Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009017.1 Hibiscus syriacus cultivar Beakdansim tig00112407_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: 1192163
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:305410 original size:17 final size:17
Alignment explanation
Indices: 305363--305449 Score: 92
Period size: 17 Copynumber: 5.2 Consensus size: 17
305353 ATTATGCTTG
*
305363 AAGAAAAAATGAAAAATAA
1 AAGAAAAAAAG-AAAA-AA
305382 AAGAAAGAAAAGAAAAAA
1 AAGAAA-AAAAGAAAAAA
*
305400 AAG----AAAGAAAGAA
1 AAGAAAAAAAGAAAAAA
305413 AAGAAAAAAAGAAAAAA
1 AAGAAAAAAAGAAAAAA
*
305430 AAGAAAAAAAGAGAAAA
1 AAGAAAAAAAGAAAAAA
305447 AAG
1 AAG
305450 GGGGTCAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
13 12 0.20
17 28 0.47
18 5 0.08
19 10 0.17
20 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAAAAA
Found at i:305446 original size:8 final size:8
Alignment explanation
Indices: 305363--305449 Score: 86
Period size: 9 Copynumber: 10.4 Consensus size: 8
305353 ATTATGCTTG
305363 AAGAAAAA
1 AAGAAAAA
*
305371 ATGAAAAA
1 AAGAAAAA
* *
305379 TA-AAAGA
1 AAGAAAAA
305386 AAGAAAAGA
1 AAGAAAA-A
*
305395 AAAAAAAGA
1 AAGAAAA-A
305404 AAGAAAGAA
1 AAGAAA-AA
305413 AAGAAAAA
1 AAGAAAAA
305421 AAGAAAAAA
1 AAG-AAAAA
305430 AAGAAAAA
1 AAGAAAAA
305438 AAGAGAAAA
1 AAGA-AAAA
305447 AAG
1 AAG
305450 GGGGTCAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
7 5 0.08
8 24 0.36
9 36 0.55
10 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:306322 original size:114 final size:114
Alignment explanation
Indices: 306114--306336 Score: 365
Period size: 114 Copynumber: 2.0 Consensus size: 114
306104 TGCCACGTTA
* *
306114 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * * *
306179 TTTGGTATAAACCCCAAAACCAATTATTAGATTTGAAAGATGAATTTTC
66 TTCGGTAGAAACCACAAAACCAATCATTAGAATTGAAAGATGAATTTTC
306228 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* *
306293 TTCGGTAGGAACCACAGAACCAATCATTAGAATTGAAAGATGAA
66 TTCGGTAGAAACCACAAAACCAATCATTAGAATTGAAAGATGAA
306337 CTGCATGATT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTCGGTAGAAACCACAAAACCAATCATTAGAATTGAAAGATGAATTTTC
Found at i:307253 original size:20 final size:20
Alignment explanation
Indices: 307194--307255 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
307184 ACATTACCAG
307194 AGAAAGTTCATAATAAGAAGA
1 AGAAA-TTCATAATAAGAAGA
*** * *
307215 ACTCA-TCTTAAGAAGGAAGA
1 AGAAATTCATAATAA-GAAGA
307235 AGAAATTCATAATAAGAAGA
1 AGAAATTCATAATAAGAAGA
307255 A
1 A
307256 TTTATTCAAC
Statistics
Matches: 29, Mismatches: 10, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
19 7 0.24
20 13 0.45
21 9 0.31
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.19
Consensus pattern (20 bp):
AGAAATTCATAATAAGAAGA
Found at i:307394 original size:112 final size:113
Alignment explanation
Indices: 307085--307721 Score: 1003
Period size: 112 Copynumber: 5.7 Consensus size: 113
307075 TACCAGGTCG
* *
307085 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
** * * * *
307150 AA-CTTTTGGCTTGAATTCATCATTCGATGGATCAACATTACCAGAGAA
66 AACCTTTT-GCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
* * * *
307198 AGTTCATAATAAGAAGAACTCATCTTAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTATTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
*
307263 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
*
307311 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* * *
307375 AACATTTTGCTCAAATCCATCACTGGATGGATCAGCATTTCTAGAGAA
66 AACCTTTTGCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
307423 AGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
*
307487 AACCTTTTGCTCAAATCCATCACTGGATGGATCAGCATTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
* * * *
307535 AATTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGCTCATAATGAGAAGAACCTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* **
307600 AACTTTTTGCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
*
307648 AGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
307712 AACCTTTTGC
66 AACCTTTTGC
307722 ATGACTCTAT
Statistics
Matches: 486, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
112 255 0.52
113 226 0.47
114 5 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (113 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACCTTTTGCTCAAATCCATCACTGGATGGATCAACATTTCCAGAGAA
Found at i:307439 original size:225 final size:224
Alignment explanation
Indices: 307085--307721 Score: 1051
Period size: 225 Copynumber: 2.8 Consensus size: 224
307075 TACCAGGTCG
307085 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
307150 AACTTTTGGCTTGAATTCATCATTCGATGGATCAACATTACCAGAGAAAGTTCATAATAAGAAGA
66 AACTTTT-GCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
* * * *
307215 ACTCATCTTAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTATTCAACCTTTTGCTCAAATC
130 ACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATC
*
307280 CATCACTTGATGGATCAACATTTCCAGAGAA
194 CATCACTGGATGGATCAACATTTCCAGAGAA
*
307311 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** * *
307375 AACATTTTGCTCAAATCCATCACTGGATGGATCAGCATTTCTAGAGAAAGTTCATAATAAGAAGA
66 AAC-TTTTGCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
307440 ACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCC
130 ACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCC
*
307505 ATCACTGGATGGATCAGCATTTCCAGAGAA
195 ATCACTGGATGGATCAACATTTCCAGAGAA
* * * *
307535 AATTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGCTCATAATGAGAAGAACCTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
307600 AACTTTTTGCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
66 AAC-TTTTGCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGA
*
307665 ACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
130 ACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGC
307722 ATGACTCTAT
Statistics
Matches: 383, Mismatches: 26, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
224 105 0.27
225 245 0.64
226 33 0.09
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (224 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTGCTTGAATCCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAA
CTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCA
TCACTGGATGGATCAACATTTCCAGAGAA
Found at i:307589 original size:24 final size:23
Alignment explanation
Indices: 307545--307590 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
307535 AATTCATAAT
*
307545 AAGAAGAACTCATCTGAAGAAGG
1 AAGAAGAACTCATATGAAGAAGG
307568 AAGAAGAAGCTCATAATG-AGAAG
1 AAGAAGAA-CTCAT-ATGAAGAAG
307591 AACCTGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 10 0.50
25 2 0.10
ACGTcount: A:0.50, C:0.11, G:0.26, T:0.13
Consensus pattern (23 bp):
AAGAAGAACTCATATGAAGAAGG
Found at i:307665 original size:337 final size:338
Alignment explanation
Indices: 307085--307721 Score: 1035
Period size: 337 Copynumber: 1.9 Consensus size: 338
307075 TACCAGGTCG
* *
307085 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
** * * *
307150 AACTTTTGGCTTGAATTCATCATTCGATGGATCAACATTACCAGAGAAAGTTCATAATAAGAAGA
66 AACTTTTGGCTCAAATCCATCACTCGATGGATCAACATTACCAGAGAAAATTCATAATAAGAAGA
* * **
307215 ACTCATCTTAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTATTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAACTCATAATAAGAAGAACCTATTCAACCTTTTGCTCAAATC
* *
307280 CATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
196 CATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAA
307345 GAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCAAATCCATCACTGGATGGATCAG
261 GAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCAAATCCATCACTGGATGGATCAG
307410 CATTTCTAGAGAA
326 CATTTCTAGAGAA
307423 AGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* * *
307487 AACCTTTT-GCTCAAATCCATCACTGGATGGATCAGCATTTCCAGAGAAAATTCATAATAAGAAG
66 AA-CTTTTGGCTCAAATCCATCACTCGATGGATCAACATTACCAGAGAAAATTCATAATAAGAAG
* * * * **
307551 AACTCATCTGAAGAAGGAAGAAGAAGCTCATAATGAGAAGAACCTGTTCAACTTTTTGCTTGAAT
130 AACTCATCTGAAGAAGGAAGAAGAAACTCATAATAAGAAGAACCTATTCAACCTTTTGCTCAAAT
307616 CCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGA
195 CCATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGA
* *
307681 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
260 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTGC
307722 ATGACTCTAT
Statistics
Matches: 274, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
337 241 0.88
338 33 0.12
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (338 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACTTTTGGCTCAAATCCATCACTCGATGGATCAACATTACCAGAGAAAATTCATAATAAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAACTCATAATAAGAAGAACCTATTCAACCTTTTGCTCAAATC
CATCACTGGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAA
GAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCAAATCCATCACTGGATGGATCAG
CATTTCTAGAGAA
Found at i:307851 original size:84 final size:83
Alignment explanation
Indices: 307689--307873 Score: 255
Period size: 84 Copynumber: 2.2 Consensus size: 83
307679 GAAGAAGAAG
* * *
307689 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATTAGCA
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCA
* *
307754 TACACTTTTCCAGAGAAAA
66 TACACATTGCCAGA-AAAA
* *
307773 TTCATAATAAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATCACAGAAGAAGATAGATCAGCA
1 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCA
***
307838 T-CAACATTGCCAGAAGTG
66 TAC-ACATTGCCAGAAAAA
307856 TTCATAATGAGAAGAACT
1 TTCATAATGAGAAGAACT
307874 CATCTGAAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 19 0.21
84 70 0.79
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (83 bp):
TTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATAGATCAGCA
TACACATTGCCAGAAAAA
Found at i:308144 original size:9 final size:9
Alignment explanation
Indices: 308130--308219 Score: 57
Period size: 9 Copynumber: 9.8 Consensus size: 9
308120 TATTTGGTTT
308130 TTTATTATA
1 TTTATTATA
308139 TTTATTATA
1 TTTATTATA
308148 TTTA-T-T-
1 TTTATTATA
308154 TTTATTACTA
1 TTTATTA-TA
308164 -TTATTATTA
1 TTTATTA-TA
308173 TTT-TTATTA
1 TTTATTA-TA
*
308182 TTAATATTATT
1 TT--TATTATA
308193 TTTATTATTAA
1 TTTATTA-T-A
308204 TATTATTAT-
1 T-TTATTATA
308213 TTTATTA
1 TTTATTA
308220 CAGATACAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 7 0.10
9 36 0.54
10 3 0.04
11 6 0.09
12 9 0.13
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTATTATA
Found at i:308151 original size:18 final size:18
Alignment explanation
Indices: 308130--308219 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 18
308120 TATTTGGTTT
308130 TTTATTATATTTATTA-TA
1 TTTATTAT-TTTATTATTA
* *
308148 TTTATTTTTATTACTATTA
1 TTTATTATT-TTATTATTA
308167 -TTATTATTTTTATTATTA
1 TTTATTA-TTTTATTATTA
*
308185 -ATATTATTTTTATTATTAA
1 TTTATTA-TTTTATTATT-A
308204 TATTATTATTTTATTA
1 T-TTATTATTTTATTA
308220 CAGATACAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
17 1 0.02
18 41 0.68
19 5 0.08
