Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000914.1 Hibiscus syriacus cultivar Beakdansim tig00001825_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: 1342319
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 2 of 6
Found at i:116900 original size:15 final size:15
Alignment explanation
Indices: 116880--116909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116870 GTGAATGATA
116880 TGATAAAAAGCTATG
1 TGATAAAAAGCTATG
*
116895 TGATAATAAGCTATG
1 TGATAAAAAGCTATG
116910 AGTATATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
TGATAAAAAGCTATG
Found at i:117416 original size:27 final size:28
Alignment explanation
Indices: 117386--117447 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
117376 ATAACTAAGA
** *
117386 GATATGAATGGTAATAAGGCTAAT-AAT
1 GATATGAATAATAATAAGGATAATAAAT
*
117413 GATAAGAATAATAATAAGGATAATGAAAT
1 GATATGAATAATAATAAGGATAAT-AAAT
117442 GATATG
1 GATATG
117448 TATATGTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 20 0.71
29 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.27
Consensus pattern (28 bp):
GATATGAATAATAATAAGGATAATAAAT
Found at i:118250 original size:41 final size:41
Alignment explanation
Indices: 118204--118459 Score: 217
Period size: 41 Copynumber: 6.2 Consensus size: 41
118194 AAACACAAAC
* * * *
118204 GCCACTAAAGTACGAGTCTATAGGGGGGTTTGTATAAAAAA
1 GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
* * * * * *
118245 GCCACTGAAGTATGAGTCTATAGCAGTGTTTGTATAAAAAT
1 GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
* * *** *
118286 GCCACTAAAGCACGCGTCTTTATCGACATTTGTATAAAAAC
1 GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
* * * *
118327 GCCACTAAAACACGAGTATTTAGCAGTGTTTGTATAAAAAT
1 GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
* * *
118368 GCCTCTAAAGCACGAGTCTTTAGCGGTTTTTTTAATAAAAAAA
1 GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGT-AT-AAAAAA
* * * * *
118411 TGCCACTAAAGTAC-AGTCTTTAGCGGCGTTTATTTAAAAAT
1 -GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
*
118452 GTCACTAA
1 GCCACTAA
118460 CATACGAGTG
Statistics
Matches: 171, Mismatches: 41, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
40 7 0.04
41 129 0.75
42 3 0.02
43 21 0.12
44 11 0.06
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (41 bp):
GCCACTAAAGCACGAGTCTTTAGCGGTGTTTGTATAAAAAA
Found at i:118482 original size:41 final size:41
Alignment explanation
Indices: 118406--118492 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
118396 TTTTTAATAA
*
118406 AAAAATGCCACTAAAGTACAGTCTTTAGCGGCGTTTATT-T
1 AAAAATGCCACTAAAGTACAGTCTTTAGCGACGTTTATTCT
* * * *
118446 AAAAATGTCACTAACA-TACGAGTGTTTATCGACGTTTGTTCT
1 AAAAATGCCACTAA-AGTAC-AGTCTTTAGCGACGTTTATTCT
118488 AAAAA
1 AAAAA
118493 CACTGCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 16 0.41
41 17 0.44
42 6 0.15
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (41 bp):
AAAAATGCCACTAAAGTACAGTCTTTAGCGACGTTTATTCT
Found at i:122336 original size:30 final size:26
Alignment explanation
Indices: 122282--122333 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
122272 CATATGAAGA
122282 CTGTTTAACTATGTATTTATTTTATT
1 CTGTTTAACTATGTATTTATTTTATT
122308 CTGTTTAACTATGTATTTATTTTATT
1 CTGTTTAACTATGTATTTATTTTATT
122334 TATACATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (26 bp):
CTGTTTAACTATGTATTTATTTTATT
Found at i:137128 original size:14 final size:15
Alignment explanation
Indices: 137074--137140 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
137064 TTCCAGAAAA
* *
137074 TGAATTATTGGAATT
1 TGAATTACTGAAATT
*
137089 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
137104 TGAATTACTGAAATT
1 TGAATTACTGAAATT
**
137119 TGAATT-CTGAAAAA
1 TGAATTACTGAAATT
137133 TGAATTAC
1 TGAATTAC
137141 ATTTCTGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.37
15 24 0.56
16 3 0.07
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:137140 original size:29 final size:30
Alignment explanation
Indices: 137070--137140 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
137060 GGTTTTCCAG
* * *
137070 AAAATGAATTATTGGAATTTGAATTACTGG
1 AAAATGAATTACTGAAATTTGAATTACTGA
137100 AAAATGAATTACTGAAATTTGAATT-CTGA
1 AAAATGAATTACTGAAATTTGAATTACTGA
137129 AAAATGAATTAC
1 AAAATGAATTAC
137141 ATTTCTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 15 0.39
30 23 0.61
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (30 bp):
AAAATGAATTACTGAAATTTGAATTACTGA
Found at i:137188 original size:20 final size:20
Alignment explanation
Indices: 137123--137191 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
137113 GAAATTTGAA
*
137123 TTCTGAAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
137143 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
137163 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
137183 TTCTGGAAA
1 TTCTGGAAA
137192 CATCTGGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:137411 original size:29 final size:29
Alignment explanation
Indices: 137356--137429 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
137346 TTACTAAAAT
* *
137356 ATTATTGAAATATATAAATAATATTATT-C
1 ATTATT-AAATATATAAAAAAAATTATTAC
*
137385 ATTATTAAATATATAAAAAAAATTTATTAT
1 ATTATTAAATATATAAAAAAAA-TTATTAC
137415 ATTATATAAATATAT
1 ATTAT-TAAATATAT
137430 CTTATATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 14 0.36
29 11 0.28
30 5 0.13
31 9 0.23
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
ATTATTAAATATATAAAAAAAATTATTAC
Found at i:137425 original size:18 final size:18
Alignment explanation
Indices: 137404--137464 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 18
137394 TATATAAAAA
137404 AAATTTATTATATTATAT
1 AAATTTATTATATTATAT
*
137422 AAATATATCTTATATTATTAT
1 AAAT-T-TATTATATTA-TAT
* *
137443 AATAATTGATTATTTTATAT
1 -A-AATTTATTATATTATAT
137463 AA
1 AA
137465 TATTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
20 12 0.35
21 10 0.29
22 2 0.06
23 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
AAATTTATTATATTATAT
Found at i:137434 original size:23 final size:22
Alignment explanation
Indices: 137406--137497 Score: 66
Period size: 23 Copynumber: 4.0 Consensus size: 22
137396 TATAAAAAAA
137406 ATTTATTATATTATATAAATAT
1 ATTTATTATATTATATAAATAT
137428 ATCTTA-TATTATTATA-ATAAT-T
1 AT-TTATTA-TATTATATA-AATAT
* *
137450 GATTATTTTATATAATATTAAA-AT
1 -ATT-TATTATATTATA-TAAATAT
137474 ATTATATTATATTATTATAAATAT
1 ATT-TATTATATTA-TATAAATAT
137498 TAATAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
22 7 0.13
23 38 0.69
24 9 0.16
25 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTTATTATATTATATAAATAT
Found at i:137443 original size:15 final size:13
Alignment explanation
Indices: 137408--137492 Score: 61
Period size: 13 Copynumber: 6.6 Consensus size: 13
137398 TAAAAAAAAT
137408 TTATTATATTATA
1 TTATTATATTATA
* *
137421 TAAATATATCTTATA
1 T-TAT-TATATTATA
*
137436 TTATTATAATA-A
1 TTATTATATTATA
137448 TTGATTAT-TT-TA
1 TT-ATTATATTATA
* *
137460 -TATAATATTAAA
1 TTATTATATTATA
*
137472 ATATTATATTATA
1 TTATTATATTATA
137485 TTATTATA
1 TTATTATA
137493 AATATTAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
10 4 0.07
11 3 0.06
12 6 0.11
13 28 0.52
14 4 0.07
15 9 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:137513 original size:19 final size:20
Alignment explanation
Indices: 137453--137523 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
137443 AATAATTGAT
*
137453 TATTTTATATAATATTA-AAA
1 TATTTAATA-AATATTATAAA
* *
137473 TATTATATTATATTATTATAAA
1 TATT-TAATA-AATATTATAAA
*
137495 TA-TTAATAAATATTTTAAA
1 TATTTAATAAATATTATAAA
137514 TATTTAATAA
1 TATTTAATAA
137524 TTAATATTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.26
20 15 0.36
21 11 0.26
22 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTAATAAATATTATAAA
Found at i:137518 original size:9 final size:9
Alignment explanation
Indices: 137457--137517 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 9
137447 ATTGATTATT
137457 TTATATAATA
1 TTATA-AATA
137467 TTA-AAATA
1 TTATAAATA
137475 TTATATTATATTA
1 TTATA--A-A-TA
137488 TTATAAATA
1 TTATAAATA
137497 TTAATAAATA
1 TT-ATAAATA
*
137507 TTTTAAATA
1 TTATAAATA
137516 TT
1 TT
137518 TAATAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
8 7 0.16
9 14 0.32
10 13 0.30
11 2 0.05
12 1 0.02
13 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTATAAATA
Found at i:137761 original size:42 final size:42
Alignment explanation
Indices: 137702--137816 Score: 212
Period size: 42 Copynumber: 2.7 Consensus size: 42
137692 ATGAATTACA
*
137702 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
137744 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
137786 TTCCGTAAAACGAATTACGTGAAACAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
137817 TGAAATTCGG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:138812 original size:33 final size:33
