Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold227
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: 617646
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 5
Found at i:327404 original size:79 final size:78
Alignment explanation
Indices: 327112--327415 Score: 313
Period size: 79 Copynumber: 3.9 Consensus size: 78
327102 TCACAATCGG
** * * *
327112 GGATACTTTAACCTCGATTTTATTTCCAAAACACCGATTTTTCA-TAGTCGAGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACCA-TCGAGGATACTCCAACC
* *
327176 TCGTTATTTTCGAGA
65 CCGTTATTTT-GAAA
* * * *
327191 GGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCATTGAGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACCATCGAGGATACTCCAACCC
** * *
327256 TATTATTTTCAAGG
66 CGTTATTTTGAA-A
* * * * ** * *
327270 GGATACTCCAACCCCGTTTTTATTTCCAAACCATCGATTTTTCATAATCGGGGATACTCTAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACCATCGAGGATACTCCAACCC
327335 CGTTATTTCTGAAA
66 CGTTATTT-TGAAA
* * * * *
327349 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATCAAGGATATTTCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACCATCGAGGATACTCCAACCC
327414 CG
66 CG
327416 ATTTTATTTC
Statistics
Matches: 181, Mismatches: 41, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
78 1 0.01
79 176 0.97
80 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTCCACCATCGAGGATACTCCAACCC
CGTTATTTTGAAA
Found at i:327423 original size:209 final size:208
Alignment explanation
Indices: 327190--327579 Score: 505
Period size: 209 Copynumber: 1.9 Consensus size: 208
327180 TATTTTCGAG
* * * *
327190 AGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCATTGAGGATACTCCAACC
1 AGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAACC
* ** * *
327255 CTATTATTT-TCAAGGGGATACTCCAACCCCGTTTTTATTTCCA-AACCATCGATTTTTCATAAT
66 CTATTATTTCT-AAGGGAATACTCCAACCCCAATTTTATTTCCAGAA-CACCGATTTTCCATAAT
*
327318 CGGGGATACTCTAACCCCGTTATTTCTGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACAC
129 CGGGGATACTCCAACCCCGTTATTTCTGAAAGGATACTCCAACCCC-ATTTTATTTCTAAAACAC
327383 CAATTTTCCACCATCA
193 CAATTTTCCACCATCA
* * * * * * *
327399 AGGATATTTCAACCCCGATTTTATTTCCAGAACATTGATTTTCTACAATCGGGGATACTCTAACC
1 AGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAACC
* ** * *
327464 CTATTATTTCTGAGGGAATACTCTTACCCTAATTTTATTTCTAGAACACCGATTTTCCATAATCG
66 CTATTATTTCTAAGGGAATACTCCAACCCCAATTTTATTTCCAGAACACCGATTTTCCATAATCG
* ** *
327529 GGGATACTCCAACCCCGTTATTTTTGAGGGGATCCTCCAACCCCATTTTAT
131 GGGATACTCCAACCCCGTTATTTCTGAAAGGATACTCCAACCCCATTTTAT
327580 CTCCAAAATA
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
208 7 0.05
209 143 0.93
210 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (208 bp):
AGGATACTCCAACCCCGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAACC
CTATTATTTCTAAGGGAATACTCCAACCCCAATTTTATTTCCAGAACACCGATTTTCCATAATCG
GGGATACTCCAACCCCGTTATTTCTGAAAGGATACTCCAACCCCATTTTATTTCTAAAACACCAA
TTTTCCACCATCA
Found at i:327464 original size:51 final size:51
Alignment explanation
Indices: 327347--327464 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 51
327337 TTATTTCTGA
* * *
327347 AAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATC
1 AAGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
* * *** *
327398 AAGGATA-TTTCAACCCCGATTTTATTTCCAGAACATTGATTTTCTACAATC
1 AAGGATACTCT-AACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
**
327449 GGGGATACTCTAACCC
1 AAGGATACTCTAACCC
327465 TATTATTTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
50 1 0.02
51 50 0.94
52 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (51 bp):
AAGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:327534 original size:130 final size:130
Alignment explanation
Indices: 327268--327545 Score: 346