20 8 0.13
21 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTATTTTATTATTA
Found at i:308158 original size:21 final size:21
Alignment explanation
Indices: 308112--308218 Score: 80
Period size: 21 Copynumber: 5.1 Consensus size: 21
308102 ACACTAGTTT
**
308112 TTTTTATATATT-TGGTTTT-
1 TTTTTATATATTATTATTTTA
*
308131 TTATTATAT-TTATTATATTTA
1 TTTTTATATATTATTAT-TTTA
*
308152 TTTTTAT-TACTATTATTATTA
1 TTTTTATATATTATTATT-TTA
*
308173 TTTTTATTATTAATATTATTTTTA
1 TTTTTA-TA-TATTATTA-TTTTA
*
308197 TTATTA-ATATTATTATTTTA
1 TTTTTATATATTATTATTTTA
308217 TT
1 TT
308219 ACAGATACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.03
19 10 0.14
20 12 0.17
21 28 0.39
22 2 0.03
24 15 0.21
25 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTATATATTATTATTTTA
Found at i:311304 original size:20 final size:21
Alignment explanation
Indices: 311279--311317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
311269 GGCTACTGGA
311279 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
311299 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
311318 GACTGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:311315 original size:10 final size:9
Alignment explanation
Indices: 311280--311378 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
311270 GCTACTGGAA
*
311280 ACCGGTTTA
1 ACCGGTTTG
*
311289 ACCGGTTTTCA
1 ACCGG-TTT-G
311300 ACCGGTTCTG
1 ACCGGTT-TG
311310 ACCGGTTTG
1 ACCGGTTTG
*
311319 ACTGGTTTCG
1 ACCGGTTT-G
311329 ACCGGTTTG
1 ACCGGTTTG
311338 AACCGGTTTG
1 -ACCGGTTTG
*
311348 ACCGGTCTG
1 ACCGGTTTG
**
311357 AACCAATTTG
1 -ACCGGTTTG
*
311367 ACCGGTCTG
1 ACCGGTTTG
311376 ACC
1 ACC
311379 CGACCGACCG
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 32 0.43
10 35 0.47
11 7 0.09
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:311331 original size:19 final size:19
Alignment explanation
Indices: 311279--311372 Score: 100
Period size: 19 Copynumber: 4.8 Consensus size: 19
311269 GGCTACTGGA
* *
311279 AACCGGTTTAACCGGTTTTC
1 AACCGGTTTGACCGG-TTTG
311299 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTTTG
*
311319 -ACTGGTTTCGACCGGTTTG
1 AACCGGTTT-GACCGGTTTG
*
311338 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
**
311357 AACCAATTTGACCGGT
1 AACCGGTTTGACCGGT
311373 CTGACCCGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.02
19 39 0.61
20 18 0.28
21 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:311342 original size:29 final size:31
Alignment explanation
Indices: 311279--311353 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 31
311269 GGCTACTGGA
*
311279 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
* *
311310 -ACCGGTTTGACTGG-TTTCGACCGGTT-TG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
311338 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
311354 CTGAACCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 2 0.05
29 24 0.63
30 12 0.32
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:318579 original size:19 final size:20
Alignment explanation
Indices: 318567--318602 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
318557 CGGTTTTGAT
318567 CGGTTTGACCGG-TCTGAAC
1 CGGTTTGACCGGTTCTGAAC
318586 CGGTTTGACCGG-TCTGA
1 CGGTTTGACCGGTTCTGA
318603 CCCGACTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (20 bp):
CGGTTTGACCGGTTCTGAAC
Found at i:318603 original size:9 final size:9
Alignment explanation
Indices: 318567--318614 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
318557 CGGTTTTGAT
*
318567 CGGTTTGAC
1 CGGTCTGAC
318576 CGGTCTGAAC
1 CGGTCTG-AC
*
318586 CGGTTTGAC
1 CGGTCTGAC
318595 CGGTCTGAC
1 CGGTCTGAC
* *
318604 CCGACTGAC
1 CGGTCTGAC
318613 CG
1 CG
318615 ACCCGACCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (9 bp):
CGGTCTGAC
Found at i:318611 original size:28 final size:29
Alignment explanation
Indices: 318554--318611 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
318544 ACCGGTTTTC
* * * *
318554 AACCGGTTTTGATCGGTTTGACCGGTCTG
1 AACCGGTTTTGACCGGTCTGACCCGACTG
318583 AACCGG-TTTGACCGGTCTGACCCGACTG
1 AACCGGTTTTGACCGGTCTGACCCGACTG
318611 A
1 A
318612 CCGACCCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (29 bp):
AACCGGTTTTGACCGGTCTGACCCGACTG
Found at i:318614 original size:18 final size:18
Alignment explanation
Indices: 318572--318628 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
318562 TTGATCGGTT
* **
318572 TGACCGGTCTGAACCGGTT
1 TGACCGGTCTG-ACCCGAC
318591 TGACCGGTCTGACCCGAC
1 TGACCGGTCTGACCCGAC
** *
318609 TGACCGACCCGACCCGAC
1 TGACCGGTCTGACCCGAC
318627 TG
1 TG
318629 TTGACCCGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 21 0.66
19 11 0.34
ACGTcount: A:0.18, C:0.37, G:0.28, T:0.18
Consensus pattern (18 bp):
TGACCGGTCTGACCCGAC
Found at i:318637 original size:22 final size:22
Alignment explanation
Indices: 318612--318656 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
318602 ACCCGACTGA
*
318612 CCGACCCGACCCGACTGTTGAC
1 CCGACCCGACCCGACCGTTGAC
318634 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
318656 C
1 C
318657 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:328913 original size:191 final size:189
Alignment explanation
Indices: 328609--329038 Score: 551
Period size: 191 Copynumber: 2.3 Consensus size: 189
328599 TAAAAACACT
* * * ** * *
328609 ACTAAAGTACGAATAATTTACGTCATTTGTTACAAAAATACCGCTATATGTGAACCATATTGCGG
1 ACTAAAGTACGAATAATTTGCGACGTTTGTTACAAAAACGCCGCTATATGTGAACCATATTACGA
* *
328674 CATTCTTGTCAAAATGCCGCTAAAGTACTAATTTGTTGCTGAGTTTATTAAAAAACGCCCCTATA
66 CATTCTTGTCAAAACGCCGCTAAAGTACTAATCTGTTGCTGAGTTTATTAAAAAACGCCCCTATA
*
328739 TGTCTAAAGATAATGGCATTTAAATAAAAAAACATCTGCGGCGTTTTTTGTCAAAACGCC
131 TGTCTAAAGATAATGGCATTTAAAT-AAAAAACATCTGCGGCATTTTTTGTCAAAACGCC
* ** * * * *
328799 ACTAATGATTTGAATAATTTGCGACGTTTGTTACCAAAACGCCGCTATATGTTAACCCTCTTACG
1 ACTAAAG-TACGAATAATTTGCGACGTTTGTTACAAAAACGCCGCTATATGTGAACCATATTACG
* * ** * *
328864 ACGTTTTTGTCAAAACGCCGCTGTAGTACTAATCTGTTG-TGGCGTTTATTAAAAAACGCCGCTA
65 ACATTCTTGTCAAAACGCCGCTAAAGTACTAATCTGTTGCT-GAGTTTATTAAAAAACGCCCCTA
* * *
328928 TATGTCTAAAGTTAATGGCGTTTAAATAAAAAACATTTGCGGCATTTTTTGTCAAAACGCC
129 TATGTCTAAAGATAATGGCATTTAAATAAAAAACATCTGCGGCATTTTTTGTCAAAACGCC
* *
328989 ACTAAAGTACGAATTATTTGCGGCGTTATG-T-CAAAAACGCCGCTATATGT
1 ACTAAAGTACGAATAATTTGCGACGTT-TGTTACAAAAACGCCGCTATATGT
329039 CTAAAGTTAG
Statistics
Matches: 205, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
188 18 0.09
189 17 0.08
190 47 0.23
191 123 0.60
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (189 bp):
ACTAAAGTACGAATAATTTGCGACGTTTGTTACAAAAACGCCGCTATATGTGAACCATATTACGA
CATTCTTGTCAAAACGCCGCTAAAGTACTAATCTGTTGCTGAGTTTATTAAAAAACGCCCCTATA
TGTCTAAAGATAATGGCATTTAAATAAAAAACATCTGCGGCATTTTTTGTCAAAACGCC
Found at i:332651 original size:21 final size:21
Alignment explanation
Indices: 332625--332683 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
332615 ATTTACCGTG
*
332625 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGAGCT
** *
332646 ATTGCGATCGTCGCGGAAGCT
1 ATTGCGGCCGTCGCGGGAGCT
332667 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
332684 TAACTCGGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.41, T:0.20
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGAGCT
Found at i:334902 original size:20 final size:20
Alignment explanation
Indices: 334877--334915 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
334867 AGATGAGGGG
334877 TGAATG-TGGTGAAGATGGGA
1 TGAATGATGGTGAAG-TGGGA
*
334897 TGAATGATTGTGAAGTGGG
1 TGAATGATGGTGAAGTGGG
334916 TGGAAGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (20 bp):
TGAATGATGGTGAAGTGGGA
Found at i:339646 original size:3 final size:3
Alignment explanation
Indices: 339638--339693 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
339628 AATTATTTTT
*
339638 TAA TAA TAA TAA T-A TATA TAA T-A TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
339682 TAA TAA TAA TAA
1 TAA TAA TAA TAA
339694 AATGAGTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:340108 original size:124 final size:112
Alignment explanation
Indices: 339952--340674 Score: 459
Period size: 113 Copynumber: 6.3 Consensus size: 112
339942 TTGTGAACTT
* * * *
339952 CTTCTTCAGATGAGTTCTTCTCATTGTGAACTCTTTCTGGAAATGTTGATGATGATATATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCT-GAAAAGTTGAT-AT-ATAGA-CT-CA
**
340017 TTTATGATAGAGTCATGTAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
61 TGAAT--TAGAG-C--G-AAAA-GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * * * *
340076 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGAAAAGTTGATCTATCGAGTGATGAAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGAAAAGTTGATATATAGACTCATGAAT
* * *
340141 TCGAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
66 TAGAGCGAAAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * ** * * ** * *
340188 CTTTTTCAAATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCCATCA-AATGAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTT--CT-GAAAAGTTGATATAT-AGACTCAT
* * * ** *
340252 GAATTCA-AAC-AACAGGTTGAACAAATTCTTTTCATTATGAACTTCTTCTTC
62 GAATT-AGAGCGAA-AAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * * ** * *
340303 CTTCTTCAGATGAATTCTTCTCATTATGAACTTTTTCTGGAGAAA-CTGATCCATCA-AATGATG
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCT-GA-AAAGTTGATATAT-AGACTCATG
* * * ** *
340366 GATTTGAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
63 AATTAGAGCGAAAA-GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * *** * *
340416 CTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGCAAA-TCTAACCCATCA-AGTGAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCT-GAAAAGT-TGATATAT-AGACTCAT
* * * ** *
340478 GGATTTGAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
62 GAATTAGAGCGAAAA-GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * * ** * *
340529 CTTCTTCAGATGAGTTCTTCTTATTATGAACT-TTCTCTGGCAAAGCTGATCCATCA-AATGATG
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCT-GAAAAGTTGATATAT-AGACTCATG
* * *
340592 AATTCA-AGC-AAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-
63 AATT-AGAGCGAAAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
340640 CTCTCTTCAGATGAGTTCTTCTCATTATGAACTCT
1 CT-TCTTCAGATGAGTTCTTCTCATTATGAACTCT
340675 AACTGACACT
Statistics
Matches: 525, Mismatches: 59, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
111 2 0.00
112 134 0.26
113 235 0.45
114 6 0.01
115 89 0.17
116 1 0.00
117 4 0.01
119 3 0.01
120 1 0.00
121 3 0.01
122 1 0.00
123 10 0.02
124 36 0.07
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (112 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGAAAAGTTGATATATAGACTCATGAAT
TAGAGCGAAAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
Found at i:340401 original size:113 final size:112
Alignment explanation
Indices: 340035--340672 Score: 843
Period size: 113 Copynumber: 5.7 Consensus size: 112
340025 AGAGTCATGT
* **
340035 AAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