Alignment explanation
Indices: 138768--138917 Score: 174
Period size: 33 Copynumber: 4.5 Consensus size: 33
138758 TTTTGCTTAC
*
138768 GCAGAAACATTGCGAGAAGAACCGCCTTGATTG
1 GCAGAAACATTGCGAGAAGAACCGCCTTGAATG
* * * * * * *
138801 ACAGAAGCATTGAGAGGAGGACCTCCTTGATTG
1 GCAGAAACATTGCGAGAAGAACCGCCTTGAATG
* * **
138834 GCAGTAACATTGCGAGGAGAACCTACTTGAATG
1 GCAGAAACATTGCGAGAAGAACCGCCTTGAATG
* *
138867 GCAGAAAAATTGCAAGAAGAACCGCCTTGAATG
1 GCAGAAACATTGCGAGAAGAACCGCCTTGAATG
138900 GCAGAAACATTGCGAGAA
1 GCAGAAACATTGCGAGAA
138918 TGGGGAGAAC
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 96 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (33 bp):
GCAGAAACATTGCGAGAAGAACCGCCTTGAATG
Found at i:141747 original size:3 final size:3
Alignment explanation
Indices: 141739--141812 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
141729 CGTCCATTTG
*
141739 TTA TTA TTA TTA -TA TTA TTA TT- TTA TTTA TTA CTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
141782 TAA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
141813 TACATTACAG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 8 0.13
3 51 0.82
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:141788 original size:37 final size:37
Alignment explanation
Indices: 141742--141812 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
141732 CCATTTGTTA
*
141742 TTATTATTATATTATTATT-TTATTTATTACTATTATT
1 TTATAATTATATTATTATTATTA-TTATTACTATTATT
*
141779 TTATAATTATATTATTATTATTATTATTATTATT
1 TTATAATTATATTATTATTATTATTATTACTATT
141813 TACATTACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (37 bp):
TTATAATTATATTATTATTATTATTATTACTATTATT
Found at i:142364 original size:28 final size:27
Alignment explanation
Indices: 142315--142371 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
142305 AAGGATAGAC
142315 AGCAACCCAAAAAAAAACACAGCAACAAG
1 AGCAACCCAAAAAAAAACACAG-AA-AAG
*
142344 AGCAA-CCAAAACAACAA-ACAGAAAAG
1 AGCAACCCAAAA-AAAAACACAGAAAAG
142370 AG
1 AG
142372 AGAGAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 5 0.19
27 2 0.08
28 10 0.38
29 9 0.35
ACGTcount: A:0.63, C:0.25, G:0.12, T:0.00
Consensus pattern (27 bp):
AGCAACCCAAAAAAAAACACAGAAAAG
Found at i:143173 original size:23 final size:22
Alignment explanation
Indices: 143147--143189 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
143137 TTGTTTATTT
143147 TATATTTATATT-TTATATGTTTG
1 TATATTTA-ATTATTAT-TGTTTG
143170 TATATTTAATTATTATTGTT
1 TATATTTAATTATTATTGTT
143190 ATTATTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (22 bp):
TATATTTAATTATTATTGTTTG
Found at i:143988 original size:26 final size:27
Alignment explanation
Indices: 143936--143993 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
143926 TAATTCTTTC
*
143936 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
143964 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
143990 TTTT
1 TTTT
143994 TTTATTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:143995 original size:28 final size:28
Alignment explanation
Indices: 143936--143996 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
143926 TAATTCTTTC
*
143936 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATTTATATATATACTTATTA
* *
143964 TTTTCATAATATTTATATGTATA-TTATTT
1 TTTTCA-AA-ATTTATATATATACTTATTA
143993 TTTT
1 TTTT
143997 ATTTTCAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTCAAAATTTATATATATACTTATTA
Found at i:153428 original size:22 final size:22
Alignment explanation
Indices: 153402--153472 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
153392 ATCTACACTC
153402 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
153424 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
* *
153446 TTCAAAGATGTTACATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
153468 TTCAA
1 TTCAA
153473 GGAAGAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:153484 original size:44 final size:44
Alignment explanation
Indices: 153399--153484 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
153389 TATATCTACA
* * *
153399 CTCTTCAAAGATGATAGATTCTCTTTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATACATTCTCTTTTCAAAGAAGAAAGATTCT
* *
153443 CTCTTCAAAGATGTTACATTCTCTTTTCAAGGAAGAAAGATT
1 CTCTTCAAAGATGATACATTCTCTTTTCAAAGAAGAAAGATT
153485 TATTGGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (44 bp):
CTCTTCAAAGATGATACATTCTCTTTTCAAAGAAGAAAGATTCT
Found at i:154021 original size:113 final size:113
Alignment explanation
Indices: 153818--154245 Score: 481
Period size: 113 Copynumber: 3.7 Consensus size: 113
153808 TTTCAAAGAT
* * *
153818 TTGCCAGGTAGAGTTCATAATGAGAAGAGCTTATCTGAAGAAGGAAGAA-AAAGTTCATAATGAG
1 TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAG
* *
153882 AAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAGCA
65 AAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAACA
*
153931 TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTTATAATGAGA
1 TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
* * * * *
153996 AGAATTTTTTCAACCTTTTGTTTGAATTCATCACTCGATTGATCAACT
66 AGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAACA
* * * * *
154044 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGG-TGAAGAAGTTCATAATGAGA
1 TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
* * * *
154107 AGAACTTGTTCAACCTTTTGCATG-ACTCTATCACAGAATGAGGTATATCAGAATCAACA
66 AGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC----T--CG---AT--GGATCAACA
* * *
154166 TTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
1 TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
*
154229 TGAACTTGTTCAACCTT
66 AGAACTTGTTCAACCTT
154246 AATTTAATTC
Statistics
Matches: 271, Mismatches: 30, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
110 3 0.01
111 42 0.15
112 3 0.01
113 135 0.50
114 3 0.01
115 1 0.00
117 1 0.00
120 2 0.01
121 32 0.12
122 49 0.18
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAACA
Found at i:154614 original size:3 final size:3
Alignment explanation
Indices: 154608--154676 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
154598 ATTCATTTTT
* *
154608 TTA TTA TT- TTA TTTA TTA CTA TTA TTA TT- TTA TAA TTA -TA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
154651 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
154677 TATTTACATT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 6 0.10
3 49 0.84
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:156031 original size:22 final size:23
Alignment explanation
Indices: 155986--156031 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
155976 AGTCATTTTT
*
155986 TATTTATATTTTATATGTTTGTA
1 TATTTATATTTTATATGTTAGTA
156009 TATTTA-ATTATTAT-TGTTAGTA
1 TATTTATATT-TTATATGTTAGTA
156031 T
1 T
156032 TATGTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTATATTTTATATGTTAGTA
Found at i:157297 original size:20 final size:20
Alignment explanation
Indices: 157245--157298 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
157235 AAATGACCAA
*
157245 CAAATTCGCAACACAGTTTC
1 CAAATTCGCAACTCAGTTTC
* *
157265 CAAATTCACAACTCAGTTTT
1 CAAATTCGCAACTCAGTTTC
*
157285 GAAATTCGCAACTC
1 CAAATTCGCAACTC
157299 GAATTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACTCAGTTTC
Found at i:157356 original size:20 final size:20
Alignment explanation
Indices: 157331--157377 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
157321 TTTTCCAAAT
157331 TCGCAACGCGAATCGGTAAA
1 TCGCAACGCGAATCGGTAAA
** *
157351 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATCGGTAAA
157371 TCGCAAC
1 TCGCAAC
157378 ACAGAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCGGTAAA
Found at i:157584 original size:22 final size:22
Alignment explanation
Indices: 157547--157589 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
157537 CTCTCTACAG
* * *
157547 CGACATCCGTCTCCATCTCCGA
1 CGACATCCATCCCCATATCCGA
157569 CGACATCCATCCCCATATCCG
1 CGACATCCATCCCCATATCCG
157590 GTGACCCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.47, G:0.12, T:0.21
Consensus pattern (22 bp):
CGACATCCATCCCCATATCCGA
Found at i:157950 original size:20 final size:20
Alignment explanation
Indices: 157927--157965 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
157917 TTTGAAACTT
*
157927 AAATTCGCAATACGAAAATG
1 AAATTCGCAACACGAAAATG
157947 AAATTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
157966 CGCAATGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:157993 original size:19 final size:20
Alignment explanation
Indices: 157971--158019 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
157961 AAAATCGCAA
*
157971 TGCGGTTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
*
157990 TGCGATTTTCATTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
*
158010 TACGATTTTC
1 TGCGATTTTC
158020 GCGTTGCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.10, C:0.18, G:0.22, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGCGT
Found at i:158037 original size:20 final size:20
Alignment explanation
Indices: 157982--158052 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 20
157972 GCGGTTTTAG
*
157982 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTCAT
*
158002 TTTCGCGTTACG------AT
1 TTTCGCGTTGCGAATTTCAT
158016 TTTCGCGTTGCGAATTTCAT
1 TTTCGCGTTGCGAATTTCAT
*
158036 TTTCGTGTTGCGAATTT
1 TTTCGCGTTGCGAATTT
158053 AAGTTTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 13 0.31
20 29 0.69
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTCAT
Found at i:158059 original size:20 final size:20
Alignment explanation
Indices: 158016--158059 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
158006 GCGTTACGAT
* *
158016 TTTCGCGTTGCGAATTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
158036 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
158056 TTTC
1 TTTC
158060 AAAAACTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:159460 original size:31 final size:31
Alignment explanation
Indices: 159422--159609 Score: 191
Period size: 31 Copynumber: 6.0 Consensus size: 31
159412 GATCCTCGGC
* *
159422 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
159453 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* **
159484 TACTGTCCATATGTCTCAAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCGAAGAACATAGGTA
* *
159515 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
* * **
159547 TACTGTCCGTATGTCTCAAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCGAAGAACATAGGTA
* *
159578 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
159610 TACCCTCGAC
Statistics
Matches: 126, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
31 77 0.61
32 49 0.39
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:159538 original size:63 final size:63
Alignment explanation
Indices: 159447--159612 Score: 298
Period size: 63 Copynumber: 2.7 Consensus size: 63
159437 CCGAAGAACC
* *
159447 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACA
*
159509 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCGTATGTCTCAAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACA
159572 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
159613 CCTCGACTCT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 7 0.07
63 93 0.93
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACA
Found at i:160899 original size:11 final size:11
Alignment explanation
Indices: 160883--160937 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
160873 GGATGCATCG
160883 ATGCATGCCTT
1 ATGCATGCCTT
*
160894 ATGCAT--C-G
1 ATGCATGCCTT
160902 ATGCATGCCTT
1 ATGCATGCCTT
*
160913 ATGCAT--C-G
1 ATGCATGCCTT
160921 ATGCATGCCTT
1 ATGCATGCCTT
160932 ATGCAT
1 ATGCAT
160938 CGATGCACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
8 12 0.35
9 2 0.06
10 2 0.06
11 18 0.53
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGCATGCCTT
Found at i:160899 original size:19 final size:19
Alignment explanation
Indices: 160875--160944 Score: 140
Period size: 19 Copynumber: 3.7 Consensus size: 19
160865 TATTATTGGG
160875 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
160894 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
160913 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
160932 ATGCATCGATGCA
1 ATGCATCGATGCA
160945 CTAATTCCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:164110 original size:30 final size:30
Alignment explanation
Indices: 164074--164130 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
164064 CCCGAATGAC
164074 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
164104 CTATCCAGAGGTCATAAAGATCCTCGG
1 CTATCCAGAGGTCATAAAGATCCTCGG
164131 CAGCTGTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:164169 original size:31 final size:31
Alignment explanation
Indices: 164134--164305 Score: 114
Period size: 31 Copynumber: 5.5 Consensus size: 31
164124 TCCTCGGCAG
*
164134 CTGTCCATAGGTTCCAAAGAACCTAGGTAAA
1 CTGTCCATAGGTTCCAAAGAACATAGGTAAA
* ** *
164165 CTGTCCATATGTTCCTTAGAACATAGGTATA
1 CTGTCCATAGGTTCCAAAGAACATAGGTAAA
* * * *
164196 CTGTCCATATGTCTCGAAA-TACATAGGTAATT
1 CTGTCCATAGGT-TCCAAAGAACATAGGTAA-A
* ** * *
164228 CTGTCCATATGTTCCGTAGAATATAGGTATA
1 CTGTCCATAGGTTCCAAAGAACATAGGTAAA
* ** * *
164259 CTGTCTATATATCTCGAAAG-ACATAGGTAATT
1 CTGTCCATAGGT-TCCAAAGAACATAGGTAA-A
*
164291 CTGTCCATATGTTCC
1 CTGTCCATAGGTTCC
164306 GTAGAATATA
Statistics
Matches: 107, Mismatches: 29, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
31 70 0.65
32 37 0.35
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (31 bp):
CTGTCCATAGGTTCCAAAGAACATAGGTAAA
Found at i:164237 original size:32 final size:31
Alignment explanation
Indices: 164185--164302 Score: 125
Period size: 32 Copynumber: 3.7 Consensus size: 31
164175 GTTCCTTAGA
164185 ACATAGGTATACTGTCCATATGTCTCGAAAT
1 ACATAGGTATACTGTCCATATGTCTCGAAAT
*
164216 ACATAGGTAATTCTGTCCATATGT-TCCGTAGAAT
1 ACATAGGT-ATACTGTCCATATGTCT-CG-A-AAT
* * *
164250 --ATAGGTATACTGTCTATATATCTCGAAAG
1 ACATAGGTATACTGTCCATATGTCTCGAAAT
*
164279 ACATAGGTAATTCTGTCCATATGT
1 ACATAGGT-ATACTGTCCATATGT
164303 TCCGTAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
29 2 0.03
30 1 0.01
31 29 0.41
32 35 0.49
33 1 0.01
34 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (31 bp):
ACATAGGTATACTGTCCATATGTCTCGAAAT
Found at i:164248 original size:63 final size:63
Alignment explanation
Indices: 164157--164322 Score: 262
Period size: 63 Copynumber: 2.7 Consensus size: 63
164147 CCAAAGAACC
* * * * *
164157 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAATACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATACTGTCCATATATCTCGAAAGACA
*
164219 TAGGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATACTGTCTATATATCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATACTGTCCATATATCTCGAAAGACA
*
164282 TAGGTAATTCTGTCCATATGTTCCGTAGAATATAAGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATAC
164323 CCTCGACTCT
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 7 0.07
63 89 0.93
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATACTGTCCATATATCTCGAAAGACA
Found at i:165673 original size:64 final size:64
Alignment explanation
Indices: 165521--165677 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
165511 CAATAAGGGT
* * ** *
165521 ATGCATCGATGCACTAC-TGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACTTG-TGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
* * * *
165585 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTCCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCA-TAAAATACATTCGATG-TTCTATTATTAAAG
165646 AG
63 AG
165648 AGTGCATCGATGCACTACTTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
165678 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
63 3 0.04
64 64 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
Found at i:167318 original size:42 final size:42
Alignment explanation
Indices: 167259--167357 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
167249 CCCCCCACTT
* * * *
167259 CGAGAGCCATCACCTGATCGAGCTGATTCTACAGCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAC
167301 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAC
167343 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
167358 ATTCCATCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.17
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAC
Found at i:167496 original size:21 final size:21
Alignment explanation
Indices: 167472--167524 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
167462 GTTAAGGGAG
*
167472 TTACGTGATGAGGTCATTGCT
1 TTACGTGATGAGGTCATTACT
*
167493 TTACGTGATGAGGTCGTTACT
1 TTACGTGATGAGGTCATTACT
167514 TTACGTGATGA
1 TTACGTGATGA
167525 CAATGGTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (21 bp):
TTACGTGATGAGGTCATTACT
Found at i:167955 original size:21 final size:21
Alignment explanation
Indices: 167929--167983 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
167919 ATTCACCTGT
167929 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
167950 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
167971 CACCGTTCAAGAG
1 CATCGTTCAAGAG
167984 AACGATTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.40, G:0.20, T:0.18
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:169568 original size:29 final size:29
Alignment explanation
Indices: 169526--169601 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
169516 ATTTTTGCGT
169526 TGCGAATTTGACTTTCGCAACAATCGCAA
1 TGCGAATTTGACTTTCGCAACAATCGCAA
169555 TGCGAATTTGACTTTCGCAACAATCGCAA
1 TGCGAATTTGACTTTCGCAACAATCGCAA
*
169584 CGCGAATTTGACTTTCGC
1 TGCGAATTTGACTTTCGC
169602 GTTGCGAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (29 bp):
TGCGAATTTGACTTTCGCAACAATCGCAA
Found at i:172060 original size:24 final size:24
Alignment explanation
