Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009261.1 Hibiscus syriacus cultivar Beakdansim tig00112912_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: 923215
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:236860 original size:147 final size:147
Alignment explanation
Indices: 236593--236888 Score: 592
Period size: 147 Copynumber: 2.0 Consensus size: 147
236583 ACATTGCACC
236593 CAAAAGTTATCGGCGTATTTTATCACCTTTGATGATGTCGGATGTCCTTAGATTGAATCTTGAGA
1 CAAAAGTTATCGGCGTATTTTATCACCTTTGATGATGTCGGATGTCCTTAGATTGAATCTTGAGA
236658 TCTCCATTTTTACTTTCAATGTAAAGTGGTCTTCATGTCTTTATAAAGGTTCTTCTCGTCCTTGG
66 TCTCCATTTTTACTTTCAATGTAAAGTGGTCTTCATGTCTTTATAAAGGTTCTTCTCGTCCTTGG
236723 TATGACTGCATCTATAT
131 TATGACTGCATCTATAT
236740 CAAAAGTTATCGGCGTATTTTATCACCTTTGATGATGTCGGATGTCCTTAGATTGAATCTTGAGA
1 CAAAAGTTATCGGCGTATTTTATCACCTTTGATGATGTCGGATGTCCTTAGATTGAATCTTGAGA
236805 TCTCCATTTTTACTTTCAATGTAAAGTGGTCTTCATGTCTTTATAAAGGTTCTTCTCGTCCTTGG
66 TCTCCATTTTTACTTTCAATGTAAAGTGGTCTTCATGTCTTTATAAAGGTTCTTCTCGTCCTTGG
236870 TATGACTGCATCTATAT
131 TATGACTGCATCTATAT
236887 CA
1 CA
236889 TGAGGGAATA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 149 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (147 bp):
CAAAAGTTATCGGCGTATTTTATCACCTTTGATGATGTCGGATGTCCTTAGATTGAATCTTGAGA
TCTCCATTTTTACTTTCAATGTAAAGTGGTCTTCATGTCTTTATAAAGGTTCTTCTCGTCCTTGG
TATGACTGCATCTATAT
Found at i:237891 original size:45 final size:45
Alignment explanation
Indices: 237827--237915 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
237817 AGTGTATGAG
237827 GAAAAGAGAAAATAAAACAACACATAATCAAAACACTCAAAAATT
1 GAAAAGAGAAAATAAAACAACACATAATCAAAACACTCAAAAATT
237872 GAAAAGAGAAAATAAAACAACACATAATCAAAACACTCAAAAAT
1 GAAAAGAGAAAATAAAACAACACATAATCAAAACACTCAAAAAT
237916 CAATCCTCGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.65, C:0.16, G:0.07, T:0.12
Consensus pattern (45 bp):
GAAAAGAGAAAATAAAACAACACATAATCAAAACACTCAAAAATT
Found at i:239694 original size:30 final size:30
Alignment explanation
Indices: 239660--239719 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
239650 AGCCGTTTCT
239660 TCTAAACTCTTCTACCTCTCCCATTCCTTC
1 TCTAAACTCTTCTACCTCTCCCATTCCTTC
239690 TCTAAACTCTTCTACCTCTCCCATTCCTTC
1 TCTAAACTCTTCTACCTCTCCCATTCCTTC
239720 GAAGAGAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (30 bp):
TCTAAACTCTTCTACCTCTCCCATTCCTTC
Found at i:242461 original size:157 final size:157
Alignment explanation
Indices: 242175--242488 Score: 610
Period size: 157 Copynumber: 2.0 Consensus size: 157
242165 CTTATACAAG
242175 ATCAAAACTTCAAAACGGAACACATTGGAGAATAACTTGAAAAAGCTAAGGTTATCTTTAAAAAA
1 ATCAAAACTTCAAAACGGAACACATTGGAGAATAACTTGAAAAAGCTAAGGTTATCTTTAAAAAA
*
242240 TGGTTCGTTATTAGAATAACTTAATGAGATTCTTGTAGCTTGAAGACTGCATCAAAGACGGTCTC
66 TGGTTCGTTATTAGAATAACTTAATGAGATTCTTGAAGCTTGAAGACTGCATCAAAGACGGTCTC
242305 AAATGGGAGAGAAAACAAGTAATTGGT
131 AAATGGGAGAGAAAACAAGTAATTGGT
242332 ATCAAAACTTCAAAACGGAACACATTGGAGAATAACTTGAAAAAGCTAAGGTTATCTTTAAAAAA
1 ATCAAAACTTCAAAACGGAACACATTGGAGAATAACTTGAAAAAGCTAAGGTTATCTTTAAAAAA
*
242397 TGGTTCGTTATTAGAATAACTTAATGAGATTCTTGAAGCTTGAAGACTGCATCAAAGATGGTCTC
66 TGGTTCGTTATTAGAATAACTTAATGAGATTCTTGAAGCTTGAAGACTGCATCAAAGACGGTCTC
242462 AAATGGGAGAGAAAACAAGTAATTGGT
131 AAATGGGAGAGAAAACAAGTAATTGGT
242489 CCAAATTTTT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (157 bp):
ATCAAAACTTCAAAACGGAACACATTGGAGAATAACTTGAAAAAGCTAAGGTTATCTTTAAAAAA
TGGTTCGTTATTAGAATAACTTAATGAGATTCTTGAAGCTTGAAGACTGCATCAAAGACGGTCTC
AAATGGGAGAGAAAACAAGTAATTGGT
Found at i:242686 original size:12 final size:12
Alignment explanation
Indices: 242669--242693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
242659 TAACGTTTCA
242669 TTTTTAGGTGTC
1 TTTTTAGGTGTC
242681 TTTTTAGGTGTC
1 TTTTTAGGTGTC
242693 T
1 T
242694 GGAATGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTTTAGGTGTC
Found at i:242956 original size:12 final size:12
Alignment explanation
Indices: 242939--242963 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
242929 TAACGTTTCA
242939 TTTTTAGGTGTC
1 TTTTTAGGTGTC
242951 TTTTTAGGTGTC
1 TTTTTAGGTGTC
242963 T
1 T
242964 GGAATGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTTTAGGTGTC
Found at i:244155 original size:16 final size:16
Alignment explanation
Indices: 244134--244181 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
244124 TAGTTAAAAT
244134 TTATTTTATATTTTAA
1 TTATTTTATATTTTAA
* *
244150 TTATTTAATATATTAA
1 TTATTTTATATTTTAA
**
244166 TCGTTTTATAATTTTA
1 TTATTTTAT-ATTTTA
244182 TGAGCCGATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATTTTATATTTTAA
Found at i:252635 original size:48 final size:50
Alignment explanation
Indices: 252562--252682 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 50
252552 GGAGTAATGA
*
252562 AGACTAAATTCTAGTGAACAGTA-TTTTTTAATTGAAAGTGAAAG-ACCC
1 AGACTAAATTCTAGTGAACAATATTTTTTTAATTGAAAGTGAAAGAACCC
*
252610 AGACTAAATTCTAGTGAACAATATTTTTTTTAATTGAAAGTGAAAGAACCT
1 AGACTAAATTCTAGTGAACAATA-TTTTTTTAATTGAAAGTGAAAGAACCC
* *
252661 GGACTAAATTCTAGAGAACAAT
1 AGACTAAATTCTAGTGAACAAT
252683 GTCAAACTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
48 22 0.33
50 21 0.32
51 23 0.35
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (50 bp):
AGACTAAATTCTAGTGAACAATATTTTTTTAATTGAAAGTGAAAGAACCC
Found at i:253003 original size:45 final size:43
Alignment explanation
Indices: 252897--253043 Score: 163
Period size: 45 Copynumber: 3.4 Consensus size: 43
252887 TGTTTATATA
* * * * *
252897 AAAAATGCCGCTATAGGT-CCGACCTTTTACGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCC
* * * *
252939 -AAAACACCGCTGTAGATATCGATCTTTTGCGATGTTTGTTCC
1 AAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCC
*
252981 AAAAAAACGCCGCTATAGATATCGACCTTTTGCGGCGTTTGTTCC
1 --AAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCC
*
253026 AAAAACGCTGCTATAGAT
1 AAAAACGCCGCTATAGAT
253044 CTTGACCTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 13 0.15
42 19 0.22
43 17 0.20
45 37 0.43
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCC
Found at i:254242 original size:18 final size:18
Alignment explanation
Indices: 254219--254279 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
254209 CTGCAATCGA
254219 TTCATCCTCCTTCGGTCG
1 TTCATCCTCCTTCGGTCG
* ** *
254237 TTCATCCTTCTTCTATCA
1 TTCATCCTCCTTCGGTCG
254255 TTCA-CCTCCTTCGGTCG
1 TTCATCCTCCTTCGGTCG
254272 ATTCATCC
1 -TTCATCC
254280 ACCGTAGAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 9 0.27
18 22 0.67
19 2 0.06
ACGTcount: A:0.11, C:0.38, G:0.10, T:0.41
Consensus pattern (18 bp):
TTCATCCTCCTTCGGTCG
Found at i:256669 original size:15 final size:15
Alignment explanation
Indices: 256637--256679 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
256627 AGAGCCTCTT
256637 AATCATTCAGACTGCTA
1 AATCATTCAG--TGCTA
256654 AATCATTCAGTGCTA
1 AATCATTCAGTGCTA
256669 AA-CTATTCAGT
1 AATC-ATTCAGT
256680 TTTAACAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 14 0.56
17 10 0.40
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (15 bp):
AATCATTCAGTGCTA
Found at i:261506 original size:22 final size:23
Alignment explanation
Indices: 261467--261513 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
261457 ATATTCAATA
261467 TAAATAATTATGAAAAATA-ATT
1 TAAATAATTATGAAAAATATATT
*
261489 TAAATAATT-TAGATAAATATATT
1 TAAATAATTAT-GAAAAATATATT
261512 TA
1 TA
261514 TTTATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAATAATTATGAAAAATATATT
Found at i:261564 original size:21 final size:21
Alignment explanation
Indices: 261540--261585 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
261530 AAAAAATGTC
*
261540 TTTTAACATATATTAAATAAT
1 TTTTAACATATATTAAAGAAT
* *
261561 TTTTAATATATTTTAAAGAAT
1 TTTTAACATATATTAAAGAAT
261582 TTTT
1 TTTT
261586 TGGGATTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTAACATATATTAAAGAAT
Found at i:264105 original size:18 final size:17
Alignment explanation
Indices: 264080--264113 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
264070 TGAATTTACG
264080 TTTTAATTGTTATTTAT
1 TTTTAATTGTTATTTAT
*
264097 TTTTAAATTGTTTTTTA
1 TTTT-AATTGTTATTTA
264114 ATTCTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAATTGTTATTTAT
Found at i:264192 original size:22 final size:22
Alignment explanation
Indices: 264167--264233 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
264157 AATTAATTAA
264167 TTAATTTTATTTTAT-TTTTCTT
1 TTAATTTTATTTT-TCTTTTCTT
264189 TTAATTGTT-TTTTTCTTTTCTT
1 TTAATT-TTATTTTTCTTTTCTT
*
264211 TT-ATTTCA-TTTTC--TTCTT
1 TTAATTTTATTTTTCTTTTCTT
264229 TTAAT
1 TTAAT
264234 CATTTTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
18 7 0.17
19 2 0.05
20 6 0.15
21 4 0.10
22 19 0.47
23 2 0.05
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (22 bp):
TTAATTTTATTTTTCTTTTCTT
Found at i:264240 original size:18 final size:18
Alignment explanation
Indices: 264206--264239 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
264196 TTTTTTTCTT
*
264206 TTCTTTTATTTCATTTTC
1 TTCTTTTATATCATTTTC
264224 TTCTTTTA-ATCATTTT
1 TTCTTTTATATCATTTT
264240 TAATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTTATATCATTTTC
Found at i:264261 original size:15 final size:15
Alignment explanation
Indices: 264227--264259 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
264217 CATTTTCTTC
264227 TTTTAATCATTTTTA
1 TTTTAATCATTTTTA
*
264242 ATTTAAT-ATTTTTA
1 TTTTAATCATTTTTA
264256 TTTT
1 TTTT
264260 TAGCTATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATCATTTTTA
Found at i:287251 original size:8 final size:7
Alignment explanation
Indices: 287222--287267 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
287212 TCCTAAGTCG
*
287222 AAAAGGA
1 AAAAGAA
287229 AAAAG--
1 AAAAGAA
287234 AAAAGAA
1 AAAAGAA
287241 AAAAGGAA
1 AAAA-GAA
287249 AAAAGAA
1 AAAAGAA
287256 AAAAGAGA
1 AAAAGA-A
287264 AAAA
1 AAAA
287268 ACGTTTAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
7 18 0.51
8 12 0.34
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:287254 original size:15 final size:16
Alignment explanation
Indices: 287234--287268 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
287224 AAGGAAAAAG
287234 AAAAGAAAAAAG-GAA
1 AAAAGAAAAAAGAGAA
287249 AAAAGAAAAAAGAGAA
1 AAAAGAAAAAAGAGAA
287265 AAAA
1 AAAA
287269 CGTTTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAGAA
Found at i:287330 original size:5 final size:6
Alignment explanation
Indices: 287307--287347 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
287297 CCTAAATTAA
287307 AAAAAG AAAAATTG AAAAAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAA--G AAAAAG AAAAAG AAAAAG AAAAAG AAAA
287348 TAAGGTGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
8 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:287337 original size:12 final size:12
Alignment explanation
Indices: 287307--287347 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 12
287297 CCTAAATTAA
287307 AAAAAGAAAAATTG
1 AAAAAGAAAAA--G
287321 AAAAAGAAAAAG
1 AAAAAGAAAAAG
287333 AAAAAG-AAAAG
1 AAAAAGAAAAAG
287344 AAAA
1 AAAA
287348 TAAGGTGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.33
