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (29 bp):
ATCGCAACGCGAATTTGACTTTCGCAACC
Found at i:373971 original size:49 final size:49
Alignment explanation
Indices: 373899--374008 Score: 175
Period size: 49 Copynumber: 2.2 Consensus size: 49
373889 GCAACGCGAG
* *
373899 TTTGACTTTCGCAACCATCGCAACACGAATTTGACTTTCGTGTTACGAA
1 TTTGACTTTCGCAACCATCGCAACACGAATTTGACTTTCGCGTTACAAA
* *
373948 TTTGACTTTCGCAACCATCGCAACGCGAATTTGACTTTCGCGTTGCAAA
1 TTTGACTTTCGCAACCATCGCAACACGAATTTGACTTTCGCGTTACAAA
*
373997 TTTGATTTTCGC
1 TTTGACTTTCGC
374009 GTTGCGAAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (49 bp):
TTTGACTTTCGCAACCATCGCAACACGAATTTGACTTTCGCGTTACAAA
Found at i:373998 original size:20 final size:20
Alignment explanation
Indices: 373975--374013 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
373965 TCGCAACGCG
373975 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
*
373995 AATTTGATTTTCGCGTTGC
1 AATTTGACTTTCGCGTTGC
374014 GAAAGTGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCA
Found at i:374174 original size:16 final size:14
Alignment explanation
Indices: 374139--374166 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
374129 CATCAATTAA
374139 ACAAATCAACTTTT
1 ACAAATCAACTTTT
374153 ACAAATCAACTTTT
1 ACAAATCAACTTTT
374167 GTACAAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:375538 original size:21 final size:21
Alignment explanation
Indices: 375509--375580 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
375499 GTGAATCGGG
*
375509 CTCTCGAACGGTGGAAGGGAC
1 CTCTTGAACGGTGGAAGGGAC
* *
375530 CTCTTGAACGAT-GATAGGGGC
1 CTCTTGAACGGTGGA-AGGGAC
*
375551 CTCTTGAACGGTGGAA-TGAGC
1 CTCTTGAACGGTGGAAGGGA-C
375572 CTCTTGAAC
1 CTCTTGAAC
375581 AATAGGAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.07
21 37 0.88
22 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGAAGGGAC
Found at i:375599 original size:42 final size:42
Alignment explanation
Indices: 375514--375602 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
375504 TCGGGCTCTC
* * * * *
375514 GAACGGTGGAAGGGACCTCTTGAACGATGATAGGGGCCTCTT
1 GAACGGTGGAAGAGACCTCTTGAACAATGAGAGAGGCCACTT
375556 GAACGGTGGAATGAG-CCTCTTGAACAAT-AGGAGAGGCCACTT
1 GAACGGTGGAA-GAGACCTCTTGAACAATGA-GAGAGGCCACTT
375598 GAACG
1 GAACG
375603 ATGAAAGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.03
42 37 0.93
43 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.19
Consensus pattern (42 bp):
GAACGGTGGAAGAGACCTCTTGAACAATGAGAGAGGCCACTT
Found at i:378133 original size:22 final size:22
Alignment explanation
Indices: 378108--378160 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
378098 GATTAAGATA
378108 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
* *
378130 GACGGATATCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
378152 GACGAATTT
1 GACGAATTT
378161 TGCCATAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.40, T:0.23
Consensus pattern (22 bp):
GACGAATTTCGTCGGAGATGGG
Found at i:378291 original size:19 final size:20
Alignment explanation
Indices: 378269--378306 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
378259 AATATTGTGT
378269 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
378288 TTCGAGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
378307 CGCGCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:379528 original size:18 final size:18
Alignment explanation
Indices: 379486--379531 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
379476 TACAATTCGC
379486 TAATCATAT-TAAAAAGTG
1 TAAT-ATATATAAAAAGTG
* *
379504 -AAAATATATAAAAATTG
1 TAATATATATAAAAAGTG
379521 TAATATATATA
1 TAATATATATA
379532 TATAATTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (18 bp):
TAATATATATAAAAAGTG
Found at i:382882 original size:3 final size:3
Alignment explanation
Indices: 382874--382930 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