Indices: 172033--172079 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
172023 CAAAATCCGA
172033 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
172057 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
172080 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:172088 original size:24 final size:24
Alignment explanation
Indices: 172037--172088 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
172027 ATCCGAGTAT
** *
172037 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
172061 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
172085 TGAC
1 TGAC
172089 TAGTACTCAC
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:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:187877 original size:41 final size:41
Alignment explanation
Indices: 187832--187937 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
187822 ATTCACGTTG
* * *
187832 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
* * *
187873 CATTTCGCGTTGCAATAGTTGGAGATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
187914 CATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAA
187938 TTGCAACGCG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTC
Found at i:187926 original size:20 final size:20
Alignment explanation
Indices: 187857--187929 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
187847 TAGTTGAAAA
*
187857 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
187877 TCGCGTTGCAATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
*
187898 TCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
187918 TCGCGTTGCGAT
1 TCGCGTTGCGAT
187930 AGTTGAAATT
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 24 0.65
21 13 0.35
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:187999 original size:33 final size:33
Alignment explanation
Indices: 187962--188045 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
187952 CCATCATCGC
187962 AAATTCGCGTTGCATTTCGCGTTGCGATAGGTG
1 AAATTCGCGTTGCATTTCGCGTTGCGATAGGTG
*
187995 AAATTCGCGTTGCATTTCGCGTTGCGATAGTTG
1 AAATTCGCGTTGCATTTCGCGTTGCGATAGGTG
*
188028 AAAATCGCGTTGCGATTT
1 AAATTCGCGTTGC-ATTT
188046 TCCATTTCGC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 44 0.92
34 4 0.08
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (33 bp):
AAATTCGCGTTGCATTTCGCGTTGCGATAGGTG
Found at i:188027 original size:21 final size:21
Alignment explanation
Indices: 188003--188066 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
187993 TGAAATTCGC
188003 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
188024 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
188044 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
188065 GT
1 GT
188067 CTACAGTTGT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:188227 original size:5 final size:6
Alignment explanation
Indices: 188177--188224 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
188167 GACACGTATT
188177 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
188222 ACC
1 ACC
188225 CGAGACGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:188721 original size:5 final size:5
Alignment explanation
Indices: 188711--188751 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
188701 GCCGTCCGTC
188711 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
188752 TGGTAATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:188740 original size:6 final size:6
Alignment explanation
Indices: 188714--188755 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
188704 GTCCGTCTCG
188714 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
188756 AATGGTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:188892 original size:22 final size:22
Alignment explanation
Indices: 188865--188917 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
188855 AATTTGGAAA
*
188865 ATCGCAACGACAACTGTATACT
1 ATCGCAACGACAACTGTAGACT
188887 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
188909 ATCGCAACG
1 ATCGCAACG
188918 CGAAATGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:188938 original size:20 final size:20
Alignment explanation
Indices: 188909--189104 Score: 146
Period size: 20 Copynumber: 9.6 Consensus size: 20
188899 ACTGTAGACT
188909 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * ** *
188929 ATCACAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAA-A
188950 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
188970 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
188991 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
189011 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
189032 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
** *
189052 ATCGCAA--CGAAATTTTCAACT
1 ATCGCAACGCGAAA--TGGAA-A
*
189073 ATCGCAACACGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
189093 ATCGCAACGCGA
1 ATCGCAACGCGA
189105 TTTTCAACTA
Statistics
Matches: 133, Mismatches: 33, Indels: 20
0.72 0.18 0.11
Matches are distributed among these distances:
18 5 0.04
19 3 0.02
20 64 0.48
21 53 0.40
22 3 0.02
23 5 0.04
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:189129 original size:41 final size:41
Alignment explanation
Indices: 188906--189121 Score: 344
Period size: 41 Copynumber: 5.3 Consensus size: 41
188896 ACAACTGTAG
* *
188906 ACTATCGCAACGCGAAATGGAAAATCACAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
188947 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
188987 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* **
189029 ACTATCGCAACGCGAAATGAAAAATCGCAACGAAATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
189070 ACTATCGCAACACGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
189111 ACTATCGCAAC
1 ACTATCGCAAC
189122 ACAAAATGCA
Statistics
Matches: 161, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 159 0.99
42 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:189133 original size:21 final size:21
Alignment explanation
Indices: 188884--189133 Score: 95
Period size: 21 Copynumber: 12.1 Consensus size: 21
188874 ACAACTGTAT
* *
188884 ACTATCGCAACGAC-AACTGTA
1 ACTATCGCAAC-ACGAAATGCA
* *
188905 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACACGAAATGCA
* * * * *
188927 A-AATCACAACGCGAATTTCA
1 ACTATCGCAACACGAAATGCA
* *
188947 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACACGAAATGCA
* * * *
188968 A-AATCGCAACGCG-ACTGTA
1 ACTATCGCAACACGAAATGCA
* *
188987 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACACGAAATGCA
* * ** *
189009 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACACGAAATGCA
*
189029 ACTATCGCAACGCGAAATG-A
1 ACTATCGCAACACGAAATGCA
** *
189049 AAAATCGC-A-ACGAAATTTTCA
1 ACTATCGCAACACGAAA--TGCA
*
189070 ACTATCGCAACACGAAATGGA
1 ACTATCGCAACACGAAATGCA
* * ** *
189091 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACACGAAATGCA
*
189111 ACTATCGCAACACAAAATGCA
1 ACTATCGCAACACGAAATGCA
189132 AC
1 AC
189134 GCGAATTTGC
Statistics
Matches: 168, Mismatches: 48, Indels: 25
0.70 0.20 0.10
Matches are distributed among these distances:
18 5 0.03
19 5 0.03
20 64 0.38
21 67 0.40
22 21 0.12
23 6 0.04
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACACGAAATGCA
Found at i:191231 original size:20 final size:21
Alignment explanation
Indices: 191181--191235 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
191171 CTAATTGTAG
*
191181 TTCCTAATTTTTAGGGATTCT
1 TTCCTAATTTTTAGGAATTCT
*
191202 TTCTTAATTTTTAGGAATTCT
1 TTCCTAATTTTTAGGAATTCT
*
191223 TTCCTATTTTTTA
1 TTCCTAATTTTTA
191236 CACTAATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.58
Consensus pattern (21 bp):
TTCCTAATTTTTAGGAATTCT
Found at i:214933 original size:2 final size:2
Alignment explanation
Indices: 214926--214950 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
214916 CTGGTTGTTT
214926 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
214951 TGGGGTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:218423 original size:17 final size:19
Alignment explanation
Indices: 218401--218441 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
218391 CCCTCTATAA
218401 ATTTT-AATTT-CTTTTAT
1 ATTTTAAATTTACTTTTAT
*
218418 ATTTTAAATTTATTTTTAT
1 ATTTTAAATTTACTTTTAT
218437 ATTTT
1 ATTTT
218442 TTATTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 11 0.52
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTAAATTTACTTTTAT
Found at i:225572 original size:12 final size:12
Alignment explanation
Indices: 225555--225579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
225545 GTAAAGCTTG
225555 TATCTACAATAT
1 TATCTACAATAT
225567 TATCTACAATAT
1 TATCTACAATAT
225579 T
1 T
225580 GGGCCTGACA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TATCTACAATAT
Found at i:229587 original size:48 final size:48
Alignment explanation
Indices: 229526--229619 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
229516 GTCGTCGAGC
* * * *