340100 TATGAACTCTCTCT-GAAAAGTTGATCTATCGAGTGATGAATTCGAGC
66 TATGAACTTTCTCTGGAAAA-CTGATCCATCAAATGATGAATTCGAGC
* * *
340147 GAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAAATGAGTTCTTCTCA
1 -AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** * *
340211 TTATGAACTCTTTCACTGGGGATGCTGATCCATCAAATGATGAATTCAAAC
65 TTATGAA--CTTTCTCT-GGAAAACTGATCCATCAAATGATGAATTCGAGC
* * *
340262 AACAGGTTGAACAAATTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
340327 TATGAACTTTTTCTGGAGAAACTGATCCATCAAATGATGGATTTGAGC
66 TATGAACTTTCTCTGGA-AAACTGATCCATCAAATGATGAATTCGAGC
*
340375 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
340440 TATGAACTTTCTCTGGCAAATCTAACCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTCTCTGG-AAAACTGATCCATCAAATGATGAATTCGAGC
* *
340488 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
340553 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGC
66 TATGAACTTTCTCTGG-AAAACTGATCCATCAAATGATGAATTCGAGC
* *
340601 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAGATGAGTTCTTCTCA
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT-TCTTCAGATGAGTTCTTCTCA
340664 TTATGAACT
65 TTATGAACT
340673 CTAACTGACA
Statistics
Matches: 466, Mismatches: 51, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
111 2 0.00
112 125 0.27
113 245 0.53
114 10 0.02
115 82 0.18
116 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (112 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAACTGATCCATCAAATGATGAATTCGAGC
Found at i:341777 original size:83 final size:83
Alignment explanation
Indices: 341638--342108 Score: 852
Period size: 83 Copynumber: 5.7 Consensus size: 83
341628 TTAGGGTTCA
*
341638 TACCAAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
341703 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
341721 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
341786 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
*
341804 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
341869 AAATTCAATGATTGATTT
66 AAATTCAATGATTGGTTT
*
341887 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
341952 AAATTCAATAATTGGTTC
66 AAATTCAATGATTGGTTT
* *
341970 TGCCAAACCAGATCAGATAACTCACAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
342035 AAATTCAATGATTGGTTT
66 AAATTCAATGATTGGTTT
* *
342053 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
342109 GGAATTTATT
Statistics
Matches: 371, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 371 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATGATTGGTTT
Found at i:341912 original size:166 final size:166
Alignment explanation
Indices: 341545--342108 Score: 912
Period size: 166 Copynumber: 3.3 Consensus size: 166
341535 TGTGGTTTCA
* * *
341545 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
341610 AAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACATTTCCA
66 AAATTCAAT-A------ATT--GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
341675 GAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
121 GAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
341721 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* * *
341786 AAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTA
66 AAATTCAATAATTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
*
341851 TGAGCACATTCATCTTTCAAATTCAATGATTGATTT
131 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
*
341887 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
341952 AAATTCAATAATTGGTTCTGCCAAACCAGATCAGATAACTCACAGAACACTTCCAGAAGATGCTA
66 AAATTCAATAATTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
342017 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
131 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
* *
342053 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
342109 GGAATTTATT
Statistics
Matches: 369, Mismatches: 19, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
166 292 0.79
167 4 0.01
169 2 0.01
176 71 0.19
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (166 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAATTGGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
TGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
Found at i:341993 original size:249 final size:253
Alignment explanation
Indices: 341545--342108 Score: 947
Period size: 249 Copynumber: 2.2 Consensus size: 253
341535 TGTGGTTTCA
341545 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCATCTTCC
*
341610 AAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACATTTCCA
66 AAATTCAATGATTGG----TA--GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
* * *
341675 GAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATA
125 GAAGATACTATGAGCACATTCATCTTTCAAATTCAATAATTGGTTCTACCAAACCAGATCAGATA
341740 ACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
190 ACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
* *
341804 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCATCTTCC
*
341869 AAATTCAATGATT-G-A-TT-TTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
66 AAATTCAATGATTGGTAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
* *
341930 ACTATGAGCACATTCATCTTTCAAATTCAATAATTGGTTCTGCCAAACCAGATCAGATAACTCAC
131 ACTATGAGCACATTCATCTTTCAAATTCAATAATTGGTTCTACCAAACCAGATCAGATAACTCAA
341995 AGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
196 AGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
* *
342053 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACAT
342109 GGAATTTATT
Statistics
Matches: 293, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
249 213 0.73
250 2 0.01
253 1 0.00
258 1 0.00
259 76 0.26
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (253 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCATCTTCC
AAATTCAATGATTGGTAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
ACTATGAGCACATTCATCTTTCAAATTCAATAATTGGTTCTACCAAACCAGATCAGATAACTCAA
AGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTT
Found at i:347058 original size:18 final size:19
Alignment explanation
Indices: 347032--347068 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
347022 ATTTATGAAA
*
347032 TAAATAAATGTAAA-AATG
1 TAAAAAAATGTAAAGAATG
347050 TAAAAAAATGTAAAGAATG
1 TAAAAAAATGTAAAGAATG
347069 ATTGCCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TAAAAAAATGTAAAGAATG
Found at i:350842 original size:15 final size:15
Alignment explanation
Indices: 350819--350850 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
350809 TGAAATGAAT
350819 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
350834 AATGCATGTATGCAA
1 AATGAATGTATGCAA
350849 AA
1 AA
350851 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:356305 original size:3 final size:3
Alignment explanation
Indices: 356297--356350 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
356287 TAATTATTTT
356297 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
356345 TAA TAA
1 TAA TAA
356351 AATGAGTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:358283 original size:34 final size:29
Alignment explanation
Indices: 358245--358330 Score: 70
Period size: 34 Copynumber: 2.8 Consensus size: 29
358235 TAATATTATC
358245 TTTTAATTTGAAATATTCAAAAGATATCGATACA
1 TTTTAATTTGAAATATTCAAAAGATAT---T--A
358279 TTTTACTATTTG-AAT-TT-AAATAGATATTA
1 TTTTA--ATTTGAAATATTCAAA-AGATATTA
*
358308 TTTTAATTTAAAATATTCAAAAG
1 TTTTAATTTGAAATATTCAAAAG
358331 TAAATAATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
27 4 0.09
28 3 0.07
29 10 0.22
30 3 0.07
31 1 0.02
33 3 0.07
34 13 0.29
35 3 0.07
36 5 0.11
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTAATTTGAAATATTCAAAAGATATTA
Found at i:360467 original size:27 final size:25
Alignment explanation
Indices: 360437--360579 Score: 80
Period size: 27 Copynumber: 5.3 Consensus size: 25
360427 TCTTGAACCC
*
360437 CTTTCTTTTCTTTTTCTCTCTTTTTTT
1 CTTT-TTTTCATTTTCT-TCTTTTTTT
*
360464 CTTTTATTCCCATTTTCTTCTTCTTCTTT
1 CTTTT-TT-TCATTTTCTTCTT-TT-TTT
360493 -TTTCTTATT-ATTTTCTTCTTCTTTTT
1 CTTT-TT-TTCATTTTCTTCTT-TTTTT
*
360519 CTTTTTATTTCTTTTCTCATTCTTTTTATT
1 C-TTTT-TTTCATTT-TC-TTCTTTTT-TT
*
360549 -TCTTTTTTC-TTTTTTTC-TTTTTT
1 CT-TTTTTTCATTTTCTTCTTTTTTT
360572 CTTTTTTT
1 CTTTTTTT
360580 TCCTTTTCAT
Statistics
Matches: 96, Mismatches: 5, Indels: 34
0.71 0.04 0.25
Matches are distributed among these distances:
23 8 0.08
24 5 0.05
25 3 0.03
26 5 0.05
27 30 0.31
28 25 0.26
29 13 0.14
30 7 0.07
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (25 bp):
CTTTTTTTCATTTTCTTCTTTTTTT
Found at i:360513 original size:24 final size:23
Alignment explanation
Indices: 360481--360563 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 23
360471 TCCCATTTTC
360481 TTCTTCTTCTTTTTTCTTATTATT
1 TTCTTCTTCTTTTTTCTTATTA-T
*
360505 TTCTTCTTC-TTTTTCTTTTTAT
1 TTCTTCTTCTTTTTTCTTATTAT
** *
360527 TTCTT-TTC-TCATTCTTTTTAT
1 TTCTTCTTCTTTTTTCTTATTAT
*
360548 TTCTTTTTTCTTTTTT
1 TTC-TTCTTCTTTTTT
360564 TCTTTTTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.33
22 8 0.16
23 14 0.27
24 12 0.24
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTCTTCTTTTTTCTTATTAT
Found at i:360515 original size:33 final size:31
Alignment explanation
Indices: 360438--360533 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 31
360428 CTTGAACCCC
360438 TTTCTTTTCTTTTTCTCTCTTTTTTTCTTTTAT
1 TTTCTTTTCTTTTTCT-TC-TTTTTTCTTTTAT
** *
360471 TCCCATTTTCTTCTTCTTCTTTTTTCTTATTAT
1 TTTC-TTTTCTTTTTCTTCTTTTTTCTT-TTAT
360504 TTTCTTCTTCTTTTTCTT-TTTATTTCTTTT
1 TTTCTT-TTCTTTTTCTTCTTT-TTTCTTTT
360534 CTCATTCTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
32 16 0.30
33 26 0.49
34 11 0.21
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTCTTTTCTTTTTCTTCTTTTTTCTTTTAT
Found at i:360531 original size:10 final size:10
Alignment explanation
Indices: 360484--360586 Score: 59
Period size: 11 Copynumber: 9.7 Consensus size: 10
360474 CATTTTCTTC
360484 TTCTTCTTT-T
1 TTCTT-TTTAT
*
360494 TTCTTATTATT
1 TTCTTTTTA-T
*
360505 TTCTTCTTCTTT
1 TTCTT-TT-TAT
360517 TTCTTTTTAT
1 TTCTTTTTAT
360527 TTCTTTTCTCA-
1 TTCTTTT-T-AT
360538 TTCTTTTTAT
1 TTCTTTTTAT
*
360548 TTCTTTTTTCT
1 TTC-TTTTTAT
* *
360559 TTTTTTCTTTT
1 TTCTTT-TTAT
360570 TTCTTTTT-T
1 TTCTTTTTAT
360579 TTCCTTTT
1 TT-CTTTT
360587 CATCTTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
9 6 0.08
10 28 0.37
11 32 0.43
12 8 0.11
13 1 0.01
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTAT
Found at i:360559 original size:44 final size:43
Alignment explanation
Indices: 360494--360576 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
360484 TTCTTCTTTT
360494 TTCTTATTATTTTCTTCTTCTTTTTCTT-TTTATTTCTTTTCTCA
1 TTCTTATTATTTTCTTCTTCTTTTT-TTCTTT-TTTCTTTTCTCA
* *
360538 TTCTTTTTA-TTTCTTTTTTCTTTTTTTCTTTTTTCTTTT
1 TTCTTATTATTTTC-TTCTTCTTTTTTTCTTTTTTCTTTT
360577 TTTTCCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 14 0.40
44 21 0.60
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (43 bp):
TTCTTATTATTTTCTTCTTCTTTTTTTCTTTTTTCTTTTCTCA
Found at i:360577 original size:16 final size:16