382864 TTTTACTTAA
*
382874 ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT
382919 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
382931 AATAATTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:382922 original size:25 final size:22
Alignment explanation
Indices: 382874--382930 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
382864 TTTTACTTAA
382874 ATTATTATTATTATTATTAAAT
1 ATTATTATTATTATTATTAAAT
*
382896 ATTATTATTA-TATTA-TATAT
1 ATTATTATTATTATTATTAAAT
382916 ATTA-TATTATTATTA
1 ATTATTATTATTATTA
382931 AATAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 5 0.15
22 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTATTATTAAAT
Found at i:384449 original size:21 final size:21
Alignment explanation
Indices: 384425--384464 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
384415 TAAAATTAAA
384425 AATTATAAA-AAATATTTATTT
1 AATT-TAAATAAATATTTATTT
*
384446 AATTTAAATTAATATTTAT
1 AATTTAAATAAATATTTAT
384465 CAATATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAAATAAATATTTATTT
Found at i:386688 original size:14 final size:14
Alignment explanation
Indices: 386650--386703 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
386640 ATTTTAAATA
*
386650 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
386664 TTTTACATTTGCAT
1 ATTTACATTTGCAT
386678 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
386693 CTTTGCATTTG
1 ATTTACATTTG
386704 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:390027 original size:7 final size:7
Alignment explanation
Indices: 389987--390028 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
389977 CTCATCCAGC
389987 AAAGAAA
1 AAAGAAA
*
389994 GAAGAAA
1 AAAGAAA
390001 AAA-AAA
1 AAAGAAA
*
390007 AAAAAAA
1 AAAGAAA
390014 AAAGAAA
1 AAAGAAA
*
390021 AAGGAAA
1 AAAGAAA
390028 A
1 A
390029 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:392568 original size:114 final size:114
Alignment explanation
Indices: 392280--392620 Score: 574
Period size: 114 Copynumber: 3.0 Consensus size: 114
392270 AAGTGCCATG
392280 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
392345 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
392395 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
392460 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* * *
392509 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGATTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
392574 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
392621 CTGCATGATC
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 132 0.61
115 83 0.39
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:394886 original size:54 final size:52
Alignment explanation
Indices: 394738--394938 Score: 212
Period size: 54 Copynumber: 3.8 Consensus size: 52
394728 AGAAATCTTG
* * * * *
394738 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTA-CAAC-TCTGA
* * *
394792 GCAAAAACCACA-AGAATGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAGA-AAAGGATGAATGTATTGTCAAATGTTTTAC-AAC-TCTGA
* * *
394846 GCAGAAGCCACAGAAAAGGATGAATGTATTGTCAAGTGTTTTACATCTC-GA
1 GCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACAACTCTGA
*
394897 -CAGAAACCACAGGAAAA-GATGAATGTATTATCAAATGTTTTA
1 GCAGAAACCACA-GAAAAGGATGAATGTATTGTCAAATGTTTTA
394939 TGAACCAGTG
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
50 33 0.26
51 7 0.06
52 2 0.02
53 3 0.02
54 81 0.64
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (52 bp):
GCAGAAACCACAGAAAAGGATGAATGTATTGTCAAATGTTTTACAACTCTGA
Found at i:395339 original size:22 final size:22
Alignment explanation
Indices: 395310--395364 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
395300 ATCTACACTC
* *
395310 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
* *
395332 TTTAAAGATAACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