229526 TAGTGCTTGAAATATTATGCTATTGAGCCAGTTCTTGAAAGCAACAGT
1 TAGTACTTAAAATATTATGCTATTGAGCCAATGCTTGAAAGCAACAGT
* *
229574 TAGTACTTAAAATATTATGTTATTGAGTCAATGCTTGAAAGCAACA
1 TAGTACTTAAAATATTATGCTATTGAGCCAATGCTTGAAAGCAACA
229620 ACGATACTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (48 bp):
TAGTACTTAAAATATTATGCTATTGAGCCAATGCTTGAAAGCAACAGT
Found at i:230123 original size:23 final size:22
Alignment explanation
Indices: 230087--230130 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
230077 TCAAAAGGGT
230087 AAGTCTTTTAATCGAAAAGTCA
1 AAGTCTTTTAATCGAAAAGTCA
*
230109 AAGTCTTTTTTATCGAAAAGTC
1 AAGTC-TTTTAATCGAAAAGTC
230131 TAAACCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (22 bp):
AAGTCTTTTAATCGAAAAGTCA
Found at i:231814 original size:19 final size:20
Alignment explanation
Indices: 231790--231829 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
231780 AATTTAATCG
*
231790 AATATATAAT-TTAAAATTC
1 AATATAAAATCTTAAAATTC
231809 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
231829 A
1 A
231830 TTAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:232919 original size:32 final size:32
Alignment explanation
Indices: 232873--232995 Score: 137
Period size: 32 Copynumber: 3.9 Consensus size: 32
232863 GAAGAACCTA
*
232873 TCCATATGTTCCAAAGAACATAGGTAACACTG
1 TCCATATGTCCCAAAGAACATAGGTAACACTG
*
232905 TTCATATGTCCCAAATG-ACATAGGTAATC-CTG
1 TCCATATGTCCCAAA-GAACATAGGTAA-CACTG
* * *
232937 TCCATATGTCCCGAAGGACATAGGTAA-ACTA
1 TCCATATGTCCCAAAGAACATAGGTAACACTG
*
232968 TCCATATGTCTCAAA-AGACATAGGTAAC
1 TCCATATGTCCCAAAGA-ACATAGGTAAC
232996 CCTCGACTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
31 26 0.34
32 49 0.64
33 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (32 bp):
TCCATATGTCCCAAAGAACATAGGTAACACTG
Found at i:232994 original size:63 final size:64
Alignment explanation
Indices: 232873--232994 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 64
232863 GAAGAACCTA
* * * *
232873 TCCATATGTTCCAAAGAACATAGGTAACACTGTTCATATGTCCCAAATGACATAGGTAATCCTG
1 TCCATATGTCCCAAAGAACATAGGTAACACTATCCATATGTCCCAAAAGACATAGGTAATCCTG
* * *
232937 TCCATATGTCCCGAAGGACATAGGTAA-ACTATCCATATGTCTCAAAAGACATAGGTAA
1 TCCATATGTCCCAAAGAACATAGGTAACACTATCCATATGTCCCAAAAGACATAGGTAA
232995 CCCTCGACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 27 0.53
64 24 0.47
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (64 bp):
TCCATATGTCCCAAAGAACATAGGTAACACTATCCATATGTCCCAAAAGACATAGGTAATCCTG
Found at i:237326 original size:31 final size:31
Alignment explanation
Indices: 237267--237326 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
237257 GAAGATGAGG
*
237267 AAATAAAAGAGAAAAAGTAAAAGTTAAAATA
1 AAATAAAAGAGAAAAAGTAAAAGATAAAATA
* * * *
237298 AAATAAAATAGATAAAGTTAAGGATAAAA
1 AAATAAAAGAGAAAAAGTAAAAGATAAAA
237327 GAGAAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (31 bp):
AAATAAAAGAGAAAAAGTAAAAGATAAAATA
Found at i:244804 original size:20 final size:19
Alignment explanation
Indices: 244779--244839 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 19
244769 ATCATATTGT
244779 CCAGGGGGTACAGATTTCCC
1 CCAGGGGGTACAGA-TTCCC
244799 CCAGGGGGTACAGATTCTCC
1 CCAGGGGGTACAGATTC-CC
* *
244819 CCAGGGGGAACCGATTCCC
1 CCAGGGGGTACAGATTCCC
244838 CC
1 CC
244840 TGTCTAACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 7 0.18
20 31 0.82
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (19 bp):
CCAGGGGGTACAGATTCCC
Found at i:245031 original size:11 final size:11
Alignment explanation
Indices: 245012--245044 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
245002 TTTTATACTT
*
245012 AAACTATTTTA
1 AAACAATTTTA
245023 AAACAATTTTA
1 AAACAATTTTA
245034 AAACAATTTTA
1 AAACAATTTTA
245045 CAAAGTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (11 bp):
AAACAATTTTA
Found at i:245156 original size:21 final size:21
Alignment explanation
Indices: 245116--245177 Score: 92
Period size: 20 Copynumber: 3.0 Consensus size: 21
245106 ATCATATTGT
245116 CCAGGGGGTACAGATT-TCCC
1 CCAGGGGGTACAGATTCTCCC
245136 CCAGGGGGTACAGATTCTCCC
1 CCAGGGGGTACAGATTCTCCC
* *
245157 CCAGGGGGAACCGATTC-CCC
1 CCAGGGGGTACAGATTCTCCC
245177 C
1 C
245178 TGTCTAACGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 20 0.51
21 19 0.49
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.16
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCTCCC
Found at i:246465 original size:19 final size:20
Alignment explanation
Indices: 246441--246488 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
246431 AACGATTTTC
*
246441 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
246460 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
246480 TTTTGAAAA
1 TTTTGAAAA
246489 ATGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:251078 original size:51 final size:51
Alignment explanation
Indices: 251023--251119 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
251013 AATTTTTTTA
* *
251023 AAATTCCCACT-ATTCAACAGAAGTTAGTTTTGTTTCGAGATTTAATTTATT
1 AAATTCCC-CTCATTCAACAAAAATTAGTTTTGTTTCGAGATTTAATTTATT
* * * * *
251074 AAATTCTCGTCATTTAACAAAAATTAGTTTTGTTTCGGGTTTTAAT
1 AAATTCCCCTCATTCAACAAAAATTAGTTTTGTTTCGAGATTTAAT
251120 CTCGTTGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 37 0.97
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (51 bp):
AAATTCCCCTCATTCAACAAAAATTAGTTTTGTTTCGAGATTTAATTTATT
Found at i:254753 original size:17 final size:18
Alignment explanation
Indices: 254716--254753 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
254706 GGTATTTTAA
* *
254716 TTTTATTTATTTTAATAT
1 TTTTATTAATTCTAATAT
254734 TTTTATTAATTCTAAT-T
1 TTTTATTAATTCTAATAT
254751 TTT
1 TTT
254754 ATCTCATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTAATTCTAATAT
Found at i:262788 original size:20 final size:20
Alignment explanation
Indices: 262752--262789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
262742 ATCATATTCC
**
262752 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
262772 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
262790 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:271443 original size:21 final size:20
Alignment explanation
Indices: 271419--271482 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
271409 AACTTTGAAA
271419 AAATGCTTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
271440 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
271454 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
271475 AAATGTTT
1 AAATGTTT
271483 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:271525 original size:36 final size:36
Alignment explanation
Indices: 271384--271530 Score: 169
Period size: 35 Copynumber: 4.2 Consensus size: 36
271374 TGAAAGTATT
* *
271384 AAAATGTTTTTC-AAGTTTGGTAACTA--ACTTTGAA
1 AAAATGTTTTTCAAAGTTTGGTAAATATTTCTTTG-A
* *
271418 AAAATGCTTTTCAAAGTTTGGTAAATGTTTCTTTG-
1 AAAATGTTTTTCAAAGTTTGGTAAATATTTCTTTGA
* *
271453 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
1 AAAATGTTTTTCAAAGTTTGGTAAATATTTCTTTGA
* *
271489 AAAATAGTTTTTCAAAGTTTGGTAGATATTT-GTTGA
1 AAAAT-GTTTTTCAAAGTTTGGTAAATATTTCTTTGA
271525 AAAATG
1 AAAATG
271531 ATAATGGGAT
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
34 11 0.11
35 47 0.47
36 14 0.14
37 27 0.27
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (36 bp):
AAAATGTTTTTCAAAGTTTGGTAAATATTTCTTTGA
Found at i:276047 original size:35 final size:34
Alignment explanation
Indices: 276003--276140 Score: 138
Period size: 35 Copynumber: 3.9 Consensus size: 34
275993 ATTAAAATGT
* **
276003 TTTTC-AAGTTTGGTAACTAACTTTGAAAAAATAG
1 TTTTCAAAGTTTGGTAAATTTCTTTG-AAAAATAG
*
276037 TTTTCAAAGTTTGGTAAATGTTTCTTT-AAAAATGG
1 TTTTCAAAGTTTGGTAAA--TTTCTTTGAAAAATAG
*
276072 TTTTCAAAGTTTGGTAAATGTTTTTTGAAAAATAG
1 TTTTCAAAGTTTGGTAAAT-TTCTTTGAAAAATAG
*
276107 TTTTTCAAAGTTTGGTAGATGTT-TGTTGAAAAAT
1 -TTTTCAAAGTTTGGTAAAT-TTCT-TTGAAAAAT
276141 GATAATGGGA
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.01
34 10 0.11
35 44 0.49
36 30 0.33
37 5 0.06
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.44
Consensus pattern (34 bp):
TTTTCAAAGTTTGGTAAATTTCTTTGAAAAATAG
Found at i:276119 original size:36 final size:35
Alignment explanation
Indices: 276024--276140 Score: 173
Period size: 35 Copynumber: 3.3 Consensus size: 35
276014 GGTAACTAAC
276024 TTTGAAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
1 TTTG-AAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
276060 CTTT-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 -TTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
276095 TTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 TTTGAAAAATAG-TTTTCAAAGTTTGGTAAATGTTT
*
276131 GTTGAAAAAT
1 TTTGAAAAAT
276141 GATAATGGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
34 3 0.04
35 37 0.50
36 31 0.42
37 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:282852 original size:2 final size:2