12 7 0.26
14 11 0.41
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:289131 original size:20 final size:20
Alignment explanation
Indices: 289093--289142 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
289083 ATATACACAT
*
289093 TATATATTACATATTTATAA
1 TATATATTACATATGTATAA
*
289113 TATATATCTACAT-TGTATAGT
1 TATATAT-TACATATGTATA-A
289134 TATATATTA
1 TATATATTA
289143 TATTTATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (20 bp):
TATATATTACATATGTATAA
Found at i:290505 original size:65 final size:65
Alignment explanation
Indices: 290436--290582 Score: 176
Period size: 65 Copynumber: 2.2 Consensus size: 65
290426 TTTTAATTGG
* *
290436 TTTTTATTTTTAATTTTTT-TTAATTCTATTTTATTTTT-TTCTTTATCTCTTTTCCTTCTTTTA
1 TTTTTAATTTTAATTTTTTGTT-ATTCT-TTTAATTTTTATT-TTTATCTCTTTTCCTTCTTTTA
290499 AT-
63 ATA
* * *
290501 TTTTTAATTTTAATTTTTTGTTTTTCTTTTAATTTTTAATTTTTATTTCTTTTTCTTCTTTTAAT
1 TTTTTAATTTTAATTTTTTGTTATTCTTTTAATTTTT-ATTTTTATCTCTTTTCCTTCTTTTAAT
290566 A
65 A
290567 TTTTTTAA-TTTAATTT
1 -TTTTTAATTTTAATTT
290583 AATTCCTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
64 9 0.12
65 44 0.61
66 12 0.17
67 7 0.10
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (65 bp):
TTTTTAATTTTAATTTTTTGTTATTCTTTTAATTTTTATTTTTATCTCTTTTCCTTCTTTTAATA
Found at i:290513 original size:14 final size:14
Alignment explanation
Indices: 290494--290544 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
290484 CTTTTCCTTC
290494 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
*
290508 TTTTAATTTTTT-G
1 TTTTAATTTTTTAA
*
290521 TTTT--TCTTTTAA
1 TTTTAATTTTTTAA
290533 TTTTTAATTTTT
1 -TTTTAATTTTT
290545 ATTTCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 5 0.17
13 8 0.28
14 12 0.41
15 4 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:290537 original size:32 final size:32
Alignment explanation
Indices: 290436--290570 Score: 116
Period size: 32 Copynumber: 4.2 Consensus size: 32
290426 TTTTAATTGG
* * *
290436 TTTTTATTTTTAATTT-TTTTTAATTCTATTTTA
1 TTTTTAATTTTAATTTCTTTTT-CTTCT-TTTAA
* * *
290469 TTTTT--TTCTTTATCTCTTTTCCTTCTTTTAA
1 TTTTTAATT-TTAATTTCTTTTTCTTCTTTTAA
*
290500 TTTTTTAATTTTAATTT-TTTGTTTTTCTTTTAA
1 -TTTTTAATTTTAATTTCTTT-TTCTTCTTTTAA
*
290533 TTTTTAATTTTTATTTCTTTTTCTTCTTTTAA
1 TTTTTAATTTTAATTTCTTTTTCTTCTTTTAA
290565 TATTTT
1 T-TTTT
290571 TTAATTTAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
31 6 0.07
32 44 0.53
33 31 0.37
34 2 0.02
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (32 bp):
TTTTTAATTTTAATTTCTTTTTCTTCTTTTAA
Found at i:290602 original size:65 final size:63
Alignment explanation
Indices: 290464--290618 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 63
290454 TTTAATTCTA
* * **
290464 TTTTATTTTT-TTCTTTATCTCTTTTCCTTCTTTTAATTTTTTAATTTTAATTTTTTGTTTTTC
1 TTTTATTTTTATT-TTTATTTCTTTTTCTTCTTTTAATTTTTTAATTTTAATTTTTCCTTTTTC
290527 TTTTAATTTTTAATTTTTATTTCTTTTTCTTCTTTTAATATTTTTTAA-TTTAATTTAATTCCTT
1 TTTT-ATTTTT-ATTTTTATTTCTTTTTCTTCTTTT-A-ATTTTTTAATTTTAATTT--TTCCTT
290591 TTT-
60 TTTC
*
290594 TTTT-TTTTTATTTTTTTTTCTTTTT
1 TTTTATTTTTATTTTTATTTCTTTTT
290619 GAGTCGTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
63 4 0.05
64 21 0.26
65 24 0.30
66 11 0.14
67 13 0.16
68 7 0.09
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (63 bp):
TTTTATTTTTATTTTTATTTCTTTTTCTTCTTTTAATTTTTTAATTTTAATTTTTCCTTTTTC
Found at i:290629 original size:58 final size:60
Alignment explanation
Indices: 290540--290664 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 60
290530 TAATTTTTAA
* *
290540 TTTTTATTTCTTTTTCTTCTTTTAATATTTTTTAATTTAATTTA-ATTCCTTTTTT-TTT
1 TTTTTATTTCTTTTTCTTCTTTGAATATTTTTTAATTTAATTTATATTCCTTTTTTATTC
* * * * * *
290598 TTTTTATTTTTTTTTCTT-TTTGAGTCGTTTTTTATTTTATTTTATTTTTCCTTTTTTATTC
1 TTTTTATTTCTTTTTCTTCTTTGAAT-ATTTTTTAATTTAATTTA-TATTCCTTTTTTATTC
290659 TTTTTA
1 TTTTTA
290665 AATTTTAGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
57 5 0.09
58 32 0.58
60 10 0.18
61 8 0.15
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (60 bp):
TTTTTATTTCTTTTTCTTCTTTGAATATTTTTTAATTTAATTTATATTCCTTTTTTATTC
Found at i:290670 original size:24 final size:24
Alignment explanation
Indices: 290625--290670 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
290615 TTTTGAGTCG
* *
290625 TTTTTTATTTTATTTTATTTTTCC
1 TTTTTTATTTTATTTAAATTTTCC
290649 TTTTTTATTCTT-TTTAAATTTT
1 TTTTTTATT-TTATTTAAATTTT
290671 AGCTAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTTATTTTATTTAAATTTTCC
Found at i:290670 original size:35 final size:33
Alignment explanation
Indices: 290599--290671 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 33
290589 TTTTTTTTTT
*
290599 TTTTATTTTTTTTTCTTTTTGAGTCGTTTTTTA
1 TTTTATTTTTTTTTCTTTTTGAGTCGTTTTTAA
* *
290632 TTTTATTTTATTTTTCCTTTTTTATTC-TTTTTAAA
1 TTTTATTTT-TTTTT-CTTTTTGAGTCGTTTTT-AA
290667 TTTTA
1 TTTTA
290672 GCTAACTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 9 0.26
34 10 0.29
35 15 0.44
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (33 bp):
TTTTATTTTTTTTTCTTTTTGAGTCGTTTTTAA
Found at i:290715 original size:16 final size:16
Alignment explanation
Indices: 290686--290731 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
290676 ACTTTTTTTT
*
290686 GTTTCTTTTT-ATTTA
1 GTTTTTTTTTAATTTA
290701 -TTTATTTTTTAATTTA
1 GTTT-TTTTTTAATTTA
*
290717 GTTTTTTTATAATTT
1 GTTTTTTTTTAATTT
290732 TCTTTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 5 0.19
16 15 0.58
17 3 0.12
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (16 bp):
GTTTTTTTTTAATTTA
Found at i:290822 original size:18 final size:19
Alignment explanation
Indices: 290778--290827 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
290768 TATATATTTG
*
290778 TTTTATTTATGTTATTCTTA
1 TTTTTTTTAT-TTATTCTTA
* *
290798 TTATTTTTATTTATT-TTC
1 TTTTTTTTATTTATTCTTA
290816 TTTTTTTTATTT
1 TTTTTTTTATTT
290828 TTGTGACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 13 0.50
19 5 0.19
20 8 0.31
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTTATTTATTCTTA
Found at i:290825 original size:24 final size:24
Alignment explanation
Indices: 290778--290829 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
290768 TATATATTTG
290778 TTTTATTTATGTTATTCTTATTAT
1 TTTTATTTATGTTATTCTTATTAT
* * * *
290802 TTTTATTTATTTTCTTTTTTTTAT
1 TTTTATTTATGTTATTCTTATTAT
290826 TTTT
1 TTTT
290830 GTGACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTTATTTATGTTATTCTTATTAT
Found at i:292463 original size:15 final size:15
Alignment explanation
Indices: 292441--292494 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
292431 TAAGCAAATA
292441 AATT-TTATTATGAT
1 AATTATTATTATGAT
292455 AATTATTATTAT-ATT
1 AATTATTATTATGA-T
*
292470 AATTATTAATTATGTT
1 AATTATT-ATTATGAT
292486 AATATATTA
1 AAT-TATTA
292495 GGTAAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 5 0.15
15 15 0.44
16 10 0.29
17 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
AATTATTATTATGAT
Found at i:299325 original size:39 final size:39
Alignment explanation
Indices: 299268--299538 Score: 253
Period size: 39 Copynumber: 7.0 Consensus size: 39
299258 CCTGTACACC
* * *
299268 CAGTAAGGGCTTACCCTGTGAACAAAGTAGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAGGAGCCTG
* * * * *
299307 CAGTAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCATG
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAGGAGCCTG
* * * * * *
299346 CA-TAAGGAGTTATCTTGAGTACAAAGTCA-AAGAGCTTG
1 CAGTAAGGACTTACCCTGAGCACAAAGT-AGAGGAGCCTG
* * * *
299384 CAGTAATGACTTACTCTGAGCATAAAGCT-GAGGAGCATG
1 CAGTAAGGACTTACCCTGAGCACAAAG-TAGAGGAGCCTG
* * *
299423 CAGTAAGGACTTACCCTGAGTACAAA-TCCGAAGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGT-AGAGGAGCCTG
* *
299462 CGGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAGGAGCCTG
* * *
299501 TAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGCCT
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAGGAGCCT
299539 ACGAAAAGCG
Statistics
Matches: 191, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 28 0.15
39 160 0.84
40 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGTAGAGGAGCCTG
Found at i:299473 original size:78 final size:78
Alignment explanation
Indices: 299268--299538 Score: 289
Period size: 78 Copynumber: 3.5 Consensus size: 78
299258 CCTGTACACC
* * * * * * *
299268 CAGTAAGGGCTTACCCTGTGAACAAAGTAGAGGAGCCTGCAGTAAGGTCTTA-TCCTGTGCACAA
1 CAGTAAGGACTTACCCTGAGTACAAAGTCGAAGAGCCTGCAGTAAGGACTTACT-CTGAGCACAA
*
299332 AGCAGAGGAGCATG
65 AGCTGAGGAGCATG
* * * * * * *
299346 CA-TAAGGAGTTATCTTGAGTACAAAGTCAAAGAGCTTGCAGTAATGACTTACTCTGAGCATAAA
1 CAGTAAGGACTTACCCTGAGTACAAAGTCGAAGAGCCTGCAGTAAGGACTTACTCTGAGCACAAA
299410 GCTGAGGAGCATG
66 GCTGAGGAGCATG
* *
299423 CAGTAAGGACTTACCCTGAGTACAAA-TCCGAAGAGCCTGCGGTAAGGACTTACCCTGAGCACAA
1 CAGTAAGGACTTACCCTGAGTACAAAGT-CGAAGAGCCTGCAGTAAGGACTTACTCTGAGCACAA
*
299487 AG-TCGAGGAGCCTG
65 AGCT-GAGGAGCATG
* * * *
299501 TAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGCCT
1 CAGTAAGGACTTACCCTGAGTACAAAGTCGAAGAGCCT
299539 ACGAAAAGCG
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
77 62 0.39
78 96 0.60
79 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (78 bp):
CAGTAAGGACTTACCCTGAGTACAAAGTCGAAGAGCCTGCAGTAAGGACTTACTCTGAGCACAAA
GCTGAGGAGCATG
Found at i:299513 original size:117 final size:116
Alignment explanation
Indices: 299268--299536 Score: 272
Period size: 116 Copynumber: 2.3 Consensus size: 116
299258 CCTGTACACC
* * * * * * * * *
299268 CAGTAAGGGCTTACCCTGTGAACAAAGTAGAGGAGCCTGCAGTAAGGTCTTATCCTGTGCACAAA
1 CAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGCATGCAGTAAGGACTTACCCTGAGCACAAA
* * * * * *
299333 GCAGAGGAGCATGCATAAGGAGTTATCTTGAGTACAAAGTCAAAGAGCTTG
66 GCAGAAGAGCATGCATAAGGACTTACCCTGAGCACAAAGTCAAAGAGCCTG
* * *
299384 CAGTAATGACTTACTC-TGAGCATAAAG-CTGAGGAGCATGCAGTAAGGACTTACCCTGAGTACA
1 CAGTAAGGACTTAC-CATGAGCACAAAGTC-GAGGAGCATGCAGTAAGGACTTACCCTGAGCACA
* * * * * *
299447 AATCCGAAGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGTCGAGGAGCCTG
64 AAGCAGAAGAGCATGC-ATAAGGACTTACCCTGAGCACAAAGTCAAAGAGCCTG
*
299501 TAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGC
1 CAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGC
299537 CTACGAAAAG
Statistics
Matches: 122, Mismatches: 26, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
116 62 0.51
117 59 0.48
118 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (116 bp):
CAGTAAGGACTTACCATGAGCACAAAGTCGAGGAGCATGCAGTAAGGACTTACCCTGAGCACAAA
GCAGAAGAGCATGCATAAGGACTTACCCTGAGCACAAAGTCAAAGAGCCTG
Found at i:304307 original size:55 final size:54
Alignment explanation
Indices: 304191--304699 Score: 548
Period size: 55 Copynumber: 9.4 Consensus size: 54
304181 CTATGTGTAC
* * * * *
304191 TATCGACACTAA--GTGCAAAATCACAAAATTCATAATATGTTTATAAACAACCA
1 TATCGACACTAAGTGTGCAAAA-CCCAGAATTCATAATATGTTTATGAACGACCG
* * * * * *
304244 TATTGGCACAAAGTATGGAAAACCTTA-ATATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACC-CAGA-ATTCATAATATGTTTATGAACGACCG
* * *
304299 TATCGGCACTAAGTGTACAAAACCACAGAATTCATAATATGTTTATGAACGATCG