Alignment explanation
Indices: 360437--360586 Score: 85
Period size: 16 Copynumber: 8.9 Consensus size: 16
360427 TCTTGAACCC
*
360437 CTTTCTTTTCTTTTTCT
1 CTTTTTTTTCTTTTT-T
360454 CTCTTTTTTTCTTTTATT
1 CT-TTTTTTTCTTTT-TT
*** *
360472 C-CCATTTTC-TTCTT
1 CTTTTTTTTCTTTTTT
360486 CTTCTTTTTTCTTATTATT
1 CTT-TTTTTTCTT-TT-TT
* *
360505 -TTCTTCTTC-TTTTT
1 CTTTTTTTTCTTTTTT
360519 CTTTTTATTTCTTTTCTCATT
1 CTTTTT-TTTC-TTT-T--TT
360540 CTTTTTATTTCTTTTTT
1 CTTTTT-TTTCTTTTTT
360557 C-TTTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
360572 CTTTTTTTTCCTTTT
1 CTTTTTTTT-CTTTT
360587 CATCTTCAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
14 5 0.05
15 19 0.18
16 25 0.24
17 16 0.15
18 18 0.17
19 5 0.05
20 3 0.03
21 13 0.12
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:364315 original size:37 final size:37
Alignment explanation
Indices: 364254--364357 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
364244 CTTTTCGTCC
* * * *
364254 TACTAGAATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
* *
364291 TGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
* * *
364328 TACTATGCTTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
364358 CCGCAAGCAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTA
Found at i:365059 original size:12 final size:11
Alignment explanation
Indices: 365037--365081 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
365027 TCTTTCTTTT
365037 TATTATTCTTG
1 TATTATTCTTG
365048 TATTATTACTTG
1 TATTATT-CTTG
* *
365060 TATTATTTTTA
1 TATTATTCTTG
365071 TATTATT-TTG
1 TATTATTCTTG
365081 T
1 T
365082 TATATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 3 0.10
11 16 0.53
12 11 0.37
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:365089 original size:2 final size:2
Alignment explanation
Indices: 365082--365130 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
365072 ATTATTTTGT
365082 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
365124 TA TA TA T
1 TA TA TA T
365131 GCGTATGTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:365242 original size:11 final size:11
Alignment explanation
Indices: 365228--365261 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
365218 ATTATACATA
365228 TATTTTTCTAT
1 TATTTTTCTAT
365239 TATTTTTCTA-
1 TATTTTTCTAT
365249 TATTTTT-TAT
1 TATTTTTCTAT
365259 TAT
1 TAT
365262 CATTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 10 0.45
11 10 0.45
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTTCTAT
Found at i:365252 original size:10 final size:10
Alignment explanation
Indices: 365226--365255 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
365216 ATATTATACA
365226 TATATTTTTC
1 TATATTTTTC
365236 TATTATTTTTC
1 TA-TATTTTTC
365247 TATATTTTT
1 TATATTTTT
365256 TATTATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (10 bp):
TATATTTTTC
Found at i:365326 original size:2 final size:2
Alignment explanation
Indices: 365321--365351 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
365311 ATTTTACTAT
365321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
365352 CTACACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:365513 original size:2 final size:2
Alignment explanation
Indices: 365506--365550 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
365496 GTATTGTTAC
365506 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
365548 TA T
1 TA T
365551 CTTTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:367265 original size:106 final size:106
Alignment explanation
Indices: 367078--367731 Score: 840
Period size: 106 Copynumber: 6.2 Consensus size: 106
367068 GTCCTAAATA
* * *
367078 TTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTTAACTTCACGACGAAGGGACCACTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
367143 TTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAAC
66 TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* *
367184 TTCACAGCGAAGGATATAGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
367249 TTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAAC
66 TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* *
367290 TTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * *
367355 TTGTCAATAAACAATTTCCCAATTTTAGAGCCAATTTCAAG
66 TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* *
367396 TTCACAGCGTAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
367461 TTGTCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAAC
66 TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* * * * * * * * * *
367502 TTCTCAACAAAGGATCTTGAAC-CCAAGGCAACACAAGCTCAACTTCACGATGAAGAGG-CGGCT
1 TTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCT
* * *
367565 GATTGTCAAT-AA-AA-TT-TC-A-TTCAGAGTCAATTTCAAC
64 GGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
* * * * * *
367602 TTCACATCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGG
1 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * * *
367667 TTATCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAAC
66 TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
*
367708 TTCAC-GACGGAGGATATTGGACTC
1 TTCACAG-CGAAGGATATTGGACTC
367732 AGAACAATGC
Statistics
Matches: 478, Mismatches: 59, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
99 2 0.00
100 73 0.15
101 4 0.01
102 2 0.00
103 4 0.01
104 3 0.01
105 3 0.01
106 385 0.81
107 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
TTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
Found at i:368524 original size:37 final size:37
Alignment explanation
Indices: 368463--368566 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
368453 CTTTTCGTCT
* * *
368463 TACTAGAATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* *
368500 TGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTC
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
* *
368537 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
368567 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTC
Found at i:369146 original size:24 final size:23
Alignment explanation
Indices: 369119--369225 Score: 95
Period size: 24 Copynumber: 4.9 Consensus size: 23
369109 CTTTGCATTT
369119 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTA-TA
* *
369143 TTATTTTTACTATTATATTT-TC
1 TTATTATTACTATTATATTTATA
*
369165 TT-TTATT-CTACT-TATTTATA
1 TTATTATTACTATTATATTTATA
369185 TTATATATGTA-TATT-T-TTTATA
1 TTAT-TAT-TACTATTATATTTATA
*
369207 TT-TTATTATTATTATATTT
1 TTATTATTACTATTATATTT
369226 TTTACTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
19 7 0.10
20 14 0.20
21 7 0.10
22 17 0.25
23 5 0.07
24 19 0.28
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (23 bp):
TTATTATTACTATTATATTTATA
Found at i:369151 original size:30 final size:29
Alignment explanation
Indices: 369115--369224 Score: 89
Period size: 30 Copynumber: 3.6 Consensus size: 29
369105 TTTTCTTTGC
369115 ATTTTTATTATTACTATTATATTTATTATT
1 ATTTTTATTATTA-TATTATATTTATTATT
* * *
369145 ATTTTTACTATTATATTTTCTTTTATTCTACTT
1 ATTTTTATTATTATATTAT-ATTTA-T-TA-TT
* *
369178 ATTTATATTA-TATATGTATATTTTTTA-T
1 ATTTTTATTATTATAT-TATATTTATTATT
369206 ATTTTATTATTATTATATT
1 A-TTT-TTATTATTATATT
369225 TTTTACTTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
28 2 0.03
29 8 0.13
30 24 0.38
31 7 0.11
32 10 0.16
33 12 0.19
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (29 bp):
ATTTTTATTATTATATTATATTTATTATT
Found at i:369171 original size:15 final size:15
Alignment explanation
Indices: 369122--369226 Score: 65
Period size: 15 Copynumber: 6.8 Consensus size: 15
369112 TGCATTTTTA
*
369122 TTATTACTATTATA-T
1 TTATTA-TATTTTATT
*
369137 TTATTATTATTTT-TA
1 TTATTA-TATTTTATT
* *
369152 CTATTATATTTTCTT
1 TTATTATATTTTATT
* *
369167 TTATTCTA-CTTATT
1 TTATTATATTTTATT
369181 TATATTATATATGTATATT
1 T-TATTATAT-T-T-TATT
369200 TT-TTATATTTTATT
1 TTATTATATTTTATT
369214 ATTATTATATTTT
1 -TTATTATATTTT
369227 TTACTTTCTC
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
14 15 0.21
15 32 0.46
16 10 0.14
17 6 0.09
18 2 0.03
19 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.67
Consensus pattern (15 bp):
TTATTATATTTTATT
Found at i:369846 original size:13 final size:12
Alignment explanation
Indices: 369825--369896 Score: 56
Period size: 13 Copynumber: 5.7 Consensus size: 12
369815 GTTATTATTA
369825 TTTTGTTTATTTG
1 TTTT-TTTATTTG
369838 TTTTATTTATTT-
1 TTTT-TTTATTTG
*
369850 TCTTTTTCTATTTC
1 T-TTTTT-TATTTG
* *
369864 TTTTTTATATATA
1 TTTTTT-TATTTG
*
369877 TTTTATTATTTG
1 TTTTTTTATTTG
369889 TTTTTTTA
1 TTTTTTTA
369897 CTTACTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
12 14 0.29
13 33 0.69
14 1 0.02
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTTTATTTG
Found at i:374530 original size:25 final size:26
Alignment explanation
Indices: 374502--374567 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
374492 CAAAAAGGGG
374502 AAAAACAAAAAAGAAAAG-AAGAAAA
1 AAAAACAAAAAAGAAAAGAAAGAAAA
* *
374527 AAAAATAAAAAA-AAAAGAAAGAACA
1 AAAAACAAAAAAGAAAAGAAAGAAAA
*
374552 AAAATC-AAAAAGAAAA
1 AAAAACAAAAAAGAAAA
374568 AGGGACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 10 0.29
25 25 0.71
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (26 bp):
AAAAACAAAAAAGAAAAGAAAGAAAA
Found at i:374536 original size:24 final size:25
Alignment explanation
Indices: 374509--374567 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
374499 GGGAAAAACA
374509 AAAAAGAAAAG-AAGAAAAAAAAAT-
1 AAAAAGAAAAGAAAG-AAAAAAAATC
* *
374533 AAAAAAAAAAGAAAGAACAAAAATC
1 AAAAAGAAAAGAAAGAAAAAAAATC
374558 AAAAAGAAAA
1 AAAAAGAAAA
374568 AGGGACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.03
Consensus pattern (25 bp):
AAAAAGAAAAGAAAGAAAAAAAATC
Found at i:375244 original size:22 final size:22
Alignment explanation
Indices: 375170--375246 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
375160 GCTACCCCAT
*
375170 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
* *
375192 CAAACCTATGAGCATCACATGC
1 CAAACCTTTGAGCATCAAATGC
375214 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
375236 CAAACCTTTGA
1 CAAACCTTTGA
375247 CCAAACATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:376278 original size:106 final size:106
Alignment explanation
Indices: 376037--377549 Score: 1976
Period size: 106 Copynumber: 14.3 Consensus size: 106
376027 CAAACATCCA
* * * * * * **
376037 CAATTTCAAATCCACGACGAATGATATTGTGCCACTCAAGACAACACAAGTTCAACTTCATAACG
1 CAATTTCAACTTCACAACGAAGGATATTG-G--ACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * * * *
376102 AAGGGACGGCTGGTTGTCAA-CAATAATTTTCTAATTTCGGAGC
63 AAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * *
376145 CAATTTCAACTTCACAGCGAAGGATATTAGACTCCAGACAACGCATGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
376210 GGACCGCTGGTAGTCAATAAACAATTTCCCAATTTCAGATC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
*
376251 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* **
376316 GGACCGTTGGTTGTCAATAAACAACTTT-ATAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAA-TTTCCCAATTTCAGAGC