Alignment explanation
Indices: 282845--282871 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
282835 ATGAACACAT
282845 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
282872 AATCTTCCGG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:303345 original size:19 final size:19
Alignment explanation
Indices: 303296--303333 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
303286 ACAATCTGAT
303296 AATTTAAAGAAATTATATAA
1 AATTTAAA-AAATTATATAA
*
303316 AATTAAAAAAATTATATA
1 AATTTAAAAAATTATATA
303334 CTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AATTTAAAAAATTATATAA
Found at i:304907 original size:70 final size:70
Alignment explanation
Indices: 304794--304925 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 70
304784 CCATAAGCAG
* * *
304794 TTACATCAATTTGAGAGGTTAAGATTCCATTTCTACTTTTACAATGGTTTTGAAATGAACTAGAA
1 TTACATCAATTCGAGAGGATAAGATTCCATTTCTACTTTTACAATGATTTTGAAATGAACTAGAA
304859 AACCA
66 AACCA
* *
304864 TTACATCAATTCGGGAGGATAAGATTCCATTTCTGCTTTTACAATGATTTTGAAATGAACTA
1 TTACATCAATTCGAGAGGATAAGATTCCATTTCTACTTTTACAATGATTTTGAAATGAACTA
304926 TTTGTGTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (70 bp):
TTACATCAATTCGAGAGGATAAGATTCCATTTCTACTTTTACAATGATTTTGAAATGAACTAGAA
AACCA
Found at i:312365 original size:14 final size:14
Alignment explanation
Indices: 312346--312376 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
312336 TATTCCTTGA
312346 CAAACAGCCATGAG
1 CAAACAGCCATGAG
312360 CAAACAGCCATGAG
1 CAAACAGCCATGAG
312374 CAA
1 CAA
312377 TCAGTGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.19, T:0.06
Consensus pattern (14 bp):
CAAACAGCCATGAG
Found at i:313260 original size:228 final size:223
Alignment explanation
Indices: 312861--313306 Score: 748
Period size: 228 Copynumber: 2.0 Consensus size: 223
312851 GTAAATTATC
* * * *
312861 TATCCTTTTTATAAAAGTGTCTATACTTATTCACTGTGAAAATATTTTATTATTATCTTTAGTTA
1 TATCATTTTTATAAAAGTGTCCATACTTATTCACTGTGAAAACATTTTATTATTATATTTAGTTA
**
312926 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
66 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTG
312991 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGA
131 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
313056 AACATAAATTACATAACTTTCAAAAAAGTA
195 AACATAAATTACATAACTTT-AAAAAAGTA
* *
313086 TATCATTTTTATAAAAGTGTCCATATTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTA-TTCACTG-TGAAAACAT-TTTATTATTATATTTAG
*
313151 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
63 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
313216 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
128 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
313281 GAAACATAAATTACATAACTTTAAAA
193 GAAACATAAATTACATAACTTTAAAA
313307 GCAGTTATAA
Statistics
Matches: 207, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
225 26 0.13
226 11 0.05
227 38 0.18
228 132 0.64
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (223 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTCACTGTGAAAACATTTTATTATTATATTTAGTTA
ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTG
TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAAAGTA
Found at i:313392 original size:19 final size:18
Alignment explanation
Indices: 313356--313412 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
313346 ATATCGATCC
* * *
313356 AAAACGATATACCAGTAA
1 AAAATGATAAACCGGTAA
313374 AAATATGATAAACCGGTAA
1 AAA-ATGATAAACCGGTAA
313393 CAAAATGATAAACCGGTAA
1 -AAAATGATAAACCGGTAA
313412 A
1 A
313413 TTTAAAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.12
19 27 0.79
20 3 0.09
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (18 bp):
AAAATGATAAACCGGTAA
Found at i:313552 original size:20 final size:19
Alignment explanation
Indices: 313529--313575 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
313519 CGATATAACA
313529 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
313549 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
313569 GGTAAAA
1 GGTAAAA
313576 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:313577 original size:17 final size:19
Alignment explanation
Indices: 313538--313580 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
313528 AGGTAAAAAT
313538 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
313558 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
313575 ATGATA
1 ATGATA
313581 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:315827 original size:21 final size:21
Alignment explanation
Indices: 315780--315844 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
315770 AAGACAATCA
* *
315780 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
315802 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
315822 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
315843 AG
1 AG
315845 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:315920 original size:33 final size:33
Alignment explanation
Indices: 315878--315943 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
315868 AAATAGATGG
*
315878 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
315911 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
315944 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:316046 original size:17 final size:19
Alignment explanation
Indices: 316012--316055 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
316002 GAAAAAATAT
*
316012 GAAGAAG-AAAGAGGGGA-
1 GAAGAAGAAAAGAGAGGAG
316029 GAAGAAGAAAAGA-AGGAG
1 GAAGAAGAAAAGAGAGGAG
316047 GAAGAAGAA
1 GAAGAAGAA
316056 TGGAAGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (19 bp):
GAAGAAGAAAAGAGAGGAG
Found at i:317647 original size:19 final size:19
Alignment explanation
Indices: 317623--317671 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
317613 AATGTAGGGT
317623 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
317642 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
317661 T-ATTTTCGTAT
1 TAATTTT-GTAT
317672 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:318276 original size:196 final size:197
Alignment explanation
Indices: 317796--318864 Score: 1930
Period size: 196 Copynumber: 5.5 Consensus size: 197
317786 GGCCAAAAGG
317796 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
317861 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGG-AAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
317925 TAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
317987 AT
196 AT
317989 ATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
318053 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATG-ATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
318117 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
318181 AAT
195 AAT
318184 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
318249 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
*
318314 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAATTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
318379 AT
196 AT
318381 ATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGA-AATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* * *
318444 TGTCGACACTAATATAGTTTGTGTCGATACTAATTT--AAATATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGA-ATGAATGGAAAACAGGGTGCACC
*
318507 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
318572 AAT
195 AAT
318575 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* * *
318640 TGTCGACACTAATATAGTTTGTGTCGATACTAATTT--AAATATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGA-ATGAATGGAAAACAGGGTGCACC
*
318703 ATAAAGTGTCGATCCGTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
318768 AAT
195 AAT
318771 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
318836 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
318865 CTAATTTAAA
Statistics
Matches: 856, Mismatches: 9, Indels: 19
0.97 0.01 0.02
Matches are distributed among these distances:
191 4 0.00
192 98 0.11
193 40 0.05
194 125 0.15
195 131 0.15
196 375 0.44
197 83 0.10
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:318557 original size:391 final size:390
Alignment explanation
Indices: 317796--318877 Score: 1955
Period size: 391 Copynumber: 2.8 Consensus size: 390
317786 GGCCAAAAGG
317796 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
317861 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGG-AAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
317925 TAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAA
131 TAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
317988 TATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
196 TATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* * *
318053 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGA-ATGATGGAAAACAGGGTGCACCC
261 TGTCGACACTAATATAGTTTGTGTCGATACTAATTT--AAATATGATGGAAAACAGGGTGCACCC