395354 TTCAAAGATGA
1 TTCAAAGATGA
395365 AAACTTTATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:396082 original size:112 final size:113
Alignment explanation
Indices: 395764--396101 Score: 588
Period size: 113 Copynumber: 3.0 Consensus size: 113
395754 TAGCAAAGAT
395764 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
395829 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
*
395877 TCAAATCCATCATTTGATGGATCAGCTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
395942 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
* * * * *
395990 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAG-AGAAGTTCATAATGAGAATAAGTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
396054 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
396102 ATAATTCTAT
Statistics
Matches: 215, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
112 74 0.34
113 141 0.66
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
Found at i:396753 original size:3 final size:3
Alignment explanation
Indices: 396745--396801 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
396735 TTTTACTTAA
*
396745 ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT
396790 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
396802 AATAATTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:396793 original size:25 final size:22
Alignment explanation
Indices: 396745--396801 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
396735 TTTTACTTAA
396745 ATTATTATTATTATTATTAAAT
1 ATTATTATTATTATTATTAAAT
*
396767 ATTATTATTA-TATTA-TATAT
1 ATTATTATTATTATTATTAAAT
396787 ATTA-TATTATTATTA
1 ATTATTATTATTATTA
396802 AATAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 5 0.15
22 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTATTATTAAAT
Found at i:405263 original size:32 final size:32
Alignment explanation
Indices: 405227--405341 Score: 106
Period size: 32 Copynumber: 3.6 Consensus size: 32
405217 AATATTTTGG
* * *
405227 GGCCTGAGAGCCTACCCAAGGGATTACCTTAA
1 GGCCTAAGAGCCTACCCAAGGAAGTACCTTAA
* **
405259 GGCCTAAGAGCCTACCTAAGGAAGTACCTTGG
1 GGCCTAAGAGCCTACCCAAGGAAGTACCTTAA
* * * * *
405291 GGCCTTAGAGCCTACTCAAGGAAATGCCTTAG
1 GGCCTAAGAGCCTACCCAAGGAAGTACCTTAA
*
405323 GGCCTCAA-TGCCTACCCAA
1 GGCCT-AAGAGCCTACCCAA
405342 TGTCACTTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
32 66 0.99
33 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (32 bp):
GGCCTAAGAGCCTACCCAAGGAAGTACCTTAA
Found at i:405995 original size:23 final size:23
Alignment explanation
Indices: 405977--406037 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
405967 CTCGTATAAA
405977 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
406000 TACACCGAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
406023 TGTACCGTAGTGCCA
1 TGCACCGAAGTGCCA
406038 TATAAGATTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:410294 original size:21 final size:21
Alignment explanation
Indices: 410254--410295 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
410244 TTGAAATTAT
**
410254 TGTAGCAGTGCATCGGTACAC
1 TGTAGCAGTGCATCAATACAC
410275 TGTAGCAGTGCATCAATACAC
1 TGTAGCAGTGCATCAATACAC
410296 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTAGCAGTGCATCAATACAC
Found at i:410837 original size:31 final size:29
Alignment explanation
Indices: 410781--410842 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
410771 ATATAAGCAA
*
410781 ATAATTCACTTACACATTATACATTTCCAT
1 ATAATTCACATACACATTATACATTT-CAT
*
410811 ATAATTCACATATCACATT-TCGCATTTCAT
1 ATAATTCACATA-CACATTAT-ACATTTCAT
410841 AT
1 AT
410843 TCTCATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAATTCACATACACATTATACATTTCAT
Found at i:410876 original size:30 final size:30
Alignment explanation
Indices: 410842--410899 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
410832 GCATTTCATA
410842 TTCTCATATGATCACATAACTCATGTCACT