** *
376357 CAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
376422 AGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
*
376463 CAATTTCAACTTCATAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
376528 GGACCACTGGTTATCAATAAACAACTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * * * *
376569 CAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCCACATCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
376634 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * *
376675 TAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACAAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
376740 GGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* *
376781 TAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
376846 GGACCGCTGGTTGTCAACAAATAA-TTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * * * * *
376886 CAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAATGCAAATTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
376951 GGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGT
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* *
376992 CAATTTCAACTTCACATCGAAGGATATAGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
377057 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* *
377098 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAATGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
377163 GGATCACTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
66 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
*
377204 CAATTTCAACTTCACAAC-ATAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAA
1 CAATTTCAACTTCACAACGA-AGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
377268 GGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCATAGC
65 GGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * * * * * *
377310 CAATTTCAACTTCTCAATGAAGGATCTTGAAC-CCAAGGCAACACAAGCTCAACTTCACGACGAA
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAA
* * * *
377374 GAGG-CGGCTGATTGTCAAT-AA-AATTT--C-A-TTCAAAGT
65 G-GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
* * * * *
377410 CAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
377475 GGA-CGACTGGTTGTCAACAAATAATTTCCC--TGTTCGAGAGC
66 GGACCG-CTGGTTGTCAATAAACAATTTCCCAAT-TTC-AGAGC
* **
377516 CAATTTCAACTTCACGACGGGGGATATTGGACTC
1 CAATTTCAACTTCACAACGAAGGATATTGGACTC
377550 AGAACAATGC
Statistics
Matches: 1244, Mismatches: 143, Indels: 38
0.87 0.10 0.03
Matches are distributed among these distances:
99 3 0.00
100 69 0.06
101 4 0.00
102 6 0.00
104 5 0.00
105 150 0.12
106 977 0.79
107 7 0.01
108 23 0.02
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGC
Found at i:378225 original size:37 final size:37
Alignment explanation
Indices: 378165--378267 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
378155 TTTTCGTCCG
* * *
378165 ACTAGAATTCAAACTCCTAAAAATAGGATAGAATTTT
1 ACTAGGATTTAAACTCCTAAAAATAGGATAGAATTCT
* *
378202 GCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTCT
1 ACTAGGATTTAAACTCCTAAAAATAGGATAGAATTCT
* *
378239 ACTATGATTTAAACTCCTAAAGATAGGAT
1 ACTAGGATTTAAACTCCTAAAAATAGGAT
378268 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
ACTAGGATTTAAACTCCTAAAAATAGGATAGAATTCT
Found at i:378896 original size:13 final size:13
Alignment explanation
Indices: 378880--378921 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
378870 TCTACTTATT
378880 TATATTATATATG
1 TATATTATATATG
*
378893 TATATTTTATATG
1 TATATTATATATG
378906 T-TATTAT-TAT-
1 TATATTATATATG
378916 TATATT
1 TATATT
378922 TTTACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 1 0.04
11 7 0.27
12 5 0.19
13 13 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (13 bp):
TATATTATATATG
Found at i:378957 original size:12 final size:12
Alignment explanation
Indices: 378940--378979 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
378930 CTCTTTCTTT
378940 TTATTATTTGTA
1 TTATTATTTGTA
*
378952 TTATTACTTGTA
1 TTATTATTTGTA
*
378964 TTATT-TTTATA
1 TTATTATTTGTA
378975 TTATT
1 TTATT
378980 TTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTATTTGTA
Found at i:378988 original size:2 final size:2
Alignment explanation
Indices: 378981--379005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
378971 TATATTATTT
378981 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
379006 GCGTATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:379115 original size:32 final size:29
Alignment explanation
Indices: 379078--379156 Score: 79
Period size: 32 Copynumber: 2.6 Consensus size: 29
379068 TTTTAAGTGC
379078 TATTTTTATAATATTATACATATATTT-TTCT
1 TATTTTTAT-ATATTATA-ATATATTTATT-T
*
379109 ATATTTTTATTATCATTATATTATATTTATTT
1 -TATTTTTA-TAT-ATTATAATATATTTATTT
*
379141 TCTTTTTATATATTAT
1 TATTTTTATATATTAT
379157 TGTTGTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 5 0.12
30 3 0.07
31 7 0.17
32 18 0.43
33 9 0.21
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (29 bp):
TATTTTTATATATTATAATATATTTATTT
Found at i:379157 original size:22 final size:22
Alignment explanation
Indices: 379080--379157 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 22
379070 TTAAGTGCTA
** *
379080 TTTTTATAATATTATACA-TATA
1 TTTTTAT-ATATTATTTATTATC
*
379102 TTTTTCTATATT-TTTATTATC
1 TTTTTATATATTATTTATTATC
* * *
379123 ATTATAT-TA-TATTTATTTTC
1 TTTTTATATATTATTTATTATC
379143 TTTTTATATATTATT
1 TTTTTATATATTATT
379158 GTTGTTATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 1 0.02
20 17 0.40
21 14 0.33
22 10 0.24
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTATATATTATTTATTATC
Found at i:379190 original size:2 final size:2
Alignment explanation
Indices: 379183--379217 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
379173 TTACTATTAT
379183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
379218 CTACACAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:379543 original size:13 final size:12
Alignment explanation
Indices: 379516--379586 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
379506 TACTTTGTTA
* *
379516 TTATTATTTTGT
1 TTATTTTTTTAT
379528 TTATTTGTTTTAT
1 TTATTT-TTTTAT
*
379541 TTATTTTCTT-T
1 TTATTTTTTTAT
*
379552 TTCTTTTTTATAT
1 TTATTTTTT-TAT
*
379565 ATATTTTTTTAT
1 TTATTTTTTTAT
*
379577 TTGTTTTTTT
1 TTATTTTTTT
379587 TACTTACTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
11 8 0.17
12 20 0.43
13 19 0.40
ACGTcount: A:0.14, C:0.03, G:0.04, T:0.79
Consensus pattern (12 bp):
TTATTTTTTTAT
Found at i:379544 original size:22 final size:21
Alignment explanation
Indices: 379509--379588 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 21
379499 TTATTCATAC
379509 TTTGTTATTA-TTATTTTGTTTA
1 TTTGTT-TTATTTATTTT-TTTA
379531 TTTGTTTTATTTATTTTCTTT-
1 TTTGTTTTATTTATTTT-TTTA
*
379552 TTCTTTTTTATATATATTTTTTTA
1 TT-TGTTTTAT-T-TATTTTTTTA
*
379576 TTTGTTTTTTTTA
1 TTTGTTTTATTTA
379589 CTTACTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 7 0.14
22 24 0.49
23 10 0.20
24 8 0.16
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTGTTTTATTTATTTTTTTA
Found at i:383783 original size:24 final size:23
Alignment explanation
Indices: 383756--383800 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
383746 GGGAAGATTT
383756 AGGTTAAGGTTCTGTATTGGGCTC
1 AGGTTAAGGTTCTGT-TTGGGCTC
* *
383780 AGGTTTAGGTTTTGTTTGGGC
1 AGGTTAAGGTTCTGTTTGGGC
383801 CTGGTTCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.13, C:0.09, G:0.36, T:0.42
Consensus pattern (23 bp):
AGGTTAAGGTTCTGTTTGGGCTC
Found at i:384408 original size:21 final size:21
Alignment explanation
Indices: 384384--384423 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
384374 TTGATTTTCC
384384 GGAAAATGAATTACTGGAACT
1 GGAAAATGAATTACTGGAACT
384405 GGAAAATGAATTACTGGAA
1 GGAAAATGAATTACTGGAA
384424 TTTGAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.23
Consensus pattern (21 bp):
GGAAAATGAATTACTGGAACT
Found at i:384444 original size:13 final size:15
Alignment explanation
Indices: 384402--384445 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
384392 AATTACTGGA
384402 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
384417 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
384432 -CT-GAAAATGAATT
1 ACTGGAAAATGAATT
384445 A
1 A
384446 TATTTCTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 13 0.54
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:384652 original size:22 final size:22
Alignment explanation
Indices: 384570--384652 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 22
384560 AGTTTTTTAA
384570 AAAATATTTA-TTACAAATATT
1 AAAATATTTATTTACAAATATT
384591 -AAATAATATTATTTATCATAATACTT
1 AAAAT-AT-TTATTTA-CA-AATA-TT
*
384617 AATATA-TTATTTTA-AAATATT
1 AAAATATTTA-TTTACAAATATT
384638 AAAATAATTTATTTA
1 AAAAT-ATTTATTTA
384653 TTATTAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 19
0.70 0.03 0.27
Matches are distributed among these distances:
20 4 0.08
21 8 0.16
22 12 0.24
23 7 0.14
24 5 0.10
25 8 0.16
26 3 0.06
27 3 0.06
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATATTTATTTACAAATATT
Found at i:384680 original size:22 final size:23
Alignment explanation
Indices: 384595--384681 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 23
384585 AATATTAAAT
*
384595 AATATTATTTATCATAA-TACTTA
1 AATATTATTTATTATAATTA-TTA
*
384618 ATATATTA-TT-TTA-AAATATTA
1 A-ATATTATTTATTATAATTATTA
*
384639 AA-ATAATTTATT-T-ATTATTA
1 AATATTATTTATTATAATTATTA
384659 AATATTATTT-TTATAATTATTA
1 AATATTATTTATTATAATTATTA
384681 A
1 A
384682 TAAAAATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
19 3 0.06
20 13 0.25
21 15 0.29
22 12 0.23
23 3 0.06
24 6 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTATTTATTATAATTATTA
Found at i:384867 original size:31 final size:32
Alignment explanation
Indices: 384809--384905 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 32
384799 ATTAAAATAT
*
384809 TTAAATATAT--AAATAT-ATT-ATT-CATTA
1 TTAAATATATAAAAATATAATTGATTATATTA
*
384836 TTAAATATATAAAAAATTTAATT-A-TATATTA
1 TTAAATATAT-AAAAATATAATTGATTATATTA
384867 TT-AA-A-ATAAAAATATAATTGATTATATTA
1 TTAAATATATAAAAATATAATTGATTATATTA
384896 TTATAATATA
1 TTA-AATATA
384906 ATTGATTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
27 21 0.38
28 3 0.05
29 10 0.18
30 8 0.14
31 12 0.21
32 1 0.02
33 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
TTAAATATATAAAAATATAATTGATTATATTA
Found at i:384907 original size:23 final size:22
Alignment explanation
Indices: 384877--384926 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
384867 TTAAAATAAA
384877 AATATAATTGATTATATTATTAT
1 AATATAATTGATTATATTA-TAT
*
384900 AATATAATTGATTATTTTATAT
1 AATATAATTGATTATATTATAT
384922 AATAT
1 AATAT
384927 TAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
AATATAATTGATTATATTATAT
Found at i:384936 original size:31 final size:31
Alignment explanation
Indices: 384912--384969 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
384902 TATAATTGAT