Period size: 130 Copynumber: 2.1 Consensus size: 130
327258 TTATTTTCAA
* *
327268 GGGGATACTCCAACCCCGTTTTTATTTCCAAACCATCGATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAACCATCGATTTTTCACAATCGGGGATACTCTAAC
* * *
327333 CCCGTTATTTCTGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATC
66 CCCATTATTTCTGAAAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACAATC
** * * *
327398 AAGGATATTTCAACCCCGATTTTATTTCCAGAA-CATTGA-TTTTCTACAATCGGGGATACTCTA
1 GGGGATACTCCAACCCCGATTTTATTTCCA-AACCATCGATTTTTC-ACAATCGGGGATACTCTA
* * ** * * * *
327461 ACCCTATTATTTCTG-AGGGAATACTCTTACCCTAATTTTATTTCTAGAACACCGATTTTCCATA
64 ACCCCATTATTTCTGAAAGG-ATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACA
327525 ATC
128 ATC
327528 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
327546 TTATTTTTGA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 8 0.07
130 113 0.92
131 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAACCATCGATTTTTCACAATCGGGGATACTCTAAC
CCCATTATTTCTGAAAGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACAATC
Found at i:327600 original size:288 final size:288
Alignment explanation
Indices: 326980--327602 Score: 661
Period size: 288 Copynumber: 2.2 Consensus size: 288
326970 TTCCACTACC
* * * * * * *
326980 GGGGATACTCCAACTCCGGTTTTATTTTCAAAACATCAACTTTCCACT-ATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGATTTTATCTCCAAAACATAAATTTTTCA-TAATCGGGGATACTCTAA
** ** * * * * * *
327044 CCTTGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAACCATCGATTTTTCACAAT
65 CCCCGTTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAAT
** *
327109 CGGGGATACTTTAACCTCGATTTTATTTCCAAAACACCGATTTTTCATAGTCGAGGATACTCCAA
130 CAAGGATACTTTAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAGTCGAGGATACTCCAA
* ** * *
327174 CCTCGTTATTTTCGAGAGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCAT
195 CCTCATTATTTTCGAGAGGATACTCCAACCCTAATTTTATTTCCAAAACACCGATTTTCCACAAT
* *
327239 TGAGGATACTCCAACCCTATTATTTTCAA
260 CGAGGATACTCCAACCCCATTATTTTCAA
* * * **
327268 GGGGATACTCCAACCCCGTTTTTATTTCCAAACCATCGATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATCTCCAAAACATAAATTTTTCATAATCGGGGATACTCTAAC
*
327333 CCCGTTA-TTTCTGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCAT
66 CCCGTTATTTTC-GAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAAT
* ** *
327397 CAAGGATA-TTTCAACCCCGATTTTATTTCCAGAACATTGATTTTCTACA-A-TCGGGGATACTC
130 CAAGGATACTTT-AACCCCGATTTTATTTCCAAAACACCGATTTT-T-CATAGTCGAGGATACTC
* ** * *
327459 TAACC-CTATTA-TTTCTGAG-GGAATACTCTTACCCTAATTTTATTTCTAGAACACCGATTTTC
192 CAACCTC-ATTATTTTC-GAGAGG-ATACTCCAACCCTAATTTTATTTCCAAAACACCGATTTTC
* * * **
327521 CATAATCGGGGATACTCCAACCCCGTTATTTTTGA
254 CACAATCGAGGATACTCCAACCCCATTATTTTCAA
* *
327556 GGGGATCCTCCAACCCC-ATTTTATCTCCAAAATATTAAATTTTTCAT
1 GGGGATACTCCAACCCCGATTTTATCTCCAAAACA-TAAATTTTTCAT
327603 CAAGGAATGT
Statistics
Matches: 277, Mismatches: 49, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
287 28 0.10
288 245 0.88
289 2 0.01
290 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (288 bp):
GGGGATACTCCAACCCCGATTTTATCTCCAAAACATAAATTTTTCATAATCGGGGATACTCTAAC
CCCGTTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATC
AAGGATACTTTAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAGTCGAGGATACTCCAAC
CTCATTATTTTCGAGAGGATACTCCAACCCTAATTTTATTTCCAAAACACCGATTTTCCACAATC
GAGGATACTCCAACCCCATTATTTTCAA
Found at i:330146 original size:129 final size:129
Alignment explanation
Indices: 329857--330230 Score: 653
Period size: 129 Copynumber: 2.9 Consensus size: 129
329847 TTCCTCTAAG
* * *
329857 TACAATTCAAAATTTTATAAATTAAAATATTAAAAATCT-AAAAACTTCAAAATCCAAATACAAG
1 TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAATACAAG
*
329921 TTTTCAAATGTAACTTAAATATTGAAACTTTTC-TTTTTTATTATCTATATTTATTTTAAATAT