1 TTCTCATATGATCACATAACTCATGTCACT
* * *
410872 TTCTCATATGGTTACATAGCTCATGTCA
1 TTCTCATATGATCACATAACTCATGTCA
410900 TATAATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (30 bp):
TTCTCATATGATCACATAACTCATGTCACT
Found at i:413452 original size:2 final size:2
Alignment explanation
Indices: 413445--413475 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
413435 ATGAACTACC
413445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
413476 ATAGGTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:413832 original size:3 final size:3
Alignment explanation
Indices: 413743--413821 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
413733 TGTAAACAAA
* * * *
413743 AAT AAA AAT AAC AAT AAA AAT AAA AAT AA- ACA- AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
413786 AAT ATT AA- AATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
413822 GGTTATAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
2 6 0.10
3 53 0.87
4 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:415731 original size:24 final size:25
Alignment explanation
Indices: 415695--415745 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
415685 ATTTATATGT
*
415695 GGTCATTCGGGACAAA-TTCTACGC
1 GGTCATTCAGGACAAATTTCTACGC
*
415719 GGTCCTTCAGGACAAATTTCTACGC
1 GGTCATTCAGGACAAATTTCTACGC
415744 GG
1 GG
415746 CACTTCGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
GGTCATTCAGGACAAATTTCTACGC
Found at i:415759 original size:25 final size:25
Alignment explanation
Indices: 415707--415792 Score: 72
Period size: 26 Copynumber: 3.5 Consensus size: 25
415697 TCATTCGGGA
*
415707 CAAA-TTCTACGCGGTC-CTTCAGG-A
1 CAAATTTCTACGCGG-CACTTC-GGTG
415731 CAAATTTCTACGCGGCACTTCGGTG
1 CAAATTTCTACGCGGCACTTCGGTG
** *
415756 CAAAAACTCTACGCGACACTTCGGTG
1 C-AAATTTCTACGCGGCACTTCGGTG
*
415782 C-AATTTATACG
1 CAAATTTCTACG
415793 AGCTGTAGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 14 0.27
25 15 0.29
26 22 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (25 bp):
CAAATTTCTACGCGGCACTTCGGTG
Found at i:421555 original size:25 final size:25
Alignment explanation
Indices: 421494--421561 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 25
421484 ATTCTTAAGG
* * * *
421494 AATTTATATGTGGTCATTCGGGACA
1 AATTTCTATGCGGTCCTTCAGGACA
* *
421519 AA-TTCTACGCGGTCCTTCAGGAGA
1 AATTTCTATGCGGTCCTTCAGGACA
*
421543 AATTTCTATGCGGTACTTC
1 AATTTCTATGCGGTCCTTC
421562 GATGCAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (25 bp):
AATTTCTATGCGGTCCTTCAGGACA
Found at i:423656 original size:106 final size:105
Alignment explanation
Indices: 423546--424182 Score: 604
Period size: 111 Copynumber: 5.9 Consensus size: 105
423536 GGGAAATTAT
* * ** * *
423546 TTGTTGACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTACCTCGAGTCTAACATCCT
1 TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCT
*
423611 TCGCTGTGAAATTGAAATTGACTCTGAATGAAACTGAGAAGTTG
66 TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA-AA---G
* * * * *
423655 TTTGTTGACAACCAGTCGCCCTTTCGTTGTGAAGTTGAGCTTGTGTTGTCAT-GAGTCCAATATC
1 -TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTC-TCGAGTCCAATATC
* **
423719 CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-T--ATT
64 CTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAACTGAAAG
* * *
423762 TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCTCGAGTCTAATATCAT
1 TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCT
* *
423827 TCGTTGTGAAGTTGAAATTGACTCTGAATTAAACTGAAAAAG
66 TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTG--AAAG
* * * * * *
423869 TTGTTTTTTGACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGTTTGTGTTGTCTTGAGTCCAATA
1 TTG----TTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATA
* * * *
423934 TCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAACTGGGAAA-T--TAT