384912 TATT-TTATATAATATTAAAAATATAATATTA
1 TATTATTATA-AATATTAAAAATATAATATTA
*
384943 TATTATTATAAATATTAATAATA-AATA
1 TATTATTATAAATATTAAAAATATAATA
384970 ATATTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 16 0.64
32 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TATTATTATAAATATTAAAAATATAATATTA
Found at i:384944 original size:22 final size:23
Alignment explanation
Indices: 384919--384962 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
384909 GATTATTTTA
384919 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
384941 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
384963 ATAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:384971 original size:47 final size:53
Alignment explanation
Indices: 384873--384974 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 53
384863 ATTATTAAAA
** *
384873 TAAAAATATAATTGATTATATTATTATAATATAATTGATTATTTTATATAATAT
1 TAAAAATATAATTGATTATATTATTATAATATAATTGA-TATAATAAATAATAT
384927 TAAAAATATAA-T-ATTATATTATTATAA-AT-ATT-A-ATAATAAATAATAT
1 TAAAAATATAATTGATTATATTATTATAATATAATTGATATAATAAATAATAT
384974 T
1 T
384975 TTGATGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
47 12 0.27
49 1 0.02
50 3 0.07
51 2 0.04
52 15 0.33
53 1 0.02
54 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (53 bp):
TAAAAATATAATTGATTATATTATTATAATATAATTGATATAATAAATAATAT
Found at i:385206 original size:42 final size:42
Alignment explanation
Indices: 385148--385263 Score: 189
Period size: 42 Copynumber: 2.8 Consensus size: 42
385138 ATGAATTACA
* *
385148 TTCCGGAAAACCAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
385190 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
385232 TTCC-AGAAAACGAATTACGTGAAACAAACACG
1 TTCCGA-AAAACGAATTACGTGAAACAAACACG
385264 AGAATTCGGG
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 1 0.01
42 69 0.99
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:386477 original size:18 final size:19
Alignment explanation
Indices: 386442--386478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
386432 CACGGAATGT
386442 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
386462 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
386479 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:386646 original size:15 final size:15
Alignment explanation
Indices: 386628--386660 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
386618 AAATTCTAAA
386628 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
386643 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
386658 TAT
1 TAT
386661 ATCTGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:388816 original size:17 final size:17
Alignment explanation
Indices: 388794--388828 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
388784 AATGATCAGG
388794 TGAATC-ATTTGTCATTC
1 TGAATCAATTT-TCATTC
388811 TGAATCAATTTTCATTC
1 TGAATCAATTTTCATTC
388828 T
1 T
388829 TTTAACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (17 bp):
TGAATCAATTTTCATTC
Found at i:394336 original size:26 final size:26
Alignment explanation
Indices: 394307--394356 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
394297 TAATAAAATA
*
394307 ACTAAAACGTTTAAAAA-TCTAAATCC
1 ACTAAAA-ATTTAAAAATTCTAAATCC
394333 ACTAAAAATTTAAAAATTCTAAAT
1 ACTAAAAATTTAAAAATTCTAAAT
394357 TGATTGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (26 bp):
ACTAAAAATTTAAAAATTCTAAATCC
Found at i:394467 original size:3 final size:3
Alignment explanation
Indices: 394459--394523 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
394449 CTCGAAAAAA
* * *
394459 TAT TAT TA- TAT TAT TAT TCT TAT TAT CAT TAT T-T TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
394505 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
394524 TATGTTTACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.93
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:394489 original size:26 final size:26
Alignment explanation
Indices: 394460--394519 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
394450 TCGAAAAAAT
* *
394460 ATTATTATATTATTATTCTTATTATC
1 ATTATTATATTATTAATATTATTATC
* *
394486 ATTATTTTATTATTAATATTATTATT
1 ATTATTATATTATTAATATTATTATC
394512 ATTATTAT
1 ATTATTAT
394520 TATTTATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTATATTATTAATATTATTATC
Found at i:395983 original size:30 final size:30
Alignment explanation
Indices: 395949--396048 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
395939 TATATTTATG
* *
395949 TTTTAGTGCTTTAACTTTCTATTTTTGCTA
1 TTTTAGTCCTTTAACTTTTTATTTTTGCTA
* * *
395979 TTTTAGTCCTTTCACTTTTTACTTTTACTA
1 TTTTAGTCCTTTAACTTTTTATTTTTGCTA
* *
396009 TTTTAGTCCTTTAACTTTTTGTTTGTGCTA
1 TTTTAGTCCTTTAACTTTTTATTTTTGCTA
*
396039 TTTTGGTCCT
1 TTTTAGTCCT
396049 CAAGTTTCTA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTTAGTCCTTTAACTTTTTATTTTTGCTA
Found at i:396809 original size:16 final size:17
Alignment explanation
Indices: 396772--396809 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
396762 GCATACCAAC
396772 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
396789 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
396805 TTTTT
1 TTTTT
396810 AAAAGATACC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:398034 original size:16 final size:16
Alignment explanation
Indices: 398009--398039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
397999 AGAGGGTTGC
*
398009 CAAAGCTAAAATTTGA
1 CAAAGATAAAATTTGA
398025 CAAAGATAAAATTTG
1 CAAAGATAAAATTTG
398040 TGATGCATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAAGATAAAATTTGA
Found at i:403032 original size:13 final size:13
Alignment explanation
Indices: 403014--403038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403004 ACCATTACAC
403014 ATTGATTATGAAT
1 ATTGATTATGAAT
403027 ATTGATTATGAA
1 ATTGATTATGAA
403039 CTAATGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:403213 original size:13 final size:13
Alignment explanation
Indices: 403191--403224 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
403181 AGGGGGAGTA
403191 ATTTTCAAAAATG
1 ATTTTCAAAAATG
403204 A-TTTCAAAAATG
1 ATTTTCAAAAATG
403216 ATTTTCAAA
1 ATTTTCAAA
403225 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:405071 original size:28 final size:28
Alignment explanation
Indices: 405009--405090 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
404999 GTATATTTAT
* ***
405009 GTTTTACTCCTTTAACTTTCTATTTTTGTT
1 GTTTTAGTCCTTTAACTTT-T-TTTTTACA
405039 GTTTTAGTCCTTTAACTTTTTTTTTACA
1 GTTTTAGTCCTTTAACTTTTTTTTTACA
* *
405067 GTTTTAGTCCTTTAAATATTTTTT
1 GTTTTAGTCCTTTAACTTTTTTTT
405091 GTGCTAGTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 27 0.59
29 1 0.02
30 18 0.39
ACGTcount: A:0.17, C:0.13, G:0.07, T:0.62
Consensus pattern (28 bp):
GTTTTAGTCCTTTAACTTTTTTTTTACA
Found at i:406166 original size:21 final size:21
Alignment explanation
Indices: 406132--406173 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
406122 TGATCTCATA
**
406132 AATAAAAATTTAAAAAAATAT
1 AATAAAAAGATAAAAAAATAT
*
406153 AATAAAAAGATAAAACAATAT
1 AATAAAAAGATAAAAAAATAT
406174 TTAAACTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAAAAGATAAAAAAATAT
Found at i:406564 original size:33 final size:34
Alignment explanation
Indices: 406527--406654 Score: 107
Period size: 37 Copynumber: 3.6 Consensus size: 34
406517 TAATTTTAAC
*
406527 TAAAAATATTAATATTATTATAT-TTTATTAAAA
1 TAAAAATATTAATATTATTAAATATTTATTAAAA
* *
406560 TAAAAACATTATAAATTATATTAAATATTTATTAAAA
1 TAAAAATATTA-ATA-T-TATTAAATATTTATTAAAA
* * **
406597 TAAAAATAAT-ATATTATTAACTATATTAATTTATTA
1 TAAAAATATTAATATTATTAA--ATATTTA-TTAAAA
* *
406633 TTAAAATAATAATATTATTAAA
1 TAAAAATATTAATATTATTAAA
406655 CAATAACAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
33 16 0.21
34 3 0.04
35 10 0.13
36 20 0.26
37 28 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (34 bp):
TAAAAATATTAATATTATTAAATATTTATTAAAA
Found at i:406613 original size:42 final size:42
Alignment explanation
Indices: 406567--406696 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
406557 AAATAAAAAC
*
406567 ATTATAAATTATATTAA-ATATTTATTAAAATAAAAATAATAT
1 ATTATAAACTATATTAATATA-TTATTAAAATAAAAATAATAT
* * *
406609 ATTATTAACTATATTAATTTATTATTAAAATAATAAT-AT-T
1 ATTATAAACTATATTAATATATTATTAAAATAAAAATAATAT
* ** * * *
406649 A-T-TAAACAATAACAACTTATAATATTAAAATAAGAATACTAT
1 ATTATAAACTATATTAA--TATATTATTAAAATAAAAATAATAT
406691 ATTATA
1 ATTATA
406697 TTTTAAGGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
38 9 0.13
39 1 0.01
40 19 0.28
41 3 0.04
42 32 0.46
43 3 0.04
44 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (42 bp):
ATTATAAACTATATTAATATATTATTAAAATAAAAATAATAT
Found at i:406648 original size:17 final size:17
Alignment explanation
Indices: 406599--406654 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
406589 TATTAAAATA
406599 AAAATAAT-ATATTATT
1 AAAATAATAATATTATT
* *
406615 AACTATATTAATTTATTATT
1 AA-AATAATAA--TATTATT
406635 AAAATAATAATATTATT
1 AAAATAATAATATTATT
406652 AAA
1 AAA
406655 CAATAACAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.06
17 14 0.44
18 1 0.03
19 6 0.19
20 9 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATAATAATATTATT
Found at i:406675 original size:40 final size:37
Alignment explanation
Indices: 406599--406686 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 37
406589 TATTAAAATA
* ** *
406599 AAAATAAT-ATATTATTAACTATATTAATTTATTATT
1 AAAATAATAATATTATTAACAATAACAATTTAATATT
406635 AAAATAATAATATTATTAAACAATAACAACTTATAATATT
1 AAAATAATAATATTATT-AACAATAACAA-TT-TAATATT
*
406675 AAAATAAGAATA
1 AAAATAATAATA
406687 CTATATTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 8 0.19
37 8 0.19
38 8 0.19
39 2 0.05
40 17 0.40
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.39
Consensus pattern (37 bp):
AAAATAATAATATTATTAACAATAACAATTTAATATT
Found at i:406716 original size:21 final size:23
Alignment explanation
Indices: 406682--406723 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
406672 ATTAAAATAA
406682 GAATACTATATTATAT-TTTAAG
1 GAATACTATATTATATATTTAAG
*
406704 GAATA-TATTTTATATATTTA
1 GAATACTATATTATATATTTA
406724 GCAATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
GAATACTATATTATATATTTAAG
Found at i:417296 original size:16 final size:15
Alignment explanation
Indices: 417235--417304 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
417225 TTTTGAAAAA
*
417235 ATATGTTTTAATCACTT
1 ATAT-TTTTAATTA-TT
* *
417252 ATGTTATTAATCTATT
1 ATATTTTTAAT-TATT
* *
417268 A-AATTTTAGTTATTT
1 ATATTTTTAATTA-TT
417283 ATATTTTTAATTATT
1 ATATTTTTAATTATT
417298 ATATTTT
1 ATATTTT
417305 AGTCATTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
14 2 0.05
15 17 0.41
16 18 0.44
17 4 0.10
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (15 bp):
ATATTTTTAATTATT
Found at i:424978 original size:43 final size:43
Alignment explanation
Indices: 424931--425114 Score: 140
Period size: 43 Copynumber: 4.3 Consensus size: 43
424921 AATATGTAAC
* * ** *