66 TTTTCAAATGTAACTTAAATATTGAAACTTTTCTTTTTTTATTATCTATATTTATTTTAAATAA
*
329984 TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAGTACAAG
1 TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAATACAAG
330049 TTTTCAAATGTAACTTAAATATTGAAACTTTTCTTTTTTTATTATCTATATTTATTTTAAATAA
66 TTTTCAAATGTAACTTAAATATTGAAACTTTTCTTTTTTTATTATCTATATTTATTTTAAATAA
330113 TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAATACAAG
1 TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAATACAAG
*
330178 TTTTCAAATGTAACTTAAATATTAAAAACTTTTCTTTTTTCTAATTATCTATA
66 TTTTCAAATGTAACTTAAATATT-GAAACTTTTCTTTTTT-T-ATTATCTATA
330231 CTAATTTTTT
Statistics
Matches: 235, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
127 36 0.15
128 57 0.24
129 116 0.49
130 15 0.06
131 1 0.00
132 10 0.04
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.41
Consensus pattern (129 bp):
TACAATTTAAAATTTTATAAATCAAAATGTTAAAAATCTAAAAAACTTCAAAATCCAAATACAAG
TTTTCAAATGTAACTTAAATATTGAAACTTTTCTTTTTTTATTATCTATATTTATTTTAAATAA
Found at i:330460 original size:20 final size:19
Alignment explanation
Indices: 330437--330510 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
330427 TTTTTTATTC
330437 TTTAATTTACTATTTTTTCT
1 TTTAATTTA-TATTTTTTCT
*
330457 TTTAACTTA-ATTTGTTT-T
1 TTTAATTTATATTT-TTTCT
* *
330475 TTTACTTTATTATTTTTTCG
1 TTTAATTTA-TATTTTTTCT
* *
330495 TTTGATTTTTATTTTT
1 TTTAATTTATATTTTT
330511 CATGTATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 12 0.28
19 13 0.30
20 18 0.42
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTAATTTATATTTTTTCT
Found at i:330538 original size:29 final size:27
Alignment explanation
Indices: 330480--330552 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
330470 GTTTTTTTAC
*
330480 TTTATTATTTTTTCGTTTGATTTTTATT
1 TTTATTATTTTTT-GTTTGATTATTATT
* *
330508 TTTCATGTATTTTTTGTTTTATTATTCTT
1 TTT-AT-TATTTTTTGTTTGATTATTATT
*
330537 TTTATTCTTTTTTGTT
1 TTTATTATTTTTTGTT
330553 ACTTATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 10 0.26
28 5 0.13
29 16 0.41
30 8 0.21
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTATTATTTTTTGTTTGATTATTATT
Found at i:331051 original size:14 final size:14
Alignment explanation
Indices: 331028--331068 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
331018 CCTTCTTTGT
*
331028 TCTTTCTTTCTATG
1 TCTTTTTTTCTATG
*
331042 TCTTTTTTTCTATT
1 TCTTTTTTTCTATG
*
331056 TATTTTTTTCTAT
1 TCTTTTTTTCTAT
331069 TTTTCTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (14 bp):
TCTTTTTTTCTATG
Found at i:331069 original size:14 final size:14
Alignment explanation
Indices: 331034--331070 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
331024 TTGTTCTTTC
* *
331034 TTTCTATGTCTTTT
1 TTTCTATTTATTTT
331048 TTTCTATTTATTTT
1 TTTCTATTTATTTT
331062 TTTCTATTT
1 TTTCTATTT
331071 TTCTTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTCTATTTATTTT
Found at i:331125 original size:17 final size:17
Alignment explanation
Indices: 331105--331143 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
331095 TTTTTTTTGC
331105 TTTTTCTCT-CATTTTTA
1 TTTTTCT-TGCATTTTTA
*
331122 TTTTTCTTGTATTTTTA
1 TTTTTCTTGCATTTTTA
331139 TTTTT
1 TTTTT
331144 TAATTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTCTTGCATTTTTA
Found at i:331170 original size:14 final size:15
Alignment explanation
Indices: 331153--331230 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 15
331143 TTAATTTTCA
331153 TTTTCATT-TTATTC
1 TTTTCATTATTATTC
*
331167 TTTTTATTACTT-TTC
1 TTTTCATTA-TTATTC
*
331182 ATTTTGCTATTCTTATTC
1 -TTTT-C-ATTATTATTC
331200 TTTTCA--ATTATT-
1 TTTTCATTATTATTC
*
331212 TTTTCTTTATTA-TC
1 TTTTCATTATTATTC
331226 TTTTC
1 TTTTC
331231 TTGTCACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