1 TATCGACACTAAGTGTGCAAAACC-CAGAATTCATAATATGTTTATGAACGACCG
304354 TATCGACACT-AGTGTGCAAAACCACAGAATTCATAATATGTTTATGAA-GACCG
1 TATCGACACTAAGTGTGCAAAACC-CAGAATTCATAATATGTTTATGAACGACCG
* * * * * * *
304407 TATCAACACTAAGTGTCCAAAACCACATAATTTATATTATGTTTATGAATGATCG
1 TATCGACACTAAGTGTGCAAAACC-CAGAATTCATAATATGTTTATGAACGACCG
* * *
304462 TATCGACACTAACTGTGCAAAATCACGGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAA-CCCAGAATTCATAATATGTTTATGAACGACCG
* * *
304517 TATC-AGCACTAAGTGTGCAAAA-CCATGGAATTCATAATTTGTTAATGAACGACCA
1 TATCGA-CACTAAGTGTGCAAAACCCA--GAATTCATAATATGTTTATGAACGACCG
*
304572 TATCGACACTAAGTGTGC-AACCCACAGAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACC-CAGAATTCATAATATGTTTATGAACGACCG
* * *
304626 TATCAACACTAAGTGTGCAAAACCACATAATTCATAATATTTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACC-CAGAATTCATAATATGTTTATGAACGACCG
* * *
304681 TATTGGCACTATGTGTGCA
1 TATCGACACTAAGTGTGCA
304700 CCTCAAAGAA
Statistics
Matches: 386, Mismatches: 55, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
53 23 0.06
54 118 0.31
55 240 0.62
56 5 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAAAACCCAGAATTCATAATATGTTTATGAACGACCG
Found at i:304398 original size:109 final size:110
Alignment explanation
Indices: 304191--304699 Score: 625
Period size: 109 Copynumber: 4.7 Consensus size: 110
304181 CTATGTGTAC
* * * * * * * * *
304191 TATCGACACTAA--GTGCAAAATCACAAAATTCATAATATGTTTATAAACAACCATATTGGCACA
1 TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
* * **
304254 AAGTATGGAAAACCTTA-ATATTCATAATATGTTTATGAACGACCG
66 AAGTGTGCAAAACCACAGA-ATTCATAATATGTTTATGAACGACCG
** * *
304299 TATCGGCACTAAGTGTACAAAACCACAGAATTCATAATATGTTTATGAACGATCGTATCGACACT
1 TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
304364 -AGTGTGCAAAACCACAGAATTCATAATATGTTTATGAA-GACCG
66 AAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCG
* * * * * *
304407 TATCAACACTAAGTGTCCAAAACCACATAATTTATATTATGTTTATGAATGATCGTATCGACACT
1 TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
* * *
304472 AACTGTGCAAAATCACGGAATTCATAATATGTTTATGAACGACCG
66 AAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCG
* ** * * *
304517 TATCAGCACTAAGTGTGCAAAACCATGGAATTCATAATTTGTTAATGAACGACCATATCGACACT
1 TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
*
304582 AAGTGTGC-AACCCACAGAATTCATAATATGTTTATGAACGACCG
66 AAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCG
* * * *
304626 TATCAACACTAAGTGTGCAAAACCACATAATTCATAATATTTTTATGAACGACCGTATTGGCACT
1 TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
*
304691 ATGTGTGCA
66 AAGTGTGCA
304700 CCTCAAAGAA
Statistics
Matches: 343, Mismatches: 52, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
108 74 0.22
109 162 0.47
110 107 0.31
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (110 bp):
TATCAACACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCGTATCGACACT
AAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGACCG
Found at i:304618 original size:164 final size:163
Alignment explanation
Indices: 304273--304699 Score: 588
Period size: 164 Copynumber: 2.6 Consensus size: 163
304263 AAACCTTAAT
* *
304273 ATTCATAATATGTTTATGAACGACCGTATCGGCACTAAGTGTACAAAACCACAGAATTCATAATA
1 ATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAAAACCACAGAATTCATAATA
* *
304338 TGTTTATGAACGATCGTATCGACACT-AGTGTGCAAAACCACAGAATTCATAATATGTTTATGAA
66 TGTTTATGAACGACCGTATCG-CACTAAGTGTGCAAAACCACAGAATTCATAATATGTTAATGAA
* *
304402 GACCGTATCAACACTAAGTGTCCAAAACCACATA
130 GACCATATCAACACTAAGTGTCCAAAACCACAGA
* * * * * * *
304436 ATTTATATTATGTTTATGAATGATCGTATCGACACTAACTGTGCAAAATCACGGAATTCATAATA
1 ATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAAAACCACAGAATTCATAATA
** *
304501 TGTTTATGAACGACCGTATCAGCACTAAGTGTGCAAAACCATGGAATTCATAATTTGTTAATGAA
66 TGTTTATGAACGACCGTATC-GCACTAAGTGTGCAAAACCACAGAATTCATAATATGTTAATGAA
* * *
304566 CGACCATATCGACACTAAGTGTGC-AACCCACAGA
130 -GACCATATCAACACTAAGTGTCCAAAACCACAGA
* *
304600 ATTCATAATATGTTTATGAACGACCGTATCAACACTAAGTGTGCAAAACCACATAATTCATAATA
1 ATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAAAACCACAGAATTCATAATA
* * *
304665 TTTTTATGAACGACCGTATTGGCACTATGTGTGCA
66 TGTTTATGAACGACCGTA-TCGCACTAAGTGTGCA
304700 CCTCAAAGAA
Statistics
Matches: 229, Mismatches: 31, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
163 79 0.34
164 129 0.56
165 21 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (163 bp):
ATTCATAATATGTTTATGAACGACCGTATCGACACTAAGTGTGCAAAACCACAGAATTCATAATA
TGTTTATGAACGACCGTATCGCACTAAGTGTGCAAAACCACAGAATTCATAATATGTTAATGAAG
ACCATATCAACACTAAGTGTCCAAAACCACAGA
Found at i:311059 original size:53 final size:54
Alignment explanation
Indices: 310888--311286 Score: 527
Period size: 55 Copynumber: 7.4 Consensus size: 54
310878 CAATGTGTAC
* *
310888 TATCAGCACTAAGTGTACAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAAAACCACG-AATTCATAATATGTTTATGAACGACCG
* * *
310943 TATTGGCATTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAAAACCAC-GAATTCATAATATGTTTATGAACGACCG
* * *
310998 TATTGGCACTAAGTTTGCAAAACCACGAATT-ATAATATGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAAAACCACGAATTCATAATATGTTTATGAACGACCG
*
311051 TATCGGCACTAAGTGTGTAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAAAACCACG-AATTCATAATATGTTTATGAACGACCG
** * ** * *
311106 TATCAACACT-A-TGTGTAAAACCATAAAATTTATAATATGTTTATGAACGACCT
1 TATCGGCACTAAGTGTGCAAAACCA-CGAATTCATAATATGTTTATGAACGACCG
* * *
311159 TATCGACACTAAGTGTGC-AACCCACAGAATTCATAATATGTTTATGCACGACCG
1 TATCGGCACTAAGTGTGCAAAACCAC-GAATTCATAATATGTTTATGAACGACCG
*
311213 TATCAGCACTAAGTGTGCAAAACCACGTAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAAAACCACG-AATTCATAATATGTTTATGAACGACCG
*
311268 TATCGGCACTACGTGTGCA
1 TATCGGCACTAAGTGTGCA
311287 CCTCAAAGAA
Statistics
Matches: 302, Mismatches: 33, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
53 90 0.30
54 57 0.19
55 154 0.51
56 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAAAACCACGAATTCATAATATGTTTATGAACGACCG
Found at i:311084 original size:108 final size:109
Alignment explanation
Indices: 310888--311284 Score: 552
Period size: 108 Copynumber: 3.7 Consensus size: 109
310878 CAATGTGTAC
* * *
310888 TATCAGCACTAAGTGTACAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATTGGCATT
1 TATCAGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGGCACT
*
310953 AAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAACGATCG
66 AAGTGTG-AAAACCACAGAATTCATAATATGTTTATGAACGACCG
** * *
310998 TATTGGCACTAAGTTTGCAAAACCACG-AATT-ATAATATGTTTATGAATGACCGTATCGGCACT
1 TATCAGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGGCACT
311061 AAGTGTGTAAAACCAC-GAAATTCATAATATGTTTATGAACGACCG
66 AAGTGTG-AAAACCACAG-AATTCATAATATGTTTATGAACGACCG
* * ** * * *
311106 TATCAACACT-A-TGTGTAAAACCATAAAATTTATAATATGTTTATGAACGACCTTATCGACACT
1 TATCAGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGGCACT
* * *
311169 AAGTGTGCAACCCACAGAATTCATAATATGTTTATGCACGACCG
66 AAGTGTGAAAACCACAGAATTCATAATATGTTTATGAACGACCG
*
311213 TATCAGCACTAAGTGTGCAAAACCACGTAATTCATAATATGTTTATGAACGACCGTATCGGCACT
1 TATCAGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGGCACT
*
311278 ACGTGTG
66 AAGTGTG
311285 CACCTCAAAG
Statistics
Matches: 250, Mismatches: 31, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
106 10 0.04
107 47 0.19
108 115 0.46
109 55 0.22
110 23 0.09
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (109 bp):
TATCAGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCGTATCGGCACT
AAGTGTGAAAACCACAGAATTCATAATATGTTTATGAACGACCG
Found at i:315264 original size:18 final size:18
Alignment explanation
Indices: 315241--315283 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
315231 CTTTAGATTA
*
315241 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
315259 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
315277 TTTATTT
1 TTTATTT
315284 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:315344 original size:12 final size:11
Alignment explanation
Indices: 315327--315418 Score: 57
Period size: 11 Copynumber: 8.2 Consensus size: 11
315317 TTTACTACTA
315327 TTATTTATTATT
1 TTATTT-TTATT
** *
315339 TTATTTAACACT
1 TTATTT-TTATT
315351 TTA-TTTTATT
1 TTATTTTTATT
*
315361 TTA-TTTTGTT
1 TTATTTTTATT
315371 TTATTTTTATT
1 TTATTTTTATT
*
315382 TTCCCACTTCTT-TT
1 TT---A-TTTTTATT
315396 TTA-TTTTATT
1 TTATTTTTATT
315406 TTATTTTTATT
1 TTATTTTTATT
315417 TT
1 TT
315419 CTCTTTTAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.05
10 19 0.30
11 20 0.32
12 12 0.19
14 5 0.08
15 4 0.06
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:315358 original size:5 final size:5
Alignment explanation
Indices: 315350--315418 Score: 59
Period size: 5 Copynumber: 12.6 Consensus size: 5
315340 TATTTAACAC
*
315350 TTTAT TTTAT TTTAT TTTGT TTTATT TTTAT TTTCCCACT TCTT-T TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT---A-T T-TTAT TTTAT
315400 TTTAT TTTATT TTTAT TTT
1 TTTAT TTTA-T TTTAT TTT
315419 CTCTTTTAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
4 2 0.04
5 37 0.69
6 10 0.19
8 1 0.02
9 2 0.04
10 2 0.04
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:315375 original size:40 final size:40
Alignment explanation
Indices: 315337--315428 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
315327 TTATTTATTA
*
315337 TTTTA-TTTAACACTT-TATTTTATTTTATTTTGTTTTAT
1 TTTTATTTTAACACTTCTATTTTATTTTATTTTATTTTAT
** *
315375 TTTTATTTTCCCACTTCTTTTTTATTTTATTTTATTTTTAT
1 TTTTATTTTAACACTTCTATTTTATTTTATTTTA-TTTTAT
*
315416 TTTCTCTTTTAAC
1 TTT-TATTTTAAC
315429 TTTTTTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 5 0.12
39 8 0.19
40 15 0.35
41 9 0.21
42 6 0.14
ACGTcount: A:0.17, C:0.11, G:0.01, T:0.71
Consensus pattern (40 bp):
TTTTATTTTAACACTTCTATTTTATTTTATTTTATTTTAT
Found at i:322929 original size:123 final size:123
Alignment explanation
Indices: 322710--322946 Score: 334
Period size: 123 Copynumber: 1.9 Consensus size: 123
322700 AGAGTCAATG
* * * * *
322710 TCAACTTCACAGCGAAGGATATTAAACTCGAGCCAATGTAATTTTCAAGATTGGATTTCAACTTC
1 TCAACTTCACAGCAAAAGATATTAAACTCAAGCCAATGTAATTTACAAGATTGGATTTAAACTTC
* *
322775 ACAATGAAGGACATCCAATTCAAAGCTCAACTTCATAGCGAATAAGCCATCCACAAGT
66 ACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATAAGCCATCCACAAGT
* *
322833 TCAACTTCACAGCAAAAGATATTAATCTCAAAG-CGAT-TCAATTTACAAGATTGGATTTAAACT
1 TCAACTTCACAGCAAAAGATATTAAACTC-AAGCCAATGT-AATTTACAAGATTGGATTTAAACT
* * *
322896 TTACAATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAGTAAGCCA
64 TCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATAAGCCA
322947 CCTATGATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
122 1 0.01
123 97 0.97
124 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (123 bp):
TCAACTTCACAGCAAAAGATATTAAACTCAAGCCAATGTAATTTACAAGATTGGATTTAAACTTC
ACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATAAGCCATCCACAAGT
Found at i:322963 original size:123 final size:123
Alignment explanation
Indices: 322749--322977 Score: 325
Period size: 123 Copynumber: 1.9 Consensus size: 123
322739 GAGCCAATGT
* * * *
322749 AATTTTCAAGATTGGATTTCAACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCATAGC
1 AATTTACAAGATTGGATTTAAACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAAC
*
322814 GAATAAGCCATCCACAAGTTCAACTTCACAGCAAAAGATATTAATCTCAAAGCGATTC
66 GAATAAGCCATCCACAAGTTCAACTTCACAACAAAAGATATTAATCTCAAAGCGATTC
* *
322872 AATTTACAAGATTGGATTTAAACTTTACAATGAAGGATATCCAATTCAAAGCTCAACTTCACAAC
1 AATTTACAAGATTGGATTTAAACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAAC
* ** * * *
322937 GAGTAAGCCA-CCTATGATTTCGACTTCACAACGAAAGATAT
66 GAATAAGCCATCC-ACAAGTTCAACTTCACAACAAAAGATAT
322978 CGTACCCAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 2 0.02
123 90 0.98
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (123 bp):
AATTTACAAGATTGGATTTAAACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAAC
GAATAAGCCATCCACAAGTTCAACTTCACAACAAAAGATATTAATCTCAAAGCGATTC
Found at i:324403 original size:18 final size:18
Alignment explanation
Indices: 324380--324422 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
324370 CTTTAGATTA
*
324380 TTTATTTAA-TCATTTTCT
1 TTTATTTAATTC-TTATCT
324398 TTTATTTAATTCTTATCT
1 TTTATTTAATTCTTATCT
324416 TTTATTT
1 TTTATTT
324423 TCAAAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTCTTATCT
Found at i:324515 original size:21 final size:20
Alignment explanation
Indices: 324487--324526 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
324477 TGTTTAGCAC
*
324487 TTTTTTTTTTTTTTATTTTG
1 TTTTTTTTATTTTTATTTTG
324507 TTTTGTTTTATTTTTATTTT
1 TTTT-TTTTATTTTTATTTT
324527 CCCACTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.88
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTTTG
Found at i:324580 original size:34 final size:32
Alignment explanation
Indices: 324512--324584 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
324502 TTTTGTTTTG
*
324512 TTTTATTTTTATTTTCCCACTTCTTTTTTTTA
1 TTTTATTTTTATTTTCCCACTTCTTTTTTATA
* **
324544 TTTTATTTTTATTTTCTCTTTTAACTTTTTTATA
1 TTTTATTTTTATTTTCCCACTT--CTTTTTTATA
324578 TTTTATT
1 TTTTATT
324585 ATTTTCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 19 0.54
34 16 0.46
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTTTATTTTCCCACTTCTTTTTTATA
Found at i:328737 original size:19 final size:18
Alignment explanation
Indices: 328710--328746 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
328700 TCATAATAAC
328710 TATAGATAATATATATATA
1 TATAGATAATATAT-TATA
*
328729 TATATATAATATATTATA
1 TATAGATAATATATTATA
328747 ACATATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAGATAATATATTATA
Found at i:328752 original size:19 final size:18
Alignment explanation
Indices: 328705--328752 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
328695 TACTATCATA
*
328705 ATAACTATAGATAATATAT
1 ATAAC-ATATATAATATAT
*
328724 ATATATATATATAATATATT
1 ATA-ACATATATAATATA-T
328744 ATAACATAT
1 ATAACATAT
328753 GAAATAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAACATATATAATATAT
Found at i:331919 original size:16 final size:18
Alignment explanation
Indices: 331874--331932 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
331864 ATGATTGACT
*
331874 TAAGAAATGAATAATAATA
1 TAAGAAATGAA-AATAAGA
*
331893 TAAGTAATGAAAAT-AGA
1 TAAGAAATGAAAATAAGA
331910 -AAGAAATG-AAATAAAGA
1 TAAGAAATGAAAAT-AAGA
331927 T-AGAAA
1 TAAGAAA
331933 GATATGGCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
17 10 0.29
18 3 0.09
19 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.20
Consensus pattern (18 bp):
TAAGAAATGAAAATAAGA
Found at i:332008 original size:20 final size:21
Alignment explanation
Indices: 331970--332009 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
331960 TGATGGTCTT
*
331970 AATGAAGGATGTTGATGATGA
1 AATGAAGGATGGTGATGATGA
*
331991 AATGAA-GATGGTGGTGATG
1 AATGAAGGATGGTGATGATG
332010 TTGTATCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
AATGAAGGATGGTGATGATGA
Found at i:335400 original size:2 final size:2
Alignment explanation
Indices: 335393--335446 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
335383 TGAAACATGC
335393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
335435 AT AT AT AT AT AT
1 AT AT AT AT AT AT
335447 TTATGGGACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:338045 original size:14 final size:15
Alignment explanation
Indices: 338023--338051 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
338013 ACCCAAAAGT
338023 AATATTTAAAATTAA
1 AATATTTAAAATTAA
338038 AATA-TTAAAATTAA
1 AATATTTAAAATTAA
338052 GAGATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATTTAAAATTAA
Found at i:339306 original size:12 final size:12
Alignment explanation
Indices: 339289--339339 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
339279 TCATTTAATA
339289 ATAATAATATAT
1 ATAATAATATAT
339301 ATAATAATAGTAT
1 ATAATAATA-TAT
339314 AT-ATAATAATAAT
1 ATAATAAT-AT-AT
339327 ATATATAAT-TAT
1 ATA-ATAATATAT
339339 A
1 A
339340 AAAACCCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 18 0.53
13 11 0.32
15 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:339306 original size:15 final size:15
Alignment explanation
Indices: 339286--339340 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
339276 ATATCATTTA
339286 ATAATAATAATATAT
1 ATAATAATAATATAT
*
339301 ATAATAATAGTATAT
1 ATAATAATAATATAT
339316 ATAATAATAATATAT
1 ATAATAATAATATAT
*
339331 ATAATTATAA
1 ATAATAATAA
339341 AAACCCGTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:339978 original size:42 final size:42
Alignment explanation
Indices: 339905--339986 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
339895 AAGGACTTAT
* *
339905 CATCTTGCTCGAAAGACTAATAGATGACCCGAATGATTTAAG
1 CATCATGCTCGAAAGACTAACAGATGACCCGAATGATTTAAG
*
339947 CATCATGCTCGAAAGACTGACAGAT-AGCCCGAATGATTTA
1 CATCATGCTCGAAAGACTAACAGATGA-CCCGAATGATTTA
339987 CAAATTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATGACCCGAATGATTTAAG
Found at i:347581 original size:14 final size:15
Alignment explanation
Indices: 347559--347587 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
347549 ACCCAAAAGT
347559 AATATTTAAAATTAA
1 AATATTTAAAATTAA
347574 AATA-TTAAAATTAA
1 AATATTTAAAATTAA
347588 GAGATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATTTAAAATTAA
Found at i:348865 original size:2 final size:2
Alignment explanation
Indices: 348858--348908 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
348848 TTATTTAATA
348858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
348899 AT A- AT AT AT A
1 AT AT AT AT AT A
348909 CTCAGATGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:349004 original size:39 final size:39
Alignment explanation
Indices: 348950--349042 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
348940 GAACAAATTA
* *
348950 TTCTCATTATGAACTTCTTCAT-CCTCTTCGGATGAGTTC
1 TTCTCATTATGAACTTCTTC-TCCCTCATCGAATGAGTTC
*
348989 TTCTCAGTATGAACTTCTTCTCCCTCATCGAATGAGTTC
1 TTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTC
349028 TTCTCATTATGAACT
1 TTCTCATTATGAACT
349043 CTCCATTGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (39 bp):
TTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTC
Found at i:349234 original size:138 final size:139
Alignment explanation
Indices: 348984--349599 Score: 905
Period size: 138 Copynumber: 4.4 Consensus size: 139
348974 TCTTCGGATG
* * *
348984 AGTTCTTCTCAGTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* * * *
349049 TGGAAATGTTGATCCCTCGAGTGAGGGATCGCTGATTCAACTCCATATGCTATGAATC-AGCTAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCAAGCTAA
349113 GGTTGAACA
131 GGTTGAACA
**
349122 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTTGTTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* * * * * *
349187 TGGAAATGTTGATCCCTTGAGTGATGGGTCACTGATTCAACTTCATATGCAATGAATCGAGCTAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCAAGCTAA
349252 GGTTGAACA
131 GGTTGAACA
* * * *
349261 AGTTCTTATTATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTAATTATGAA-TCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
** *
349325 TGGAAATGTTGGCCCCTCAAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCTAA-CTA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATC-AAGCTA
349389 AGGTTGAACA
130 AGGTTGAACA
* *
349399 AGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGATGAGTTCTTCACATTATGAACTCTCCAC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
* *
349464 TGGAAATGTTGGTCCCTCGAGTGAGGGGTCACTAATTCAATTCCATATGCGATGAATCAAGCTAA
66 TGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCAAGCTAA
* *
349529 GGTTAAAAA
131 GGTTGAACA
* * ** *
349538 AGTTCTTCTCATTATGAACTTCTCCTCCCTTATTAGACGAGTTCTTCTCATTATGAACTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTC
349600 TTAGAAATGA
Statistics
Matches: 431, Mismatches: 43, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
138 235 0.55
139 196 0.45
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (139 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAC
TGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCAAGCTAA
GGTTGAACA
Found at i:349495 original size:277 final size:277
Alignment explanation
Indices: 348984--349599 Score: 912
Period size: 277 Copynumber: 2.2 Consensus size: 277
348974 TCTTCGGATG
* * * * *
348984 AGTTCTTCTCAGTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTATGAACTCTCCAT
1 AGTTCTTATCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAC
* * * * * *
349049 TGGAAATGTTGATCCCTCGAGTGAGGGATCGCTGATTCAACTCCATATGCTATGAATCAGCTAAG
66 TGGAAATGTTGACCCCTCAAGTGAGGGATCACTAATTCAACTCCATATGCGATGAATCAACTAAG
* ***
349114 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTTGTTATGAA
131 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGATGAGTTCTTCACATTATGAA
* * *
349179 CTCTCCACTGGAAATGTTGATCCCTTGAGTGATGGGTCACTGATTCAACTT-CATATGCAATGAA
196 CTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAA-TTCCATATGCAATGAA
* * *
349243 TCGAGCTAAGGTTGAACA
260 TCAAGCTAAGGTTAAAAA
* *
349261 AGTTCTTATTATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTAATTATGAA-TCTCCAC
1 AGTTCTTATCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAC
* *
349325 TGGAAATGTTGGCCCCTCAAGTGAGGGGTCACTAATTCAACTCCATATGCGATGAATCTAACTAA
66 TGGAAATGTTGACCCCTCAAGTGAGGGATCACTAATTCAACTCCATATGCGATGAATC-AACTAA
349390 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGATGAGTTCTTCACATTATGA
130 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGATGAGTTCTTCACATTATGA
* *
349455 ACTCTCCACTGGAAATGTTGGTCCCTCGAGTGAGGGGTCACTAATTCAATTCCATATGCGATGAA
195 ACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAATTCCATATGCAATGAA
349520 TCAAGCTAAGGTTAAAAA
260 TCAAGCTAAGGTTAAAAA
* * * * *
349538 AGTTCTTCTCATTATGAACTTCTCCTCCCTTATTAGACGAGTTCTTCTCATTATGAACTCTC
1 AGTTCTTATCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTC
349600 TTAGAAATGA
Statistics
Matches: 302, Mismatches: 34, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
276 59 0.20
277 239 0.79
278 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (277 bp):
AGTTCTTATCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAC
TGGAAATGTTGACCCCTCAAGTGAGGGATCACTAATTCAACTCCATATGCGATGAATCAACTAAG
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGATGAGTTCTTCACATTATGAA
CTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGGTCACTAATTCAATTCCATATGCAATGAAT
CAAGCTAAGGTTAAAAA
Found at i:352442 original size:29 final size:27
Alignment explanation
Indices: 352404--352457 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
352394 CAATAAATAA
352404 AAGGTACTCAAATGTAAATAAAAGGAACT
1 AAGGTACTCAAAT-TAAA-AAAAGGAACT
* *
352433 AAGGTGCTCAAATTAAAAAATGGAA
1 AAGGTACTCAAATTAAAAAAAGGAA
352458 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 4 0.17
29 12 0.52
ACGTcount: A:0.52, C:0.09, G:0.19, T:0.20
Consensus pattern (27 bp):
AAGGTACTCAAATTAAAAAAAGGAACT
Found at i:353985 original size:43 final size:43
Alignment explanation
Indices: 353933--354032 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
353923 ATATTGATGT
* * *
353933 TGATTCAACTCCTTCTATGAAGAACCAAGCGAATGATT-TTCAC
1 TGATCCAACTCCTTCTATGAAAAACCAAGCGAAAGATTGTT-AC
* * * *
353976 TGCTCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTGTTAC
1 TGATCCAACTCCTTCTATGAAAAACCAAGCGAAAGATTGTTAC
354019 TGATCCAACTCCTT
1 TGATCCAACTCCTT
354033 ATGTGAAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (43 bp):
TGATCCAACTCCTTCTATGAAAAACCAAGCGAAAGATTGTTAC
Found at i:354240 original size:130 final size:128
Alignment explanation
Indices: 353886--354274 Score: 336
Period size: 130 Copynumber: 3.0 Consensus size: 128
353876 TAAGATGATT
* *
353886 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCATATTGATGTTGATTCAACTCCTTCTAT
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGATGTTGATTCAACTCCTTCTGT
* * * * * **
353951 GAAGAACCAAGCGAATGATTTTCACTGCTCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTG
66 GAAGAACCAAGC-AAAGATTTTCATTGATCCAACTCCTTCTGTGAAGAATCAAGCAAAAGGTTG
* ** * *** * * * * * ***
354015 TTACTGATCCAACTCCTTATGTGAAGGACCGAGTAA-CATGACAAATGTTGATTCAACTCCTTCT
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAG-AACCA-GATTGATGTTGATTCAACTCCTTCT
* * ** * * **
354079 GTGAAGAATCAAACAAA-A-TAACGATGCTGATCTATCTTATTCTGTGATAGAATCAAGCAAAAT
64 GTGAAGAACCAAGCAAAGATTTTC-AT--TGATCCAACTCCTTCTGTGA-AGAATCAAGCAAAA-
354142 GG-TG
124 GGTTG
* * *
354146 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGCACCAGATTGACGTTGATTCAACTCCTTATGT
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGATGTTGATTCAACTCCTTCTGT
**
354211 GAAGAACCAAGCAAAAGATTTTCATTGATCCAACTCCTTCTGTGAAGAATCAAGTGAAAGGTTG
66 GAAGAACCAAGC-AAAGATTTTCATTGATCCAACTCCTTCTGTGAAGAATCAAGCAAAAGGTTG
354275 TTACTTATCC
Statistics
Matches: 188, Mismatches: 60, Indels: 24
0.69 0.22 0.09
Matches are distributed among these distances:
127 2 0.01
128 4 0.02
129 39 0.21
130 97 0.52
131 39 0.21
132 5 0.03
133 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (128 bp):
ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGATGTTGATTCAACTCCTTCTGT
GAAGAACCAAGCAAAGATTTTCATTGATCCAACTCCTTCTGTGAAGAATCAAGCAAAAGGTTG
Found at i:354289 original size:43 final size:43
Alignment explanation
Indices: 354157--354264 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
354147 TGTTGTTTTG
* * ** ** * *
354157 ACTCATTCTGTGAAGAAACAAGCACCAGATTGACGTTGATTCA
1 ACTCCTTCTGTGAAGAACCAAGCAAAAGATTTTCATTGATCCA
*
354200 ACTCCTTATGTGAAGAACCAAGCAAAAGATTTTCATTGATCCA
1 ACTCCTTCTGTGAAGAACCAAGCAAAAGATTTTCATTGATCCA
*
354243 ACTCCTTCTGTGAAGAATCAAG
1 ACTCCTTCTGTGAAGAACCAAG
354265 TGAAAGGTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (43 bp):
ACTCCTTCTGTGAAGAACCAAGCAAAAGATTTTCATTGATCCA
Found at i:354319 original size:260 final size:260
Alignment explanation
Indices: 353886--354437 Score: 771
Period size: 260 Copynumber: 2.1 Consensus size: 260
353876 TAAGATGATT
* * *
353886 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCATATTGATGTTGATTCAACTCCTTCTAT
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGACGTTGATTCAACTCCTTATAT
* * *
353951 GAAGAACCAAGCGAATGATTTTCACTGCTCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTGT
66 GAAGAACCAAGCAAAAGATTTTCACTGATCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTGT
* ** * * *
354016 TACTGATCCAACTCCTTATGTGAAGGACCGAGTAACATGACAAATGTTGATTCAACTCCTTCTGT
131 TACTGATCCAACTCCTTATATGAAAAACCAAATAACATGACAAATGTTGATCCAACTCCTTCTGT
* * * * *
354081 GAAGAATCAAACAAAATAACGATGCTGATCTATCTTATTCTGTGATAGAATCAAGCAAAATGGTG
196 GAAGAATCAAAAAAAATAACGATGCTGATCTATCTCATTATATGATAGAATCAAACAAAATGGTG
* *
354146 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGCACCAGATTGACGTTGATTCAACTCCTTATGT
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGACGTTGATTCAACTCCTTATAT
* * *
354211 GAAGAACCAAGCAAAAGATTTTCATTGATCCAACTCCTTCTGTGAAGAATCAAGTGAAAGGTTGT
66 GAAGAACCAAGCAAAAGATTTTCACTGATCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTGT
* * * * *
354276 TACTTATCCAACTCTTTCTATGAAAAACCAAATAACGTGACAAATGTTGATCCAACTTCTTCTGT
131 TACTGATCCAACTCCTTATATGAAAAACCAAATAACATGACAAATGTTGATCCAACTCCTTCTGT
** * * * * *
354341 GAAGAATCAAAAAAAATGTCGATTCTGATCTATCTCCTTATATGATATAATCAAATAACATGGTG
196 GAAGAATCAAAAAAAATAACGATGCTGATCTATCTCATTATATGATAGAATCAAACAAAATGGTG
* * *
354406 ATGTTTTTTTGACTCTTTCTATGAAGAAACAA
1 ATGTTGTTTTGACTCATTCTGTGAAGAAACAA
354438 AAAGTTCTTC
Statistics
Matches: 255, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
260 255 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (260 bp):
ATGTTGTTTTGACTCATTCTGTGAAGAAACAAGAACCAGATTGACGTTGATTCAACTCCTTATAT
GAAGAACCAAGCAAAAGATTTTCACTGATCCAACTCCTTCTATGAAAAATCAAGTGAAAGGTTGT
TACTGATCCAACTCCTTATATGAAAAACCAAATAACATGACAAATGTTGATCCAACTCCTTCTGT
GAAGAATCAAAAAAAATAACGATGCTGATCTATCTCATTATATGATAGAATCAAACAAAATGGTG
Found at i:354325 original size:130 final size:128
Alignment explanation
Indices: 353929--354346 Score: 337
Period size: 130 Copynumber: 3.2 Consensus size: 128
353919 AACCATATTG
* * * * *
353929 ATGTTGATTCAACTCCTTCTATGAAGAACCAAGCGAATGATTTTCACTGCTCCAACTCCTTCTAT
1 ATGTTGATTCAACTCCTTCTGTGAAGAACCAAGC-AAAGATTTTCATTGATCCAACTCCTTCTGT
* * * * ** *
353994 GAAAAATCAAGTGAAAGGTTGTTACTGATCCAACTCCTTATGTGAAGGACCGAGTAACATGACAA
65 GAAGAATCAAGTGAAAGGTTGTTACTTATCCAACTCATTCTGTGAAAAACC-AATAACATGACAA
* * ** * * **
354059 ATGTTGATTCAACTCCTTCTGTGAAGAATCAAACAAA-A-TAACGATGCTGATCTATCTTATTCT
1 ATGTTGATTCAACTCCTTCTGTGAAGAACCAAGCAAAGATTTTC-AT--TGATCCAACTCCTTCT
** * ** * *
354122 GTGATAGAATCAAGCAAAATGGTGATGTT-GTT-T-TGACTCATTCTGTGAAGAAA-CAAGCACC
63 GTGA-AGAATCAAGTGAAA-GGT--TGTTACTTATCCAACTCATTCTGTGAA-AAACCAA-TAAC
***
354183 A-GATTG
122 ATGACAA
* *
354189 ACGTTGATTCAACTCCTTATGTGAAGAACCAAGCAAAAGATTTTCATTGATCCAACTCCTTCTGT
1 ATGTTGATTCAACTCCTTCTGTGAAGAACCAAGC-AAAGATTTTCATTGATCCAACTCCTTCTGT
* * *
354254 GAAGAATCAAGTGAAAGGTTGTTACTTATCCAACTCTTTCTATGAAAAACCAAATAACGTGACAA
65 GAAGAATCAAGTGAAAGGTTGTTACTTATCCAACTCATTCTGTGAAAAACC-AATAACATGACAA
* *
354319 ATGTTGATCCAACTTCTTCTGTGAAGAA
1 ATGTTGATTCAACTCCTTCTGTGAAGAA
354347 TCAAAAAAAA
Statistics
Matches: 213, Mismatches: 57, Indels: 36
0.70 0.19 0.12
Matches are distributed among these distances:
126 4 0.02
127 4 0.02
128 9 0.04
129 29 0.14
130 122 0.57
131 30 0.14
132 8 0.04
133 3 0.01
134 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (128 bp):
ATGTTGATTCAACTCCTTCTGTGAAGAACCAAGCAAAGATTTTCATTGATCCAACTCCTTCTGTG
AAGAATCAAGTGAAAGGTTGTTACTTATCCAACTCATTCTGTGAAAAACCAATAACATGACAA
Found at i:354385 original size:87 final size:88
Alignment explanation
Indices: 354235--354399 Score: 190
Period size: 87 Copynumber: 1.9 Consensus size: 88
354225 AAGATTTTCA
*** * * * *
354235 TTGATCCAACTCCTTCTGTGAAGAATCAAGTGAAAGGTTGTTACTTATCCAACTCTTTCTATGA-
1 TTGATCCAACTCCTTCTGTGAAGAATCAAAAAAAAGGTCGTTACTGATCCAACTCCTTATATGAT
354299 AAAACCAAATAACGTGACAAATG
66 AAAACCAAATAACGTGACAAATG
* * * *
354322 TTGATCCAACTTCTTCTGTGAAGAATCAAAAAAAATGTCGATT-CTGATCTATCTCCTTATATGA
1 TTGATCCAACTCCTTCTGTGAAGAATCAAAAAAAAGGTCG-TTACTGATCCAACTCCTTATATGA
* *
354386 TATAATCAAATAAC
65 TAAAACCAAATAAC
354400 ATGGTGATGT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
87 50 0.79
88 13 0.21
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (88 bp):
TTGATCCAACTCCTTCTGTGAAGAATCAAAAAAAAGGTCGTTACTGATCCAACTCCTTATATGAT
AAAACCAAATAACGTGACAAATG
Found at i:354715 original size:140 final size:139
Alignment explanation
Indices: 354436--354936 Score: 601
Period size: 140 Copynumber: 3.6 Consensus size: 139
354426 ATGAAGAAAC
* * **
354436 AAAAAGTTCTTCTCATTATGAATTTTTTCTCCCTTATCGGATGAGTTCTTCTCATTATGAACTCT
1 AAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCT
* ** * * *
354501 TCGTTGGAAATATTAATCCCTCGAGTGAGGTGTCGA-TGATTCAACTCCATATACGATGAATCGA
66 CCACTGGAAATATTGATCCCTCGAGTAAGGGGTC-ACTGATTCAACTCCATATACGATGAATCGA
*
354565 GCTAATGTTG
130 GCTAAGGTTG
* * * * *
354575 AAAACGTTCTTCTCCTTATGAACTTTCTTCTCCCTCGTCAGACGTGTTCTTCTCATTATGAACTC
1 AAAAAGTTCTTCTCATTATGAAC-TTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTC
* * * * * *
354640 TGCACTGAAAATTTTGATCCCTCGCGTAAGGGGTCACTGATTCAACTTCATATACGATGAATAGA
65 TCCACTGGAAATATTGATCCCTCGAGTAAGGGGTCACTGATTCAACTCCATATACGATGAATCGA
354705 GCTAAGGTTG
130 GCTAAGGTTG
* * * *
354715 AAAAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAATTATTCTCATTATGAACTCT
1 AAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCT
* ** * * *
354780 CCACTGGAAATGTTGATTACTTGAGTAA-GGGTCGCTGATTCAACTCCATATGCGATGAATCGAG
66 CCACTGGAAATATTGATCCCTCGAGTAAGGGGTCACTGATTCAACTCCATATACGATGAATCGAG
* *
354844 ATTAGGTTG
131 CTAAGGTTG
* * **
354853 AACAAGTTCTTCTCATTATGAACTTATTCTCCCTTTTCGGATGAGTTCTTCTCATTATGAACTCT
1 AAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCT
* * *
354918 CTACTAGAAATGTTGATCC
66 CCACTGGAAATATTGATCC
354937 ACCTCCTTCT
Statistics
Matches: 305, Mismatches: 55, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
138 111 0.36
139 78 0.26
140 116 0.38
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (139 bp):
AAAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCT
CCACTGGAAATATTGATCCCTCGAGTAAGGGGTCACTGATTCAACTCCATATACGATGAATCGAG
CTAAGGTTG
Found at i:354868 original size:138 final size:137
Alignment explanation
Indices: 354437--354936 Score: 588
Period size: 138 Copynumber: 3.6 Consensus size: 137
354427 TGAAGAAACA
* * ** * *
354437 AAAAGTTCTTCTCATTATGAATTTTTTCTCCCTTATCGGATGAGTTCTTCTCATTATGAACTCTT
1 AAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAGTTCTTCTCATTATGAACTCTC
** * * * *
354502 CGTTGGAAATATTAATCCCTCGAGTGAGGTGTCGATGATTCAACTCCATATACGATGAATCGAGC
66 CACTGGAAATGTTGATCCCTCGAGTAAGG-GTCGCTGATTCAACTCCATATACGATGAATCGAGC
*
354567 TAATGTTG
130 TAAGGTTG
* * *
354575 AAAACGTTCTTCTCCTTATGAACTTTCTTCTCCCTCGTC-AGACGTGTTCTTCTCATTATGAACT
1 AAAA-GTTCTTCTCATTATGAAC-TTCTTCTCCCTCGTCGA-ATGAGTTCTTCTCATTATGAACT
* * * * * * *
354639 CTGCACTGAAAATTTTGATCCCTCGCGTAAGGGGTCACTGATTCAACTTCATATACGATGAATAG
63 CTCCACTGGAAATGTTGATCCCTCGAGTAA-GGGTCGCTGATTCAACTCCATATACGATGAATCG
354704 AGCTAAGGTTG
127 AGCTAAGGTTG
* * *
354715 AAAAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAATTATTCTCATTATGAACTCT
1 -AAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAGTTCTTCTCATTATGAACTCT
** * * *
354780 CCACTGGAAATGTTGATTACTTGAGTAAGGGTCGCTGATTCAACTCCATATGCGATGAATCGAGA
65 CCACTGGAAATGTTGATCCCTCGAGTAAGGGTCGCTGATTCAACTCCATATACGATGAATCGAGC
*
354845 TTAGGTTG
130 TAAGGTTG
* ** *