318117 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
324 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
318182 AT
389 AT
318184 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
318249 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
*
318314 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAATTATAATGTA
131 TAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
318379 ATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGA-AATATGTCTAAATAAT
195 ATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
318443 GTGTCGACACTAATATAGTTTGTGTCGATACTAATTTAAATATGAATGGAAAACAGGGTGCA-CC
260 GTGTCGACACTAATATAGTTTGTGTCGATACTAATTTAAATATG-ATGGAAAACAGGGTGCACCC
*
318507 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATCATCGAACCCAAAAGTATAATGT
324 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
318572 AAT
388 AAT
318575 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* * *
318640 TGTCGACACTAATATAGTTTGTGTCGATACTAATTT--AAATATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGA-ATGAATGGAAAACAGGGTGCACC
318703 ATAAAGTGTCGATCCGTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
318768 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
194 AATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
318833 ATGTGTCGACACTAATATAGTTTGTGTCGATACTAATTTAAATAT
258 ATGTGTCGACACTAATATAGTTTGTGTCGATACTAATTTAAATAT
318878 CAAGTGTTTT
Statistics
Matches: 673, Mismatches: 11, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
388 113 0.17
389 33 0.05
390 136 0.20
391 257 0.38
392 134 0.20
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (390 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCTATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
TATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATACTAATTTAAATATGATGGAAAACAGGGTGCACCCAT
AAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
Found at i:320343 original size:18 final size:18
Alignment explanation
Indices: 320322--320383 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
320312 AGCGGTCGCA
320322 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
320340 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
320358 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
320376 GAAGATGA
1 GAAGATGA
320384 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:320346 original size:6 final size:6
Alignment explanation
Indices: 320322--320407 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
320312 AGCGGTCGCA
* * * * * *
320322 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
320370 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
320408 TGATCCAAAT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:320357 original size:3 final size:3
Alignment explanation
Indices: 320337--320411 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
320327 TGAAGCTGAC
* * * * * ** *
320337 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
320385 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
320412 CCAAATAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:320376 original size:36 final size:36
Alignment explanation
Indices: 320325--320403 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
320315 GGTCGCAGAA
*
320325 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
320361 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
320397 GATGAAG
1 GATGAAG
320404 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:320411 original size:12 final size:12
Alignment explanation
Indices: 320325--320407 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
320315 GGTCGCAGAA
*
320325 GATGAAGCTGAC
1 GATGAAGATGAC
320337 GATGAAGATGAC
1 GATGAAGATGAC
*
320349 GATGATGATGAC
1 GATGAAGATGAC
* *
320361 GATGAAGCTGGC
1 GATGAAGATGAC
*
320373 GATGAAGATGAT
1 GATGAAGATGAC
* * *
320385 GACGATGATGAT
1 GATGAAGATGAC
320397 GATGAAGATGA
1 GATGAAGATGA
320408 TGATCCAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:322472 original size:183 final size:183
Alignment explanation
Indices: 321834--323189 Score: 2547
Period size: 183 Copynumber: 7.4 Consensus size: 183
321824 CTTTCAACAT
** * * * *
321834 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
321899 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
321964 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
322017 ATTATAATGT-ATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
322081 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322146 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
322198 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
322263 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322328 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
322381 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
322446 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322511 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
322564 ATTATAATGTAATAGATAA-TTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
*
322628 GGTCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322693 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
322746 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
322811 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322876 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
322929 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
*
322994 GGTCTATAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
323059 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
323112 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
*
323177 TGTCTACAACCTA
66 GGTCTACAACCTA
323190 AAATGTGTCG
Statistics
Matches: 1154, Mismatches: 16, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
181 44 0.04
182 451 0.39
183 659 0.57
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:322606 original size:365 final size:366
Alignment explanation
Indices: 321834--323189 Score: 2547
Period size: 365 Copynumber: 3.7 Consensus size: 366
321824 CTTTCAACAT
** * * * *
321834 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
321899 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
321964 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGT-A
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
* *
322028 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
322093 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
322158 CGATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATA
326 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
322198 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
322263 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322328 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
322393 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
322458 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
322523 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
326 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
322564 ATTATAATGTAATAGATAA-TTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
*
322628 GGTCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
322693 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
322758 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
322823 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
322888 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
326 CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
322929 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
*
322994 GGTCTATAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
323059 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
* * * *
323124 TAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATATGTCTACAACCT
196 TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
323189 A
261 A
323190 AAATGTGTCG
Statistics
Matches: 970, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
364 187 0.19
365 497 0.51
366 286 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (366 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAA
TAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATAGGTCTACAACCT
ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
CGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:325726 original size:28 final size:23
Alignment explanation
Indices: 325670--325723 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
325660 TAACTACAAG
*
325670 TATATAATGTAATAGGTATCGTT
1 TATATAATGTAATAGGTAGCGTT
*
325693 TATATAATGTAATAGGTAGCGCT
1 TATATAATGTAATAGGTAGCGTT
325716 TATATAAT
1 TATATAAT
325724 ATATTGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (23 bp):
TATATAATGTAATAGGTAGCGTT
Found at i:326174 original size:18 final size:18
Alignment explanation
Indices: 326153--326189 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
326143 GTAATTGGAG
326153 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