62 TCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAACTGAAAG
* * * * * *
423979 TTGTTGACAGCCAGCGGCCCCTTCACTATGAAGTTGAGCGTGTGCTGTCTCGAGTCTAATATCAT
1 TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCT
*
424044 TCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTG
66 TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTG--AAA---G
* * * *
424089 TTTGTTGATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCC
1 -TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCC
* *
424154 TTCTCTGTGAAGTTGAAATTGGCTCTGAA
65 TTCGCTGTGAAGTTGAAATTGACTCTGAA
424183 ACTGGGAAAT
Statistics
Matches: 428, Mismatches: 71, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
102 7 0.02
103 2 0.00
104 2 0.00
105 5 0.01
106 153 0.36
107 5 0.01
110 81 0.19
111 160 0.37
112 3 0.01
113 2 0.00
114 5 0.01
115 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (105 bp):
TTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCT
TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAG
Found at i:423916 original size:111 final size:110
Alignment explanation
Indices: 423492--424182 Score: 743
Period size: 106 Copynumber: 6.4 Consensus size: 110
423482 TATTGTTCCA
* * ** *
423492 AGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTG---GAACTGGGAAA-TTATTTGTT
1 AGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGACTCTGAATAAACTGAAAAAGTTGTTTGTT
* * * **
423551 GACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTACCTCG
64 GACAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
* * * *
423598 AGTCTAACATCCTTCGCTGTGAAATTGAAATTGACTCTGAATGAAACTG-AGAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAT-AAACTGAAAAAGTTGTTTGTTG
* * * *
423662 ACAACCAGTCGCCCTTTCGTTGTGAAGTTGAGCTTGTGTTGTCAT-G
65 ACAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTC-TCG
* * **
423708 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG---AAATTGGGAAA-TAT-TTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAACTGAAAAAGT-TGTTTGTTG
* *
423768 ACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCTCG
65 ACAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
* * * *
423814 AGTCTAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATTAAACTGAAAAAGTTGTTTTTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA-TAAACTGAAAAAGTTGTTTGTTG
* * * * *
423879 ACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGTTTGTGTTGTCTTG
65 ACAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
* * ** *
423925 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTG---AAACTGGGAAA-TTATTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAACTGAAAAAGTTGTTTGTTGA
* * *
423986 CAGCCAG-CGGCCCCTTCACTATGAAGTTGAGCGTGTGCTGTCTCG
66 CAGCCAGTC-GCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
* * *
424031 AGTCTAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAT-AAACTGAAAAAGTTGTTTGTTG
* * *
424096 ATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTG
65 ACAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
* *
424142 AGTCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
424183 ACTGGGAAAT
Statistics
Matches: 482, Mismatches: 79, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
105 2 0.00
106 194 0.40
107 15 0.03
108 1 0.00
109 2 0.00
110 102 0.21
111 165 0.34
112 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (110 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAACTGAAAAAGTTGTTTGTTGA
CAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
Found at i:423974 original size:217 final size:217
Alignment explanation
Indices: 423492--424192 Score: 1095
Period size: 217 Copynumber: 3.2 Consensus size: 217
423482 TATTGTTCCA
*
423492 AGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTGTTGACA
1 AGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTGTTGACA
* ** * * *
423555 GTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTACCTCGAGTCTAACATCCTTCGCTGTGA