424931 GATATATAACGGTGTTTGTTCAACAAACGTCGCAACAGGTGTT
1 GATATTTAGCGGTGTTTGTAAAACAAACGCCGCAACAGGTGTT
* *
424974 GATATTTAGCGGCGTTTGTAAAACAAACGCCGCAATAGGTGTT
1 GATATTTAGCGGTGTTTGTAAAACAAACGCCGCAACAGGTGTT
* *** * * *
425017 GATGTTTAGCGGTGTTT-TCCCTACAAATGCCGTAATAGGTGTT
1 GATATTTAGCGGTGTTTGT-AAAACAAACGCCGCAACAGGTGTT
* ** * * *
425060 GAGATTTAGCGCGT-TTT-TATCACAAACACCGCAATAAGTGTT
1 GATATTTAGCG-GTGTTTGTAAAACAAACGCCGCAACAGGTGTT
*
425102 GAGATTTAGCGGT
1 GATATTTAGCGGT
425115 ATTTTTCTCA
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.02
42 29 0.25
43 83 0.72
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GATATTTAGCGGTGTTTGTAAAACAAACGCCGCAACAGGTGTT
Found at i:425110 original size:85 final size:86
Alignment explanation
Indices: 424961--425157 Score: 247
Period size: 85 Copynumber: 2.3 Consensus size: 86
424951 CAACAAACGT
* * * *
424961 CGCAACAGGTGTTGATATTTAGCGGCGTTTGTAAAACAAACGCCGCAATAGGTGTTGATGTTTAG
1 CGCAATAGGTGTTGAGATTTAGCGGCGTTTGTAAAACAAACACCGCAATAAGTGTTGATGTTTAG
*
425026 CGGTGTTTTCC-CTACAAATGC
66 CGGTATTTTCCTC-ACAAATGC
* * **
425047 CGTAATAGGTGTTGAGATTTAGC-GCGTTTTTATCACAAACACCGCAATAAGTGTTGA-GATTTA
1 CGCAATAGGTGTTGAGATTTAGCGGCGTTTGTAAAACAAACACCGCAATAAGTGTTGATG-TTTA
* *
425110 GCGGTATTTTTCTCACAAATGT
65 GCGGTATTTTCCTCACAAATGC
*
425132 CGCAATAGGTGTTGAGATTTCGCGGC
1 CGCAATAGGTGTTGAGATTTAGCGGC
425158 CTTTTTTTGA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 71 0.75
86 23 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (86 bp):
CGCAATAGGTGTTGAGATTTAGCGGCGTTTGTAAAACAAACACCGCAATAAGTGTTGATGTTTAG
CGGTATTTTCCTCACAAATGC
Found at i:425163 original size:43 final size:43
Alignment explanation
Indices: 424953--425163 Score: 203
Period size: 43 Copynumber: 4.9 Consensus size: 43
424943 TGTTTGTTCA
* * * * **
424953 ACAAACGTCGCAACAGGTGTTGATATTTAGCGGCGTTTGTAAA
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTATC
* **
424996 ACAAACGCCGCAATAGGTGTTGATG-TTTAGCGGTG-TTTTCCC
1 ACAAACGCCGCAATAGGTGTTGA-GATTTAGCGGCGTTTTTATC
* *
425038 TACAAATGCCGTAATAGGTGTTGAGATTTAGC-GCGTTTTTATC
1 -ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTATC
* * ** *
425081 ACAAACACCGCAATAAGTGTTGAGATTTAGCGGTATTTTTCTC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTATC
* * * *
425124 ACAAATGTCGCAATAGGTGTTGAGATTTCGCGGCCTTTTT
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTT
425164 TTGATACAAA
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
42 33 0.24
43 103 0.76
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTATC
Found at i:425207 original size:44 final size:44
Alignment explanation
Indices: 425166--425313 Score: 194
Period size: 44 Copynumber: 3.4 Consensus size: 44
425156 GCCTTTTTTT
* * *
425166 GATACAAACGCCGCCAAAGGTCTAGTATATAGCGACATTTTTAG
1 GATACAAACGCCGCTAAAGGTATGGTATATAGCGACATTTTTAG
*
425210 GATACAAACGCCGCTAAAGGTATGGTATATAGC-AGCGTTTTTAG
1 GATACAAACGCCGCTAAAGGTATGGTATATAGCGA-CATTTTTAG
* * *
425254 GATACAAACGCCGCTAAATGAATGGTATATTGCGACATTTTT--
1 GATACAAACGCCGCTAAAGGTATGGTATATAGCGACATTTTTAG
*
425296 GTTACAAACGCCGCTAAA
1 GATACAAACGCCGCTAAA
425314 TAACACATAA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
42 17 0.18
43 1 0.01
44 74 0.80
45 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
GATACAAACGCCGCTAAAGGTATGGTATATAGCGACATTTTTAG
Found at i:434859 original size:22 final size:22
Alignment explanation
Indices: 434811--434864 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
434801 TTCTTCATGT
* *
434811 TTTCAAAAGCTATTATTTTCCA
1 TTTCGAAACCTATTATTTTCCA
*
434833 TTTCGAAACCTATTATTTTTC-
1 TTTCGAAACCTATTATTTTCCA
434854 TATTCGAAACC
1 T-TTCGAAACC
434865 GTAAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (22 bp):
TTTCGAAACCTATTATTTTCCA
Found at i:444217 original size:20 final size:21
Alignment explanation
Indices: 444192--444240 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
444182 TGGTCCCAAA
*
444192 TCAACATTCTAA-ATTAAAAT
1 TCAACATTCAAATATTAAAAT
** *
444212 TCAACACCCAAATATTAAATT
1 TCAACATTCAAATATTAAAAT
444233 TCAACATT
1 TCAACATT
444241 GAATACTCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
TCAACATTCAAATATTAAAAT
Found at i:444677 original size:22 final size:21
Alignment explanation
Indices: 444652--444695 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
444642 ATCTACTACC
*
444652 TTAATAACATAAAAATCAAACT
1 TTAA-AACATAAAAATAAAACT
* *
444674 TTAAATCATCAAAATAAAACT
1 TTAAAACATAAAAATAAAACT
444695 T
1 T
444696 GTTCTTCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
TTAAAACATAAAAATAAAACT
Found at i:448702 original size:44 final size:44
Alignment explanation
Indices: 448634--448719 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
448624 AGCTCCTTTT
* *
448634 TTTTATGACATATATAACATCCTCGACTCGTTCTATAATGAAGA
1 TTTTATGACATATATAACACCCTCGACTAGTTCTATAATGAAGA
* * *
448678 TTTTATGATATGTGTAACACCCTCGACTAGTTCTATAATGAA
1 TTTTATGACATATATAACACCCTCGACTAGTTCTATAATGAA
448720 AATTATATCA
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:0.17, G:0.13, T:0.37
Consensus pattern (44 bp):
TTTTATGACATATATAACACCCTCGACTAGTTCTATAATGAAGA
Found at i:448735 original size:44 final size:44
Alignment explanation
Indices: 448648--448736 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
448638 ATGACATATA
* * * * * *
448648 TAACATCCTCGACTCGTTCTATAATGAAGATTTTATGATATGTG
1 TAACACCCTCGACTAGTTCTATAATGAAAATTATATCACATGTG
448692 TAACACCCTCGACTAGTTCTATAATGAAAATTATATCACATGTG
1 TAACACCCTCGACTAGTTCTATAATGAAAATTATATCACATGTG
448736 T
1 T
448737 TATTGAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (44 bp):
TAACACCCTCGACTAGTTCTATAATGAAAATTATATCACATGTG
Found at i:453820 original size:24 final size:24
Alignment explanation
Indices: 453788--453841 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
453778 CACCTTTTAG
453788 ACACTTTAATGTTGTCGTGTTTTT
1 ACACTTTAATGTTGTCGTGTTTTT
453812 ACACTTTAATGTTGTCGTGTTTTT
1 ACACTTTAATGTTGTCGTGTTTTT
453836 ACACTT
1 ACACTT
453842 AAGTCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (24 bp):
ACACTTTAATGTTGTCGTGTTTTT
Found at i:456754 original size:18 final size:18
Alignment explanation
Indices: 456711--456756 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
456701 TCAAGCCCAG
456711 ACCCAAAACCCAACCAAA
1 ACCCAAAACCCAACCAAA
** * *
456729 ACATAAAACCCAACTAGA
1 ACCCAAAACCCAACCAAA
456747 ACCCAAAACC
1 ACCCAAAACC
456757 TGACCCAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.39, G:0.02, T:0.04
Consensus pattern (18 bp):
ACCCAAAACCCAACCAAA
Found at i:458482 original size:13 final size:13
Alignment explanation
Indices: 458463--458499 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
458453 ATAAAATGCC
458463 CGATTACTCGAAT
1 CGATTACTCGAAT
*
458476 TGATTACTCGAAT
1 CGATTACTCGAAT
458489 CGATTACTCGA
1 CGATTACTCGA
458500 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (13 bp):
CGATTACTCGAAT
Found at i:468179 original size:17 final size:17
Alignment explanation
Indices: 468140--468181 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
468130 CCCTTCCCTT
*
468140 TCTTT-GAGAAAAATTC
1 TCTTTCGAGAAAAACTC
468156 TCTTTCGAGAAAAACTC
1 TCTTTCGAGAAAAACTC
468173 -CTGTTCGAG
1 TCT-TTCGAG
468182 CAACAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (17 bp):
TCTTTCGAGAAAAACTC
Found at i:479618 original size:6 final size:6
Alignment explanation
Indices: 479618--481024 Score: 2563
Period size: 6 Copynumber: 239.7 Consensus size: 6
479608 AAAAATTAAA
*
479618 AAAATT -AAATT AAAATT AAAATT AAAATT AAAATT AAAATA AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479665 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479713 AAAATT AAAATT AAAA-T AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479760 AAAA-T AAAATT AAAATT AAAATT AAAATT AAAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT -AAAATT AAAATT AAAATT
479808 -AAATT AAAATT AAAATT AAAATT AAAATT -AAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479854 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479902 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT -AAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479949 AAAATT AAAATT -AAATT AAAA-T AAAATT AAAATT -AAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
479994 AAAATT AAAATT -AAATT AAAATT -AAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480040 -AAATT AAAATT AAAATT -AAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480086 AAAATT -AAATT -AAATT AAAATT AAAA-- AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480130 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480178 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480226 AAAATT AAAATT AAAA-T AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480273 -AAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480320 AAAATT AAAATT -AAATT AAAATT AAAATT -AAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480366 AAAATT AAAATT AAAATT -AAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480413 -AAATT AAAATT AAAATT AAAATT AAAATT AAAATT -AAATT -AAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480458 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-T AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480505 AAAATT AAAATT AAAATT AAAATT -AAATT AAAATT -AAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480551 AAAATT AAAATT -AAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480598 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480646 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480694 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT -AAATT -AAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480740 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480788 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480836 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT -AAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480883 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
480931 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
480979 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATG AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
481025 AGTGGCTCAA
Statistics
Matches: 1368, Mismatches: 3, Indels: 60
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.00
5 150 0.11
6 1208 0.88
7 6 0.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:482286 original size:136 final size:135
Alignment explanation
Indices: 481964--482784 Score: 930
Period size: 136 Copynumber: 6.1 Consensus size: 135
481954 TAAACCAATC
*
481964 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAATAAGTTCATAA
1 AACATTT-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * ** *
482029 TGAGAAGAACTTGTTCGA-CTATGTCTCAATTCACAATATTTCGAATCAGTAACGCCTCACTTGA
65 TGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTGA
482093 GGGATT
130 GGGATT
482099 AACATTTCAATGGAGAGTTCATAATGAGAAGAACGT-ATCCGACAGAGGGAGAAGAAGTTCATAA
1 AACATTTCAATGGAGAGTTCATAATGAGAAGAAC-TCATCCGACAGAGGGAGAAGAAGTTCATAA
** * * * * *
482163 TGAGAAGAACTTGTTCGAGTTATTTCTTAATTCATGGCATTTCAAATCACCAATACCTCGA-TTG