354853 AACAAGTTCTTCTCATTATGAACTTATTCTCCCTTTTCGGATGAGTTCTTCTCATTATGAACTCT
1 AA-AAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAGTTCTTCTCATTATGAACTCT
* *
354918 CTACTAGAAATGTTGATCC
65 CCACTGGAAATGTTGATCC
354937 ACCTCCTTCT
Statistics
Matches: 304, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
137 2 0.01
138 113 0.37
139 73 0.24
140 110 0.36
141 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (137 bp):
AAAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGAATGAGTTCTTCTCATTATGAACTCTC
CACTGGAAATGTTGATCCCTCGAGTAAGGGTCGCTGATTCAACTCCATATACGATGAATCGAGCT
AAGGTTG
Found at i:361381 original size:37 final size:37
Alignment explanation
Indices: 361331--361404 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
361321 AAAGTGCTCA
361331 AATCATGGTTTTCACGATTGGACTCAAGTAGTTATGT
1 AATCATGGTTTTCACGATTGGACTCAAGTAGTTATGT
361368 AATCATGGTTTTCACGATTGGACTCAAGTAGTTATGT
1 AATCATGGTTTTCACGATTGGACTCAAGTAGTTATGT
361405 TTTATAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (37 bp):
AATCATGGTTTTCACGATTGGACTCAAGTAGTTATGT
Found at i:368752 original size:225 final size:229
Alignment explanation
Indices: 368361--368814 Score: 871
Period size: 225 Copynumber: 2.0 Consensus size: 229
368351 ACTTAGGAAA
368361 TTTAAGAATTTTTTATGATGGAACTCTGGTTAGTCTTGGCATGCTTAAATGATAAATCAATGAGA
1 TTTAAGAATTTTTTATGATGGAACTCTGGTTAGTCTTGGCATGCTTAAATGATAAATCAATGAGA
368426 ACTCCCTTATATATGAAATTGTGAATAAATGCTTCTGCATAGCTATAGAGGGACACTCCTCTTTG
66 ACTCCCTTATATATGAAATTGTGAATAAATGCTTCTGCATAGCTATAGAGGGACACTCCTCTTTG
368491 TTGTGGCATTTTCTAGAACTTTCTTAAATAAATGGCAGCTAAATGC-TATGAGTGAATGAAAGTA
131 TTGTGGCATTTTCTAGAACTTTCTTAAATAAATGGCAGCTAAATGCATATGAGTGAATGAAAGTA
*
368555 TTCATGAGATGAAT-TA-CT-ACTAGCTTGGGGT
196 GTCATGAGATGAATCTACCTAACTAGCTTGGGGT
368586 TTTAAGAATTTTTTATGATGGAACTCTGGTTAGTCTTGGCATGCTTAAATGATAAATCAATGAGA
1 TTTAAGAATTTTTTATGATGGAACTCTGGTTAGTCTTGGCATGCTTAAATGATAAATCAATGAGA
368651 ACTCCCTTATATATGAAATTGTGAATAAATGCTTCTGCATAGCTATAGAGGGACACTCCTCTTTG
66 ACTCCCTTATATATGAAATTGTGAATAAATGCTTCTGCATAGCTATAGAGGGACACTCCTCTTTG
368716 TTGTGGCATTTTCTAGAACTTTCTTAAATAAATGGCAGCTAAATGCATATGAGTGAATGAAAGTA
131 TTGTGGCATTTTCTAGAACTTTCTTAAATAAATGGCAGCTAAATGCATATGAGTGAATGAAAGTA
368781 GTCATGAGATGAATCTACCTAACTAGCTTGGGGT
196 GTCATGAGATGAATCTACCTAACTAGCTTGGGGT
368815 AGAATGTATG
Statistics
Matches: 224, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
225 176 0.79
226 31 0.14
227 2 0.01
228 2 0.01
229 13 0.06
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (229 bp):
TTTAAGAATTTTTTATGATGGAACTCTGGTTAGTCTTGGCATGCTTAAATGATAAATCAATGAGA
ACTCCCTTATATATGAAATTGTGAATAAATGCTTCTGCATAGCTATAGAGGGACACTCCTCTTTG
TTGTGGCATTTTCTAGAACTTTCTTAAATAAATGGCAGCTAAATGCATATGAGTGAATGAAAGTA
GTCATGAGATGAATCTACCTAACTAGCTTGGGGT
Found at i:368893 original size:3 final size:3
Alignment explanation
Indices: 368885--368971 Score: 167
Period size: 3 Copynumber: 29.3 Consensus size: 3
368875 TCATAGTAGC
368885 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
368932 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
368972 AATTATTAAG
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:374094 original size:12 final size:12
Alignment explanation
Indices: 374050--374100 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
374040 CAAAGCATTT
374050 TTATTTTACTTG
1 TTATTTTACTTG
*
374062 TTCATTTT-TTTG
1 TT-ATTTTACTTG
374074 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
374088 TTATTTTCCTTG
1 TTATTTTACTTG
374100 T
1 T
374101 CTTTTCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.67
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:383248 original size:17 final size:18
Alignment explanation
Indices: 383214--383253 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
383204 AAATGGCAGT
* *
383214 CATTCTTTATATTTTTCA
1 CATTCTTTACATTATTCA
383232 CATT-TTTACATTATTCA
1 CATTCTTTACATTATTCA
383249 CATTC
1 CATTC
383254 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (18 bp):
CATTCTTTACATTATTCA
Found at i:386767 original size:22 final size:22
Alignment explanation
Indices: 386740--386781 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
386730 TATGTTAGAA
386740 GAAAAAGAAAAAAAGAAAAAGG
1 GAAAAAGAAAAAAAGAAAAAGG
* * *
386762 GAAAAATATAAAATGAAAAA
1 GAAAAAGAAAAAAAGAAAAA
386782 AGGGGTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (22 bp):
GAAAAAGAAAAAAAGAAAAAGG
Found at i:387470 original size:17 final size:17
Alignment explanation
Indices: 387448--387486 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
387438 ACCAAAGAGA
387448 AAAGATGAAAG-CCCAAC
1 AAAGAT-AAAGACCCAAC
*
387465 AAAGATAAAGACTCAAC
1 AAAGATAAAGACCCAAC
387482 AAAGA
1 AAAGA
387487 GAATGAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.59, C:0.18, G:0.15, T:0.08
Consensus pattern (17 bp):
AAAGATAAAGACCCAAC
Found at i:388260 original size:139 final size:139
Alignment explanation
Indices: 387809--388316 Score: 767
Period size: 139 Copynumber: 3.7 Consensus size: 139
387799 AAAATGAGGT
*
387809 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGCTC
1 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
* *
387874 ATAATAAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGTTGAATAAGCGACCCC
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCGACCCC
387939 TCACTCGAG
131 TCACTCGAG
* ** * *
387948 GAATCAACATTTATAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAGGAAGTTC
1 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
* * * *
388013 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTTAT--CACA---AGTTGAATCAGCAACCCC
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCGACCCC
*
388073 TCAGTCGAG
131 TCACTCGAG
* * * *
388082 GGATCAATATATCCAGTAGAGAGTTCATAATGAGAAGAACTCATCTGACGAGGGAGAAGAAGTTC
1 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
* * *
388147 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACC
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCGACCCC
388212 TCACTCGAG
131 TCACTCGAG
* *
388221 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTC
1 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
*
388286 ATAATAAGAAGAACTTGTTCAA-TTTAGCTCG
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCG
388317 TGTCTTCACA
Statistics
Matches: 330, Mismatches: 34, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
134 117 0.35
136 3 0.01
137 3 0.01
138 8 0.02
139 199 0.60
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (139 bp):
GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTC
ATAATAAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGCGACCCC
TCACTCGAG
Found at i:388298 original size:273 final size:272
Alignment explanation
Indices: 387809--388316 Score: 854
Period size: 273 Copynumber: 1.9 Consensus size: 272
387799 AAAATGAGGT
* *
387809 GGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGCTC
1 GGATCAACATATCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGCTC
*
387874 ATAATAAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGTTGAATAAGCGACCCC
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGTTGAATAAGCGACACC
*
387939 TCACTCGAGGAATCAACATTTATAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAG
131 TCACTCGAGGAATCAACATTTACAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAG
* *
388004 AGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTTATCACAAGTTGAATCAGCAA
196 AAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTAGCTCGATTTATCACAAGTTGAATCAGCAA
388069 CCCCTCAGTCGAG
260 CCCCTCAGTCGAG
* * *
388082 GGATCAATATATCCAGTAGAGAGTTCATAATGAGAAGAACTCATCTGACGAGGGAGAAGAAGTTC
1 GGATCAACATATCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGCTC
* * * *
388147 ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACC
66 ATAATAAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGTTGAATAAGCGACACC
* * *
388212 TCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAG
131 TCACTCGAGGAATCAACATTTACAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAG
*
388277 AAGAAGTTCATAATAAGAAGAACTTGTTCAATTTAGCTCG
196 AAGAAGTTCATAATAAGAAGAACTTGTTCAACTTAGCTCG
388317 TGTCTTCACA
Statistics
Matches: 218, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
272 8 0.04
273 210 0.96
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (272 bp):
GGATCAACATATCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGCTC
ATAATAAGAAGAACTTGTTCAACCTTAGCTCAATTCATCGCATATGGAGTTGAATAAGCGACACC
TCACTCGAGGAATCAACATTTACAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAG
AAGAAGTTCATAATAAGAAGAACTTGTTCAACTTAGCTCGATTTATCACAAGTTGAATCAGCAAC
CCCTCAGTCGAG
Found at i:388553 original size:43 final size:43
Alignment explanation
Indices: 388452--388558 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
388442 TACTCGGTCT
* *
388452 TTCACATAATGAGTTGGATCAGTAACAACCTTTCATTTGATTC
1 TTCACAGAATGAGTTGGATCAGTAACAACCTTTCACTTGATTC
** * * *
388495 TTCACAGAAAAAGTTGGATCAGTGAA-AATCTTTCGCTTGGTTC
1 TTCACAGAATGAGTTGGATCAGT-AACAACCTTTCACTTGATTC
*
388538 TTCACAGAATGAGTTGAATCA
1 TTCACAGAATGAGTTGGATCA
388559 ACGTCAATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 51 0.96
44 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (43 bp):
TTCACAGAATGAGTTGGATCAGTAACAACCTTTCACTTGATTC
Found at i:389799 original size:13 final size:13
Alignment explanation
Indices: 389781--389813 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
389771 CATTTTTTAT
389781 ATTTTAGCTACTA
1 ATTTTAGCTACTA
389794 ATTTTAGCTACTA
1 ATTTTAGCTACTA
389807 ATTTTAG
1 ATTTTAG
389814 GGTTAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (13 bp):
ATTTTAGCTACTA
Found at i:392299 original size:2 final size:2
Alignment explanation
Indices: 392294--392320 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
392284 TTAAATCAAT
392294 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
392321 GTATGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:392385 original size:23 final size:24
Alignment explanation
Indices: 392353--392407 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
392343 ATGATATTGC
*
392353 ATATATATAATGTACA-CTATACTT
1 ATATATATAA-GTACATATATACTT
*
392377 ATAT-TATAAGTATATATATACTT
1 ATATATATAAGTACATATATACTT
*
392400 ATACATAT
1 ATATATAT
392408 GTATACTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 7 0.27
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATATATAAGTACATATATACTT
Found at i:392412 original size:16 final size:16
Alignment explanation
Indices: 392388--392428 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
392378 TATTATAAGT
392388 ATATATATACTTATAC
1 ATATATATACTTATAC
*
392404 ATATGTATACTTATAC
1 ATATATATACTTATAC
*
392420 CTATATATA
1 ATATATATA
392429 TATATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATATATACTTATAC
Found at i:392502 original size:2 final size:2
Alignment explanation
Indices: 392497--392591 Score: 156
Period size: 2 Copynumber: 47.0 Consensus size: 2
392487 TATATGTGTG
392497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
392539 TA TA CT- TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
392581 TA TA GTA TA TA
1 TA TA -TA TA TA
392592 CATAAGTATA
Statistics
Matches: 89, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