64 GCCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCATTCGTTGTGA
* * ** * *
423620 AATTGAAATTGACTCTGAATGAAACTG-AGAAGTTGTTTGTTGACAACCAGTCGCCCTTTCGTTG
129 AGTTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTCGCTG
*
423684 TGAAGTTGAGCTTGTGTTGTCATG
194 TGAAGTTGAGCTTGTGTTGTCTTG
*
423708 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TATTTTGTTGACAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTA-TTTGTTGACAG
* *
423772 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGATGTCTCGAGTCTAATATCATTCGTTGTGAA
65 CCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCATTCGTTGTGAA
* *
423837 GTTGAAATTGACTCTGAATTAAACTGAAAAAGTTGTTTTTTGACAGTCAGTCGCCCATTCGCTGT
130 GTTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTCGCTGT
*
423902 GAAGTTGAGTTTGTGTTGTCTTG
195 GAAGTTGAGCTTGTGTTGTCTTG
*
423925 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAACTGGGAAATTATTTGTTGACAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTGTTGACAGC
* * *
423990 CAGCGGCCCCTTCACTATGAAGTTGAGCGTGTGCTGTCTCGAGTCTAATATCATTCGTTGTGAAG
66 CAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCATTCGTTGTGAAG
* *
424055 TTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGATAGTCAGTCGCCCCTTCGCTGTG
131 TTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTCGCTGTG
*
424120 AAGTTGAGCTTGTGCTGTCTTG
196 AAGTTGAGCTTGTGTTGTCTTG
*
424142 AGTCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAT
424193 CCCTTCATCG
Statistics
Matches: 445, Mismatches: 35, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
215 2 0.00
216 134 0.30
217 306 0.69
218 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (217 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTATTTGTTGACAGC
CAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCATTCGTTGTGAAG
TTGAAATTGACTCTGAATGAAACTGAAAAAGTTGTTTGTTGACAGTCAGTCGCCCATTCGCTGTG
AAGTTGAGCTTGTGTTGTCTTG
Found at i:425310 original size:6 final size:6
Alignment explanation
Indices: 425299--425340 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
425289 TGAACCCACA
425299 TTTTTC TTTTTC TTTTTC TTTTTC TCTTTT- TTTTCTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTT-TC TTTTT
425341 TCCAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 3 0.09
6 22 0.67
7 8 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:425335 original size:11 final size:11
Alignment explanation
Indices: 425305--425341 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
425295 CACATTTTTC
*
425305 TTTTTCTTTTT
1 TTTTTCTCTTT
425316 CTTTTTCTCTTT
1 -TTTTTCTCTTT
425328 TTTTTCTCTTT
1 TTTTTCTCTTT
425339 TTT
1 TTT
425342 CCAATTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:435888 original size:22 final size:23
Alignment explanation
Indices: 435848--435897 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
435838 TGAGTAAACA
* *
435848 AATAACAAAGAGAATAAAA-GAG
1 AATAACAAAGAAAATAAAACAAG
435870 AATAACAAA-AAAATCAAAACAAG
1 AATAACAAAGAAAAT-AAAACAAG
435893 AATAA
1 AATAA
435898 AAACATAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.72, C:0.08, G:0.10, T:0.10
Consensus pattern (23 bp):
AATAACAAAGAAAATAAAACAAG
Found at i:435943 original size:21 final size:22
Alignment explanation
Indices: 435913--435957 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
435903 TAGAGAAAAC
*
435913 AAAATCAAAG-GAAAAAAATAA
1 AAAATAAAAGAGAAAAAAATAA
*
435934 AAAATAAAAGAAGAACAAAATAA
1 AAAATAAAAG-AGAAAAAAATAA
435957 A
1 A
435958 CGATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAATAAAAGAGAAAAAAATAA
Found at i:436299 original size:58 final size:60
Alignment explanation
Indices: 436171--436299 Score: 135
Period size: 58 Copynumber: 2.2 Consensus size: 60
436161 AGTAATAGTT
* * *
436171 ATAATAAT-ATAAAAAAATGAAAAAAAAATGAAATATATATGTATATAATAATTTGTAAA
1 ATAATAATAATAAAAAAATGAAAAAAAAATGAAAAATATATATATATAATAATATGTAAA
* * * *