65 TGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTC-ACTTG
482227 AGGGATT
129 AGGGATT
* * * *
482234 AACATTTCTAATGGAGAGTTCATAATGAGAAGAGCTCATCTGGCAGAGGGAGAAGAAGTTCATAT
1 AACATTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * ** *
482299 TGAGAAGAACTTGTTCAACCTATTTCTTAATTCACAACATTTTGAATCAACAACACCTCGCTTGA
65 TGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTGA
482364 GGGATT
130 GGGATT
* * * * * *
482370 AATACTTCCAATAGAGAGTTCATAATGAGAA-AAGCTCAACCGACAGAGGGAGAATAAGTTTATA
1 AACA-TTTCAATGGAGAGTTCATAATGAGAAGAA-CTCATCCGACAGAGGGAGAAGAAGTTCATA
* * * * ** * * *
482434 ATGAGAATAACTTTTTCGACCCATTGCTTGATTCACGATATTTCGAATCAACAACACCTCACTTA
64 ATGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTG
482499 AGGGATT
129 AGGGATT
* * * * **
482506 AACATTTCTAATGAAGAATTCATAATGAGAAAAACTCATCCAACAGAGGGAGAATCAGTTCATAA
1 AACATTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * * * **
482571 TGAGAAGAACTTGTTCGATCTATTTCTCGATTCATGTCATTTTAAATCAACAAAACCTCGTTTGA
65 TGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTGA
482636 GGGATT
130 GGGATT
* * * * * * *
482642 AACATTTACAATGGAGAGTTCATAATGATAAGAACGCACCCGAAAAAGGAAGAAGAAGCTCATAA
1 AACATTT-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * **
482707 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACGACACTTCAAATCAGCAATGCCTCACTTGA
65 TGAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTGA
*
482772 GGGATA
130 GGGATT
482778 AACATTT
1 AACATTT
482785 TCAGTAAGCA
Statistics
Matches: 577, Mismatches: 98, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
134 72 0.12
135 59 0.10
136 440 0.76
137 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (135 bp):
AACATTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCGACCTATTTCTCAATTCACGACATTTCAAATCAACAACACCTCACTTGAG
GGATT
Found at i:482722 original size:408 final size:406
Alignment explanation
Indices: 481969--482730 Score: 1084
Period size: 408 Copynumber: 1.9 Consensus size: 406
481959 CAATCAACAT
* *
481969 TTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAATAAGTTCATAATGAGA
1 TTCCAATAGAGAGTTCATAATGAGAAGAACTCAACCGACAGAGGGAGAATAAGTTCATAATGAGA
* ** * *
482034 AGAACTTGTTCGACTATGTCTCAATTCACAATATTTCGAATCAGTAACGCCTCACTTGAGGGATT
66 AGAACTTGTTCGACCATGTCTCAATTCACAATATTTCGAATCAACAACACCTCACTTAAGGGATT
* * * *
482099 AACATTTCAATGGAGAGTTCATAATGAGAAGAACGTATCCGACAGAGGGAGAAGAAGTTCATAAT
131 AACATTTCAATGAAGAATTCATAATGAGAAAAACGTATCCAACAGAGGGAGAAGAAGTTCATAAT
* * *
482164 GAGAAGAACTTGTTCGAGTTATTTCTTAATTCATGGCATTTCAAATCACCAATACCTCGATTGAG
196 GAGAAGAACTTGTTCGAGTTATTTCTCAATTCATGGCATTTCAAATCAACAAAACCTCGATTGAG
* * * * ** * * *
482229 GGATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAGCTCATCTGGCAGAGGGAGAAGAAGTT
261 GGATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAACGCACCCGAAAAAGGAAGAAGAAGCT
*
482294 CATATTGAGAAGAACTTGTTCAACCTATTTCTTAATTCACAACATTTTGAATCAACAACACCTCG
326 CATAATGAGAAGAACTTGTTCAACCTATTTCTTAATTCACAACATTTTGAATCAACAACACCTCG
482359 CTTGAGGGATTAATAC
391 CTTGAGGGATTAATAC
*
482375 TTCCAATAGAGAGTTCATAATGAGAA-AAGCTCAACCGACAGAGGGAGAATAAGTTTATAATGAG
1 TTCCAATAGAGAGTTCATAATGAGAAGAA-CTCAACCGACAGAGGGAGAATAAGTTCATAATGAG
* * ** *
482439 AATAACTTTTTCGACCCAT-TGCTTGATTCACGATATTTCGAATCAACAACACCTCACTTAAGGG
65 AAGAACTTGTTCGA-CCATGT-CTCAATTCACAATATTTCGAATCAACAACACCTCACTTAAGGG
**
482503 ATTAACATTTCTAATGAAGAATTCATAATGAGAAAAAC-TCATCCAACAGAGGGAGAATCAGTTC
128 ATTAACATTTC-AATGAAGAATTCATAATGAGAAAAACGT-ATCCAACAGAGGGAGAAGAAGTTC
* * *
482567 ATAATGAGAAGAACTTGTTCGA-TCTATTTCTCGATTCATGTCATTTTAAATCAACAAAACCTCG
191 ATAATGAGAAGAACTTGTTCGAGT-TATTTCTCAATTCATGGCATTTCAAATCAACAAAACCTCG
* *
482631 TTTGAGGGATTAACATTTAC-AATGGAGAGTTCATAATGATAAGAACGCACCCGAAAAAGGAAGA
255 ATTGAGGGATTAACATTT-CTAATGGAGAGTTCATAATGAGAAGAACGCACCCGAAAAAGGAAGA
*
482695 AGAAGCTCATAATGAGAAGAACTTGTTCGACCTATT
319 AGAAGCTCATAATGAGAAGAACTTGTTCAACCTATT
482731 GCTCGATTCA
Statistics
Matches: 311, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
405 2 0.01
406 71 0.23
407 52 0.17
408 185 0.59
409 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (406 bp):
TTCCAATAGAGAGTTCATAATGAGAAGAACTCAACCGACAGAGGGAGAATAAGTTCATAATGAGA
AGAACTTGTTCGACCATGTCTCAATTCACAATATTTCGAATCAACAACACCTCACTTAAGGGATT
AACATTTCAATGAAGAATTCATAATGAGAAAAACGTATCCAACAGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCGAGTTATTTCTCAATTCATGGCATTTCAAATCAACAAAACCTCGATTGAG
GGATTAACATTTCTAATGGAGAGTTCATAATGAGAAGAACGCACCCGAAAAAGGAAGAAGAAGCT
CATAATGAGAAGAACTTGTTCAACCTATTTCTTAATTCACAACATTTTGAATCAACAACACCTCG
CTTGAGGGATTAATAC
Found at i:484471 original size:6 final size:6
Alignment explanation
Indices: 484460--484500 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
484450 GGTCCTTGTA
484460 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT
484501 GTTGTGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:489045 original size:20 final size:21
Alignment explanation
Indices: 489022--489061 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
489012 AAACAAGTTC
489022 ATAAAG-AGAAAAACTTGTTG
1 ATAAAGAAGAAAAACTTGTTG
* *
489042 ATAAGGAAGAAAAATTTGTT
1 ATAAAGAAGAAAAACTTGTT
489062 CGACCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.20, T:0.28
Consensus pattern (21 bp):
ATAAAGAAGAAAAACTTGTTG
Found at i:489323 original size:136 final size:136
Alignment explanation
Indices: 489079--489531 Score: 558
Period size: 136 Copynumber: 3.4 Consensus size: 136
489069 TATTCGATTT
* * * *
489079 CATCACATAAGGAGTTGGATCAACATCACCAC-TTCA-CTTGATTCCATCACATAATGAGTTGGA
1 CATCACATAAGGAATTGGATCAATATCA--ACTTTCAGCTCGATTCCATCACATAAAGAGTTGGA
* *
489142 TCAGCATCTTCTCGCTCGAGATAGTTTCCCTTGAAAATCAAACTTCAATATCATTTCACTTGAGG
64 TCAGCATCATCTCGCTCGAGATAGTTTCCCTTGAAACTCAAACTTCAATATCATTTCACTTGAGG
489207 TTTAAATC
129 TTTAAATC
* ** * * *
489215 CATCATATAAGGAATTGGATCAATATCAACTTTCAGCTCGATTTAATTACATAAGGAGTTGTATC
1 CATCACATAAGGAATTGGATCAATATCAACTTTCAGCTCGATTCCATCACATAAAGAGTTGGATC
* * * * *
489280 AGTATCAACTTGCTCGAGATAGTTTCCCTTGTAACTCAAACTTC-AGATCATTTCACTTGAGGTT
66 AGCATCATCTCGCTCGAGATAGTTTCCCTTGAAACTCAAACTTCAATATCATTTCACTTGAGGTT
*
489344 TGAATC
131 TAAATC
* * * * *
489350 CATCACATAAGGAGTTAGATCAGTATC-ACTTT--GCTCGATTCCATCATATAAATAGTTGGATC
1 CATCACATAAGGAATTGGATCAATATCAACTTTCAGCTCGATTCCATCACATAAAGAGTTGGATC
* * * *
489412 AACATCATCTCGCTCGAGATAGTTTCCCTTGAAACTCAAACTTTAGTATCAGTTCACTTGAGGTT
66 AGCATCATCTCGCTCGAGATAGTTTCCCTTGAAACTCAAACTTCAATATCATTTCACTTGAGGTT
489477 TAAATC
131 TAAATC
* * ** *
489483 CATCACATAAGGAATTGGATCAGTATCACCTTTTGGCTCGATTCAATCA
1 CATCACATAAGGAATTGGATCAATATCAACTTTCAGCTCGATTCCATCA
489532 TAGAAGGAGC
Statistics
Matches: 269, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
132 61 0.23
133 47 0.17
134 11 0.04
135 51 0.19
136 99 0.37
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (136 bp):
CATCACATAAGGAATTGGATCAATATCAACTTTCAGCTCGATTCCATCACATAAAGAGTTGGATC
AGCATCATCTCGCTCGAGATAGTTTCCCTTGAAACTCAAACTTCAATATCATTTCACTTGAGGTT
TAAATC
Found at i:489548 original size:44 final size:44
Alignment explanation
Indices: 489500--489593 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
489490 TAAGGAATTG
*
489500 GATCAGTATCACCTTTTGGCTCGATTCAATCATAGAAGGAGCTA
1 GATCAGTATCACCTTTTGGCTCGATTCAATCACAGAAGGAGCTA
*
489544 GATCAGTATCACCTTTTGGCTCGATTCAATCACAGAAGGAGCTG
1 GATCAGTATCACCTTTTGGCTCGATTCAATCACAGAAGGAGCTA
489588 GATCAG
1 GATCAG
489594 CATTCCAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCAGTATCACCTTTTGGCTCGATTCAATCACAGAAGGAGCTA
Found at i:490244 original size:14 final size:15
Alignment explanation
Indices: 490222--490251 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
490212 AAGAAGAAAC
490222 AGAGAAGAAAAACCA
1 AGAGAAGAAAAACCA
490237 AGAG-AGAAAAACCA
1 AGAGAAGAAAAACCA
490251 A
1 A
490252 AAAAATCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.67, C:0.13, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAGAAGAAAAACCA
Found at i:492013 original size:23 final size:22
Alignment explanation
Indices: 491986--492039 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
491976 AAACCGCCAA
491986 TTTTTCAAATAATAGTCATAATTG
1 TTTTTCAAATAATA-T-ATAATTG
* *
492010 TTTTT-TAATAATATTTAATTG
1 TTTTTCAAATAATATATAATTG
492031 TTTTTCAAA
1 TTTTTCAAA
492040 AAAATGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.42
22 3 0.12
23 7 0.27
24 5 0.19
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTTTCAAATAATATATAATTG
Found at i:493125 original size:2 final size:2
Alignment explanation
Indices: 493118--493159 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
493108 ATGATAAGTG
493118 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
493160 TTTAATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:506181 original size:224 final size:224
Alignment explanation
Indices: 505791--506461 Score: 1168
Period size: 224 Copynumber: 3.0 Consensus size: 224
505781 ATGTACATCT
505791 AAGCCTCGTGCTTT-AATTAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAA
1 AAGCCTCGTGCTTTCAA-TAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAA
*
505855 ACGCATGATGCATTGAGCTGATAGACTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCT
65 ACACATGATGCATTGAGCTGATAGACTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCT
*
505920 GCATCTATAAAATTGATTTACCTCCTCTAATGGGGATTGAATGTTTGGAGGCGGTCTAGAATGTT
130 GCATCTATAAAATTGAGTTACCTCCTCTAATGGGGATTGAATGTTTGGAGGCGGTCTAGAATGTT
505985 GTTCATTATATACAGCAGCCTGTCCTAATG
195 GTTCATTATATACAGCAGCCTGTCCTAATG
* * *
506015 AAGCCTCGTG-TTTCCAGTAACTTTTTGGAATGTTACAATGCAATTCATACAAATGAACTACAAA
1 AAGCCTCGTGCTTT-CAATAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAA
* *
506079 ACACATGATGCATTGAGCTGATAGACTACACTAATGATTCAAGAAAAGTATAATGTTAAATTTCT
65 ACACATGATGCATTGAGCTGATAGACTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCT
*
506144 GCATCTATAAAATTGAGTTACCTCCTCTAATGGGGATTGAATGTTTTGAGGCGGTCTAGAATGTT
130 GCATCTATAAAATTGAGTTACCTCCTCTAATGGGGATTGAATGTTTGGAGGCGGTCTAGAATGTT
506209 GTTCATTATATACAGCAGCCTGTCCTAATG
195 GTTCATTATATACAGCAGCCTGTCCTAATG
** **
506239 TGGTATCGTGCTTTCAATAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAAA
1 AAGCCTCGTGCTTTCAATAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAAA
*
506304 CACATGATGCATTGAGCTGATAG-CTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCTT
66 CACATGATGCATTGAGCTGATAGACTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCTG
* *
506368 CATCTATAAAATTGAGTTACCTCCTCTAATGGAGACTGAATGTTTGGAGGCGGTCTAGAATGTTG
131 CATCTATAAAATTGAGTTACCTCCTCTAATGGGGATTGAATGTTTGGAGGCGGTCTAGAATGTTG
506433 TTCATTATATACAGCAGCCTGTCCTAATG
196 TTCATTATATACAGCAGCCTGTCCTAATG
506462 CAGCTAACAG
Statistics
Matches: 423, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
223 132 0.31
224 287 0.68
225 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (224 bp):
AAGCCTCGTGCTTTCAATAACTTTTTGGAATCTTATAATGCAATTCATACAAATGAACTACAAAA
CACATGATGCATTGAGCTGATAGACTACATTGATGATTCAAGAAAAGTATAATGTTAAATTTCTG
CATCTATAAAATTGAGTTACCTCCTCTAATGGGGATTGAATGTTTGGAGGCGGTCTAGAATGTTG
TTCATTATATACAGCAGCCTGTCCTAATG
Done.