326171 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
326189 T
1 T
326190 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:326197 original size:24 final size:24
Alignment explanation
Indices: 326145--326191 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
326135 TTTCATATGT
* *
326145 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
326169 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
326192 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:326489 original size:39 final size:39
Alignment explanation
Indices: 326446--326532 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
326436 TCCGATGCTC
*
326446 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
326485 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
326524 ATCAAAATC
1 ATCAAAATC
326533 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:327025 original size:23 final size:23
Alignment explanation
Indices: 326953--327015 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
326943 ATAGGTAAAA
*
326953 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
326976 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
326999 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
327016 GTGGTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:327417 original size:23 final size:23
Alignment explanation
Indices: 327386--327458 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
327376 ATAGGTAAAA
*
327386 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
327409 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
327432 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
327455 ATAT
1 ATAT
327459 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:327548 original size:433 final size:433
Alignment explanation
Indices: 326741--327807 Score: 2018
Period size: 433 Copynumber: 2.5 Consensus size: 433
326731 TTATCTTTGG
326741 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
326806 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
326871 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
*
326936 CAATATAATAGGTAAAAATATGATGTAATAGGTATCGCTTATATAATGTAATAGGTATCGTTTAT
196 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
* *
327001 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTT
261 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCAATACTTT
327066 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
326 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
327131 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
391 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
327174 TTTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTT
1 -TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTT
327239 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
65 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
327304 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAAGTATGGACACTT
130 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
327368 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
195 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
327433 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCAATACTT
260 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCAATACTT
*
327498 TTTTCACTGTTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
325 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
327563 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
390 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
327607 TT-A--TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
*
327669 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-CAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
327733 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
327798 CAATATAATA
196 CAATATAATA
327808 TAATGTAATA
Statistics
Matches: 623, Mismatches: 9, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
428 47 0.08
429 147 0.24
431 1 0.00
432 2 0.00
433 257 0.41
434 169 0.27
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (433 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCAATACTTT
TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:334420 original size:10 final size:10
Alignment explanation
Indices: 334405--334441 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
334395 TTTTTTTTAA
334405 AAAAATAAAT
1 AAAAATAAAT
334415 AAAAATAAAT
1 AAAAATAAAT
* *
334425 AAAATTCAAT
1 AAAAATAAAT
334435 AAAAATA
1 AAAAATA
334442 TAATGTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:336981 original size:18 final size:18
Alignment explanation
Indices: 336905--336968 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
336895 GGATTATCAA
* *
336905 TGGTCCTTCGGGACATAG
1 TGGTCCTTCGGGACACAC
*
336923 TGGTCTTTCGGGACACAC
1 TGGTCCTTCGGGACACAC
336941 TGGTCCTTCGGGACACAC
1 TGGTCCTTCGGGACACAC
336959 TGGTCCTTCG
1 TGGTCCTTCG
336969 AAACATAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (18 bp):
TGGTCCTTCGGGACACAC
Found at i:336981 original size:36 final size:36
Alignment explanation
Indices: 336905--336991 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
336895 GGATTATCAA
* * * **
336905 TGGTCCTTCGGGACATAGTGGTCTTTCGGGACACAC
1 TGGTCCTTCGGGACACACTGGTCCTTCGAAACACAC
* *
336941 TGGTCCTTCGGGACACACTGGTCCTTCGAAACATAG
1 TGGTCCTTCGGGACACACTGGTCCTTCGAAACACAC
* *
336977 TGGTCTTTCAGGACA
1 TGGTCCTTCGGGACA
336992 AATATTCAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (36 bp):
TGGTCCTTCGGGACACACTGGTCCTTCGAAACACAC
Found at i:343055 original size:19 final size:19
Alignment explanation
Indices: 343031--343101 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
343021 GATTGCAATT
343031 AGTGCATCGATGCATGAAG
1 AGTGCATCGATGCATGAAG
343050 AGTGCATCGATGCATGAAG
1 AGTGCATCGATGCATGAAG
*
343069 AGTGCAAT-GATGCATGAGG
1 AGTGC-ATCGATGCATGAAG
343088 AGTGCATCGATGCA
1 AGTGCATCGATGCA
343102 CCTGCTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 2 0.04
19 45 0.92
20 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATGAAG
Found at i:344688 original size:10 final size:10
Alignment explanation
Indices: 344633--344691 Score: 73
Period size: 10 Copynumber: 5.7 Consensus size: 10
344623 TTTACATTAT
*
344633 ATTTTTATTG
1 ATTTTTATTC
*
344643 AATTTTATTC
1 ATTTTTATTC
344653 ATTTTTAATTC
1 ATTTTT-ATTC
344664 ATTTTTATTGC
1 ATTTTTATT-C
*
344675 ATTTTTATTT
1 ATTTTTATTC
344685 ATTTTTA
1 ATTTTTA
344692 AAAAAGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 23 0.53
11 20 0.47
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:344688 original size:21 final size:20
Alignment explanation
Indices: 344633--344691 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
344623 TTTACATTAT
* *
344633 ATTTTTATTGAATTTTATTC
1 ATTTTTATTCATTTTTATTC
344653 ATTTTTAATTCATTTTTATTGC
1 ATTTTT-ATTCATTTTTATT-C
*
344675 ATTTTTATTTATTTTTA
1 ATTTTTATTCATTTTTA
344692 AAAAAGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.18
21 21 0.62
22 7 0.21
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTATTCATTTTTATTC
Found at i:346953 original size:31 final size:31
Alignment explanation
Indices: 346913--346971 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
346903 TAAATATTAT
* * *
346913 TTATATATATATTTATAATACTAAATAAATA
1 TTATATATATATATAAAATAATAAATAAATA
*
346944 TTATTTATATATATAAAATAATAAATAA
1 TTATATATATATATAAAATAATAAATAA
346972 TAATAGTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATATATATATATAAAATAATAAATAAATA
Found at i:348410 original size:3 final size:3
Alignment explanation
Indices: 348402--348446 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
348392 TAATATTTAT
* *
348402 TAA TAA TAA -AA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
348447 TATTATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:348441 original size:21 final size:21
Alignment explanation
Indices: 348402--348462 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
348392 TAATATTTAT
* *
348402 TAATAA-TAAAATAATAATAA
1 TAATAATTATAATTATAATAA
348422 TAATAATTATAATTATAATAA
1 TAATAATTATAATTATAATAA
*
348443 TAATTATTAT-ATATATAATA
1 TAATAATTATAAT-TATAATA
348463 TTCAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATAATTATAATTATAATAA
Found at i:350691 original size:17 final size:17
Alignment explanation
Indices: 350669--350701 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
350659 TTTCCCTTCA
350669 TTTTAAAATTATATTTT
1 TTTTAAAATTATATTTT
350686 TTTTAAAATTATATTT
1 TTTTAAAATTATATTT
350702 AACGTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATTATATTTT
Found at i:356627 original size:2 final size:2
Alignment explanation
Indices: 356622--356647 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
356612 AACCATGGCA
356622 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
356648 CTATCTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.