1 1 0.01
2 85 0.96
3 3 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:392657 original size:45 final size:45
Alignment explanation
Indices: 392511--392659 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 45
392501 TATATATATA
* * * *
392511 TATATATATATATATATATATATATATATATACT-TTTATAT-A-
1 TATATGTATATATATATATATATATATATATAGTATATACATAAG
*
392553 TATATATATATATATATATATATATATATATAGTATATACATAAG
1 TATATGTATATATATATATATATATATATATAGTATATACATAAG
* *
392598 TATATGTA-AGTATATATGTATGATGTATATA-AGTATATACATAAG
1 TATATGTATA-TATATATATAT-ATATATATATAGTATATACATAAG
* *
392643 TGTGTGTATATATATAT
1 TATATGTATATATATAT
392660 CATTAAACAT
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
42 33 0.35
43 5 0.05
44 2 0.02
45 44 0.47
46 9 0.10
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (45 bp):
TATATGTATATATATATATATATATATATATAGTATATACATAAG
Found at i:392989 original size:39 final size:39
Alignment explanation
Indices: 392944--393025 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
392934 CAACATTTGT
*
392944 CAAAAAAATAAAATTTCCCTCTTCCCTATTCTAAATTCC
1 CAAAAAAATAAAATTTCCATCTTCCCTATTCTAAATTCC
* * *
392983 CAAAAAAATAAAATTTTCATCTTCCCTCTTCTAAATTCT
1 CAAAAAAATAAAATTTCCATCTTCCCTATTCTAAATTCC
393022 CAAA
1 CAAA
393026 CTATCTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (39 bp):
CAAAAAAATAAAATTTCCATCTTCCCTATTCTAAATTCC
Found at i:393423 original size:14 final size:13
Alignment explanation
Indices: 393397--393435 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
393387 TTAATTTTTT
393397 GATTATAATTAA-
1 GATTATAATTAAG
393409 GATTTATAATATAAG
1 GA-TTATAAT-TAAG
393424 GATTATAATTAA
1 GATTATAATTAA
393436 TATAGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 10 0.42
15 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (13 bp):
GATTATAATTAAG
Found at i:393848 original size:54 final size:54
Alignment explanation
Indices: 393779--393895 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 54
393769 AATCTCCGGT
* * * * *
393779 TCAGATTCAGGTTCATATCAGTTCGGGTGTAGGTCGGGTTCGGTTATCACATTA
1 TCAGGTTCAGGTTCATATCAATTCGGGTGCAGATCGGGTTCGATTATCACATTA
* * *
393833 TTAGGTTCAGGTTCATATCAATTCGGGTGCAGATCGGTTTCGATTATCGCATTA
1 TCAGGTTCAGGTTCATATCAATTCGGGTGCAGATCGGGTTCGATTATCACATTA
393887 TCAGGTTCA
1 TCAGGTTCA
393896 ATTCGGGTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (54 bp):
TCAGGTTCAGGTTCATATCAATTCGGGTGCAGATCGGGTTCGATTATCACATTA
Found at i:399590 original size:22 final size:22
Alignment explanation
Indices: 399562--399608 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
399552 TAAACTTTTT
399562 TTTTCAGGCTACTAGCTTCATC
1 TTTTCAGGCTACTAGCTTCATC
*
399584 TTTTCAGGCTGCTAGCTTCATC
1 TTTTCAGGCTACTAGCTTCATC
399606 TTT
1 TTT
399609 CTAGTACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.45
Consensus pattern (22 bp):
TTTTCAGGCTACTAGCTTCATC
Found at i:401355 original size:18 final size:18
Alignment explanation
Indices: 401305--401347 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
401295 AAAGATACTA
* *
401305 AAAT-AATAAAAGTGATT
1 AAATAAATAAAAATAATT
401322 AAATAAATAAAAATAATT
1 AAATAAATAAAAATAATT
401340 AAAGTAAA
1 AAA-TAAA
401348 AATAATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
AAATAAATAAAAATAATT
Found at i:407284 original size:18 final size:18
Alignment explanation
Indices: 407221--407276 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
407211 GGAATTTTGG
407221 TAAAAATATATTAAA-ATAA
1 TAAAAATA-ATTAAATA-AA
***
407240 TAAAAGCGATTAAATAAA
1 TAAAAATAATTAAATAAA
407258 TAAAAATAATTAAAGTAAA
1 TAAAAATAATTAAA-TAAA
407277 AATAATAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
TAAAAATAATTAAATAAA
Found at i:407903 original size:22 final size:22
Alignment explanation
Indices: 407877--407923 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
407867 AGCTTGAAAA
*
407877 TAAAAGAAAAAAGGGAAAACTT
1 TAAAAGAAAAAAGAGAAAACTT
*
407899 TAAAAGTAAAAAGAGAAAACTT
1 TAAAAGAAAAAAGAGAAAACTT
407921 TAA
1 TAA
407924 TAAAACTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.15, T:0.17
Consensus pattern (22 bp):
TAAAAGAAAAAAGAGAAAACTT
Found at i:410738 original size:2 final size:2
Alignment explanation
Indices: 410731--410932 Score: 98
Period size: 2 Copynumber: 105.5 Consensus size: 2
410721 ATTAATAATA
* * *
410731 AT AT AT AT A- AT AA AT AG AA AT A- AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
410770 A- AT AA ACT CT A- AT AT AT AA AT AT GAC AT A- AT AT ACT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT -AT AT AT AT AT A-T AT AT
*
410810 AT AT AT AT AT AT AT AT AT A- AT A- AT GGT A- AT AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A-T AT AT AT
*
410851 AT -T AT AT AT -T A- AT AT A- AT A- AC A- AT AT AT CAT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
410887 AT AT ACT AT AT AT AT A- AT A- AT AT ACT AT GCT AT AT AT AT GT
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT
410928 AT AT A
1 AT AT A
410933 AAAAAAAGTC
Statistics
Matches: 154, Mismatches: 19, Indels: 54
0.68 0.08 0.24
Matches are distributed among these distances:
1 18 0.12
2 123 0.80
3 13 0.08
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (2 bp):
AT
Found at i:410744 original size:28 final size:28
Alignment explanation
Indices: 410708--410792 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 28
410698 ACCTGAAATA
410708 ATAAGTAAATAAAATTAATAATAATATAT
1 ATAA-TAAATAAAATTAATAATAATATAT
410737 ATAATAAATAGAAA-TAAT-ATATATATAT
1 ATAATAAATA-AAATTAATAATA-ATATAT
*
410765 ATAAT-AATAAACTCTAATATATAA-ATAT
1 ATAATAAATAAAAT-TAATA-ATAATATAT
410793 GACATAATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
26 2 0.04
27 7 0.14
28 29 0.59
29 8 0.16
30 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAATAAATAAAATTAATAATAATATAT
Found at i:410833 original size:33 final size:34
Alignment explanation
Indices: 410781--410932 Score: 132
Period size: 35 Copynumber: 4.3 Consensus size: 34
410771 ATAAACTCTA
*
410781 ATATATAAATATGACATAATATACTAT-ATATATAT
1 ATATATATATAT-A-ATAATATACTATCATATATAT
* *
410816 ATATATATATATAATAATGGTAATAT-ACTATATAT
1 ATATATATATATAATAAT-ATACTATCA-TATATAT
*
410851 ATTATATATTAATATAATAACAATA-TATCATATAATAT
1 A-TATATA-T-ATATAATAA-TATACTATCATAT-ATAT
410889 ATACTATATATATAATAATATACTATGC-TATATAT
1 ATA-TATATATATAATAATATACTAT-CATATATAT
*
410924 ATGTATATA
1 ATATATATA
410933 AAAAAAAGTC
Statistics
Matches: 99, Mismatches: 7, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
33 5 0.05
34 13 0.13
35 28 0.28
36 21 0.21
37 11 0.11
38 21 0.21
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (34 bp):
ATATATATATATAATAATATACTATCATATATAT
Found at i:410901 original size:44 final size:44
Alignment explanation
Indices: 410799--410910 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 44
410789 ATATGACATA
* * *
410799 ATATACTATATATATATATATATATATATAATAATGGTAATATACT
1 ATATACTATATATATAT-TA-ATATATATAACAATGATAATATAAT
410845 ATATA-TAT-TATATATTAATATA-ATAACAAT-ATATCATATAAT
1 ATATACTATATATATATTAATATATATAACAATGATA--ATATAAT
*
410887 ATATACTATATATATAATAATATA
1 ATATACTATATATATATTAATATA
410911 CTATGCTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
40 2 0.03
41 7 0.12
42 16 0.28
43 5 0.09
44 20 0.34
45 3 0.05
46 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (44 bp):
ATATACTATATATATATTAATATATATAACAATGATAATATAAT
Found at i:410922 original size:38 final size:35
Alignment explanation
Indices: 410799--410932 Score: 116
Period size: 36 Copynumber: 3.7 Consensus size: 35
410789 ATATGACATA
410799 ATATA-CTATATATATATATATATATATATAATAAT
1 ATATATCTATATA-ATATATATATATATATAATAAT
* *
410834 GGTAATATACTATAT-ATAT-TATATATTAATATAATAACA
1 -AT-ATAT-CTATATAATATATATATA-T-ATATAATAA-T
410873 ATATATC-ATATAATATATACTATATATATAATAAT
1 ATATATCTATATAATATATA-TATATATATAATAAT
*
410908 ATACTATGCTATAT-ATATGTATATA
1 ATA-TAT-CTATATAATATATATATA
410933 AAAAAAAGTC
Statistics
Matches: 81, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
35 7 0.09
36 28 0.35
37 22 0.27
38 18 0.22
39 6 0.07
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (35 bp):
ATATATCTATATAATATATATATATATATAATAAT
Found at i:417304 original size:29 final size:30
Alignment explanation
Indices: 417240--417297 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
417230 AATTCATTGG
*
417240 TATAATTGAAACGAAAATCAAAGTTCAGTAC
1 TATAATTGAAAC-AAAATAAAAGTTCAGTAC
*
417271 TATAATTGAAA-AAATTAAAAGTTCAGT
1 TATAATTGAAACAAAATAAAAGTTCAGT
417298 GATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.56
31 11 0.44
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (30 bp):
TATAATTGAAACAAAATAAAAGTTCAGTAC
Found at i:420269 original size:36 final size:36
Alignment explanation
Indices: 420222--420299 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
420212 TTGAACCTAA
420222 TTTAT-AGAAACTTGTTTAAAAATTTCTCTTAGGAG
1 TTTATCAGAAACTTGTTTAAAAATTTCTCTTAGGAG
420257 TTTATCAGAAACTTGTTTAAAAATTTCTCTTAGGAG
1 TTTATCAGAAACTTGTTTAAAAATTTCTCTTAGGAG
420293 TTTATCA
1 TTTATCA
420300 AAAATCGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (36 bp):
TTTATCAGAAACTTGTTTAAAAATTTCTCTTAGGAG
Found at i:421212 original size:50 final size:50
Alignment explanation
Indices: 421122--421220 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
421112 GCACATGAAG
* * *
421122 ACTTTGGCGCCATGATGAACCAACACATCATCATTCGGCCAAGTAAGATA
1 ACTTTGGCGCCAAGATGAACCAACACATCACCATTCGGCCAAGGAAGATA
* ** *
421172 ACTTTGGTGCCAAGATGAA-CAAGCATGTCACCATTTGGCCAAGGAAGAT
1 ACTTTGGCGCCAAGATGAACCAA-CACATCACCATTCGGCCAAGGAAGAT
421221 GTATCTTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (50 bp):
ACTTTGGCGCCAAGATGAACCAACACATCACCATTCGGCCAAGGAAGATA
Found at i:426178 original size:46 final size:46
Alignment explanation
Indices: 426126--426493 Score: 591
Period size: 46 Copynumber: 8.1 Consensus size: 46
426116 TTATTTGTTA
*
426126 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
426172 ATTTCATTTACGGAATACTTTCATGCCTTAATGCATCTTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
426218 ATTTCA-TTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
426263 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
426309 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* **
426355 ATTTCATTTATGGCATCCTTTCATTCCTTAATATATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
426401 ATTTGATTT-TGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
426446 ATTTGATTT-TGGCATCCTTTCATGCCTTAATGCAT-CATTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
426490 ATTT
1 ATTT
426494 AAGTTAAGGA
Statistics
Matches: 301, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
44 12 0.04
45 107 0.36
46 182 0.60
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:426297 original size:137 final size:137
Alignment explanation
Indices: 426126--426493 Score: 589
Period size: 137 Copynumber: 2.7 Consensus size: 137
426116 TTATTTGTTA
* * * *
426126 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTACGGAATACT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
* *
426191 TTCATGCCTTAATGCATCTTTTCATGCATTTCA-TTATGGCATCTTTTCATGCCTTAATGCATCC
66 TTCATGCCTTAATGCATC-TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATACATCC
426255 TTTCATAC
130 TTTCATAC
426263 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
* *
426328 TTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATTCCTTAATATATCC
66 TTCATGCCTTAATGCAT-CTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATACATCC
*
426393 TTTCATGC
130 TTTCATAC
* *
426401 ATTTGATTT-TGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTGATTT-TGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
*
426464 TTCATGCCTTAATGCATCATTCATGCATTT
66 TTCATGCCTTAATGCATCTTTCATGCATTT
426494 AAGTTAAGGA
Statistics
Matches: 217, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
135 12 0.06
136 26 0.12
137 136 0.63
138 43 0.20
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (137 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
TTCATGCCTTAATGCATCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATACATCCT
TTCATAC
Found at i:426434 original size:183 final size:181
Alignment explanation
Indices: 426126--426493 Score: 592
Period size: 183 Copynumber: 2.0 Consensus size: 181
426116 TTATTTGTTA
*
426126 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTACGGAATACT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTACGGAATACT
* * *
426191 TTCATGCCTTAATGCATCTTTTCATGCATTTCATTATGGCATCTTTTCATGCCTTAATGCATCCT
66 TTCATGCCTTAATACATCCTTTCATGCATTTCATTATGGCATCCTTTCATGCCTTAATGCATCCT
*
426256 TTCATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
131 TTCATACATTTCATTT-TGGCATCCTTTCATGCCTTAATGCAT-CATTCATGC
* * *
426309 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTACGGAATACT
* * * *
426374 TTCATTCCTTAATATATCCTTTCATGCATTTGATTTTGGCATCCTTTCATGCCTTAATGCATCCT
66 TTCATGCCTTAATACATCCTTTCATGCATTTCATTATGGCATCCTTTCATGCCTTAATGCATCCT
* *
426439 TTCATGCATTTGATTTTGGCATCCTTTCATGCCTTAATGCATCATTCATGC
131 TTCATACATTTCATTTTGGCATCCTTTCATGCCTTAATGCATCATTCATGC
426490 ATTT
1 ATTT
426494 AAGTTAAGGA
Statistics
Matches: 171, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
181 12 0.07
182 26 0.15
183 133 0.78
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (181 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTACGGAATACT
TTCATGCCTTAATACATCCTTTCATGCATTTCATTATGGCATCCTTTCATGCCTTAATGCATCCT
TTCATACATTTCATTTTGGCATCCTTTCATGCCTTAATGCATCATTCATGC
Found at i:432413 original size:14 final size:14
Alignment explanation
Indices: 432394--432429 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
432384 TTTCTTCTTG
432394 CATCTCTTATTCCC
1 CATCTCTTATTCCC
432408 CATCTCTTATTCCC
1 CATCTCTTATTCCC
*
432422 TATCTCTT
1 CATCTCTT
432430 CGTGAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.39, G:0.00, T:0.47
Consensus pattern (14 bp):
CATCTCTTATTCCC
Found at i:433253 original size:20 final size:20
Alignment explanation
Indices: 433228--433394 Score: 93
Period size: 20 Copynumber: 7.5 Consensus size: 20
433218 TTTATGGCAC
*
433228 CCTTTCATGCCTTAATGCAA
1 CCTTTCATGCCTTAATGCAT
*
433248 CCTTTCATGCATTTCATTTATGGCAT
1 CCTTTCATGC----C-TTAAT-GCAT
*
433274 CCCTTCATGCCTTAATGCAT
1 CCTTTCATGCCTTAATGCAT
*
433294 CCTTTCATGCATTTCATTTATGGCAT
1 CCTTTCATGC----C-TTAAT-GCAT
*
433320 CCTTTCATGCCTTAATGTAT
1 CCTTTCATGCCTTAATGCAT
*
433340 CCTTTCATGCATTTCATTTATGACAT
1 CCTTTCATGC----C-TTAATG-CAT
*
433366 -CTTTCGTGCCTTAATGCAT
1 CCTTTCATGCCTTAATGCAT
*
433385 CATTTCATGC
1 CCTTTCATGC
433395 ATTTCATTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
19 3 0.03
20 48 0.42
21 9 0.08
22 2 0.02
24 3 0.03
25 21 0.18
26 28 0.25
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.43
Consensus pattern (20 bp):
CCTTTCATGCCTTAATGCAT
Found at i:433264 original size:46 final size:46
Alignment explanation
Indices: 433212--433404 Score: 300
Period size: 46 Copynumber: 4.2 Consensus size: 46
433202 TTATTTGTTA
*
433212 ATTTCATTTATGGCACCCTTTCATGCCTTAATGCAACCTTTCATGC
1 ATTTCATTTATGGCACCCTTTCATGCCTTAATGCATCCTTTCATGC
433258 ATTTCATTTATGGCATCCC-TTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCA-CCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
433304 ATTTCATTTATGGCATCCTTTCATGCCTTAATGTATCCTTTCATGC
1 ATTTCATTTATGGCACCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * *
433350 ATTTCATTTATGACA-TCTTTCGTGCCTTAATGCATCATTTCATGC
1 ATTTCATTTATGGCACCCTTTCATGCCTTAATGCATCCTTTCATGC
433395 ATTTCATTTA
1 ATTTCATTTA
433405 AGGATTCGTT
Statistics
Matches: 137, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
45 38 0.28
46 96 0.70
47 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (46 bp):
ATTTCATTTATGGCACCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:433282 original size:26 final size:26
Alignment explanation
Indices: 433212--433370 Score: 113
Period size: 20 Copynumber: 6.8 Consensus size: 26
433202 TTATTTGTTA
*
433212 ATTTCATTTATGGCACCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
* *
433238 ----C-TTAAT-GCAACCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
433258 ATTTCATTTATGGCATCCCTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
433284 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
433304 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
* *
433330 ----C-TTAAT-GTATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
433350 ATTTCATTTATGACAT-CTTTC
1 ATTTCATTTATGGCATCCTTTC
433371 GTGCCTTAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 37
0.67 0.09 0.24
Matches are distributed among these distances:
20 39 0.38
21 12 0.12
22 3 0.03
24 3 0.03
25 17 0.17
26 28 0.27
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTCATTTATGGCATCCTTTCATGC
Found at i:436677 original size:13 final size:13
Alignment explanation
Indices: 436659--436687 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
436649 ACCACCGTTA
436659 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
436672 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
436685 CGG
1 CGG
436688 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:437254 original size:18 final size:19
Alignment explanation
Indices: 437217--437251 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
437207 CAATTTAGTC
437217 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
437236 ATTTA-TTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
437252 TAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:438016 original size:17 final size:17
Alignment explanation
Indices: 437994--438049 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
437984 TTCCTTTCAA
437994 ATTTTTTATTACTTATT
1 ATTTTTTATTACTTATT
438011 A-TTTTT-TTA--TA-T
1 ATTTTTTATTACTTATT
*
438023 ATATTATTATTACTTATT
1 AT-TTTTTATTACTTATT
438041 ATTTTTTAT
1 ATTTTTTAT
438050 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
14 4 0.13
15 6 0.19
16 5 0.16
17 9 0.29
18 3 0.10
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTATTACTTATT
Found at i:438049 original size:20 final size:20
Alignment explanation
Indices: 437995--438076 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 20
437985 TCCTTTCAAA
*
437995 TTTTTTATTACTTATTATTTT
1 TTTTTTATTA-TTATTATTAT
438016 TTTATATATATTATTATTACTTAT
1 TTT-T-T-TATTATTATTA-TTAT
438040 TATTTTT-TATATATATATATTAT
1 T-TTTTTAT-TAT-TAT-TATTAT
438063 TTTTTTATT-TTATT
1 TTTTTTATTATTATT
438077 TATTTATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 20
0.71 0.01 0.28
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 5 0.10
22 11 0.22
23 17 0.33
24 12 0.24
25 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATTATTATTATTAT
Found at i:438055 original size:33 final size:30
Alignment explanation
Indices: 437999--438086 Score: 114
Period size: 30 Copynumber: 3.0 Consensus size: 30
437989 TTCAAATTTT
437999 TTATTACTTATTATTTTTTTATATATATTA
1 TTATTACTTATTATTTTTTTATATATATTA
438029 TTATTACTTATTA-TTTTTTATATATATATA
1 TTATTACTTATTATTTTTTTATATATAT-TA
*
438059 TTATT--TTTTTATTTTATTTAT-T-TATTA
1 TTATTACTTATTATTTT-TTTATATATATTA
438086 T
1 T
438087 ATTCAAGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
27 3 0.06
28 8 0.15
29 18 0.33
30 25 0.46
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (30 bp):
TTATTACTTATTATTTTTTTATATATATTA
Found at i:438075 original size:13 final size:13
Alignment explanation
Indices: 438009--438089 Score: 56
Period size: 13 Copynumber: 6.1 Consensus size: 13
437999 TTATTACTTA
438009 TTATTT-TTTTAT
1 TTATTTATTTTAT
* *
438021 ATATATTATTATTAC
1 TTAT-TTATT-TTAT
*
438036 TTATTATTTTTTAT
1 TTATT-TATTTTAT
* * *
438050 ATATATATATTAT
1 TTATTTATTTTAT
*
438063 TTTTTTATTTTAT
1 TTATTTATTTTAT
*
438076 TTATTTATTATAT
1 TTATTTATTTTAT
438089 T
1 T
438090 CAAGATTAAT
Statistics
Matches: 50, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
12 3 0.06
13 29 0.58
14 9 0.18
15 9 0.18
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:438080 original size:20 final size:19
Alignment explanation
Indices: 437998--438080 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
437988 TTTCAAATTT
* *
437998 TTTATTACTTATTATTTT-
1 TTTATTATTTTTTATTTTA
* *
438016 TTTA-TATATATTATTATTA
1 TTTATTATTTTTTATT-TTA
* *
438035 CTTATTATTTTTTATATATA
1 TTTATTATTTTTTAT-TTTA
*
438055 TATATTATTTTTTTATTTTA
1 TTTATTA-TTTTTTATTTTA
438075 TTTATT
1 TTTATT
438081 TATTATATTC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
17 9 0.18
18 6 0.12
19 3 0.06
20 23 0.46
21 9 0.18
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTATTTTTTATTTTA
Found at i:438088 original size:33 final size:33
Alignment explanation
Indices: 437995--438088 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 33
437985 TCCTTTCAAA
*
437995 TTTTTTATTACTTA-TTATTT-TTTTATATATAT
1 TTTTTTATTA-TTATTTATTTATTATATATATAT
*
438027 TATTATTACTTATTATTT-TTTATATATATATATTAT
1 T-TTTTTA-TTATTATTTATTTAT-TATATATA-TAT
438063 TTTTTTATT-TTATTTATTTATTATAT
1 TTTTTTATTATTATTTATTTATTATAT
438089 TCAAGATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
32 1 0.02
33 22 0.42
34 13 0.25
35 12 0.23
36 4 0.08
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (33 bp):
TTTTTTATTATTATTTATTTATTATATATATAT
Found at i:445144 original size:148 final size:152
Alignment explanation
Indices: 444872--445315 Score: 824
Period size: 148 Copynumber: 2.9 Consensus size: 152
444862 AGAAGACTCA
*
444872 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
444937 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
445002 TTATCTGATCTGGTTGAAGAAC
131 TTATCTGATCTGGTTGAAGAAC
445024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAACATAGCA-CTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
445086 GAAGTGTT-TTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
445150 TTATCTGATCTGGTTGAAGAAC
131 TTATCTGATCTGGTTGAAGAAC
*
445172 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
445237 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAACATAGCATCTTCTGGAAGTGTTCTTTG
445302 AGTTATCTGATCTG
129 AGTTATCTGATCTG
445316 ATTGGACAGA
Statistics
Matches: 285, Mismatches: 1, Indels: 10
0.96 0.00 0.03
Matches are distributed among these distances:
148 121 0.42
149 16 0.06
150 22 0.08
151 15 0.05
152 64 0.22
153 2 0.01
154 45 0.16
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (152 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTGAAGAAC
Done.