436230 A-AATAAAAATAAACAAAT-AAAATAACATGAAAAATA-ATCATA-ATAATAATAT-TAAA
1 ATAATAATAATAAAAAAATGAAAAAAAAATGAAAAATATAT-ATATATAATAATATGTAAA
436286 ATTAATAATAATAA
1 A-TAATAATAATAA
436300 TAATAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
56 5 0.09
57 11 0.19
58 32 0.55
59 10 0.17
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (60 bp):
ATAATAATAATAAAAAAATGAAAAAAAAATGAAAAATATATATATATAATAATATGTAAA
Found at i:436303 original size:24 final size:24
Alignment explanation
Indices: 436245--436304 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
436235 AAAATAAACA
*
436245 AATAA-AATAACATGAAAAATAAT
1 AATAATAATAATATGAAAAATAAT
* * *
436268 CATAATAATAATATTAAAATTAAT
1 AATAATAATAATATGAAAAATAAT
436292 AATAATAATAATA
1 AATAATAATAATA
436305 ATAATAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAATAATATGAAAAATAAT
Found at i:436323 original size:18 final size:17
Alignment explanation
Indices: 436269--436332 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
436259 AAAAATAATC
*
436269 ATAATAATAATATTAAA
1 ATAATAATAATATTATA
*
436286 ATTAATAATAATAATAATA
1 A-TAATAATAAT-ATTATA
*
436305 ATAATAATAATGGTTATA
1 ATAATAATAAT-ATTATA
*
436323 ATAAAAATAA
1 ATAATAATAA
436333 ATAGGAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 1 0.03
18 33 0.85
19 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATAATAATATTATA
Found at i:436326 original size:3 final size:3
Alignment explanation
Indices: 436262--436315 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
436252 TAACATGAAA
* *
436262 AAT AAT CAT AAT AAT AAT ATT AA- AATT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
436307 AAT AAT AAT
1 AAT AAT AAT
436316 GGTTATAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:437534 original size:16 final size:18
Alignment explanation
Indices: 437499--437541 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
437489 TGTACAATAT
437499 TATATAATATAATCTATAA
1 TATA-AATATAATCTATAA
437518 TATAAATAT-AT-TATAA
1 TATAAATATAATCTATAA
437534 TATCAAAT
1 TAT-AAAT
437542 GACACAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 5 0.22
19 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAATATAATCTATAA
Found at i:441933 original size:240 final size:240
Alignment explanation
Indices: 441510--441958 Score: 844
Period size: 240 Copynumber: 1.9 Consensus size: 240
441500 ATTGAATATA
441510 ATGTATGTGATGTATATATGTGTTTTGTGATATTAATTATATGATATGATATGTGTGTATGAGTG
1 ATGTATGTGATGTATATATGTGTTTTGTGATATTAATTATATGATATGATATGTGTGTATGAGTG
* *
441575 ATTATTGTATATGTTATAAGATACATGATATGAACATAATGGATTATATAAACAAGAGAATAGAA
66 ATTATTGTATATGTTATAAGATACAGGATATGAACATAATGGATCATATAAACAAGAGAATAGAA
441640 ATATGAATGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATGCATGTGTGTATTTGAT
131 ATATGAATGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATGCATGTGTGTATTTGAT
441705 ATATATATATATATGAATGGATATATGTTTGAACATTATATGTTC
196 ATATATATATATATGAATGGATATATGTTTGAACATTATATGTTC
441750 ATGTATGTGATGTATATATGTGTTTTGTGATATTAATTATATGATATGATATGTGTGTATGAGTG
1 ATGTATGTGATGTATATATGTGTTTTGTGATATTAATTATATGATATGATATGTGTGTATGAGTG
**
441815 ATTATTGTATATGTTATAAGATGTAGGATATGAACATAATGGATCATATAAACAAGAGAATAGAA
66 ATTATTGTATATGTTATAAGATACAGGATATGAACATAATGGATCATATAAACAAGAGAATAGAA
* *
441880 ATATGAATGGTGATAATATGATAATGATAGGAAATAAGATACTTATATGCATGTGTGTATTTGAT
131 ATATGAATGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATGCATGTGTGTATTTGAT
441945 ATATATATATATAT
196 ATATATATATATAT
441959 ATATATATAT
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 203 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.39
Consensus pattern (240 bp):
ATGTATGTGATGTATATATGTGTTTTGTGATATTAATTATATGATATGATATGTGTGTATGAGTG
ATTATTGTATATGTTATAAGATACAGGATATGAACATAATGGATCATATAAACAAGAGAATAGAA
ATATGAATGGTGATAATATGATAATGATAGGAAAGAAGATAATTATATGCATGTGTGTATTTGAT
ATATATATATATATGAATGGATATATGTTTGAACATTATATGTTC
Done.