12 5 0.10
13 6 0.12
14 16 0.32
15 4 0.08
16 7 0.14
17 6 0.12
18 6 0.12
ACGTcount: A:0.15, C:0.14, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTCATTATTATTC
Found at i:331181 original size:30 final size:32
Alignment explanation
Indices: 331139--331203 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
331129 TGTATTTTTA
331139 TTTTTTAATTTTCATTTT-C-ATT-TTATTCT
1 TTTTTTAATTTTCATTTTGCTATTCTTATTCT
*
331168 TTTTATTACTTTTCATTTTGCTATTCTTATTCT
1 TTTT-TTAATTTTCATTTTGCTATTCTTATTCT
331201 TTT
1 TTT
331204 CAATTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 13 0.42
31 1 0.03
32 3 0.10
33 10 0.32
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (32 bp):
TTTTTTAATTTTCATTTTGCTATTCTTATTCT
Found at i:331547 original size:19 final size:19
Alignment explanation
Indices: 331505--331548 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
331495 TCTTTCATTA
331505 TATTTTCTTATTTTTTTCT
1 TATTTTCTTATTTTTTTCT
* *
331524 GATTTTC-TATTTCTTTTGT
1 TATTTTCTTATTT-TTTTCT
331543 TATTTT
1 TATTTT
331549 TTCTTTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.75
Consensus pattern (19 bp):
TATTTTCTTATTTTTTTCT
Found at i:334774 original size:20 final size:20
Alignment explanation
Indices: 334751--334821 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
334741 AAGTACCCAG
334751 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
334771 ATGTATCGATACGTGTATGA
1 ATGTATCGATACATTTTTCA
* *
334791 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
334811 ATGTATCGATA
1 ATGTATCGATA
334822 TATTCTGTCC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:348825 original size:1 final size:1
Alignment explanation
Indices: 348819--348903 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
348809 TTCATACCAT
* * ** * * * *
348819 AAAAAAAAACAAAAAAAAAAACAAAAAAAACCAAAAAAAAACAAAGAAATAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
348884 CCAAGAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAA
348904 CAGAAAGGGG
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:348859 original size:36 final size:36
Alignment explanation
Indices: 348819--348900 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
348809 TTCATACCAT
348819 AAAAAAAAACAAAAAAAAAAACAAAAAAAACCAA-AA
1 AAAAAAAAACAAAAAAAAAAAC-AAAAAAACCAAGAA
* * *
348855 AAAAACAAAGAAATAAAAAAACAAAAAAACCAAGAA
1 AAAAAAAAACAAAAAAAAAAACAAAAAAACCAAGAA
348891 AAAAACAAAA
1 AAAAA-AAAA
348901 AAACAGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 11 0.28
36 26 0.65
37 3 0.08
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (36 bp):
AAAAAAAAACAAAAAAAAAAACAAAAAAACCAAGAA
Found at i:348904 original size:20 final size:19
Alignment explanation
Indices: 348821--348904 Score: 93
Period size: 20 Copynumber: 4.4 Consensus size: 19
348811 CATACCATAA
*
348821 AAAAAAACAAAAAAAAAAAC
1 AAAAAAAC-CAAAAAAAAAC
348841 AAAAAAAACCAAAAAAAAAC
1 -AAAAAAACCAAAAAAAAAC
* *
348861 -AAAGAA--ATAAAAAAAC
1 AAAAAAACCAAAAAAAAAC
348877 AAAAAAACCAAGAAAAAAAC
1 AAAAAAACCAA-AAAAAAAC
348897 AAAAAAAC
1 AAAAAAAC
348905 AGAAAGGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
16 9 0.17
17 5 0.09
18 5 0.09
19 1 0.02
20 26 0.48
21 8 0.15
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (19 bp):
AAAAAAACCAAAAAAAAAC
Found at i:350232 original size:89 final size:86
Alignment explanation
Indices: 350123--350506 Score: 396
Period size: 89 Copynumber: 4.4 Consensus size: 86
350113 TGTTCATCTC
* * * * * *
350123 TTCAAAACCCACAAGTCAGTGGCACCCTTTT-AATGCTCATAAGTTAGTAGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAG
*
350187 CCCACACGAGTCGGTGGCAACTCTT
65 CCCACA--AGTCAGTGGC-ACTCTT
*
350212 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
* *
350276 CCATAAGTCATTGGCACTCTT
66 CCACAAGTCAGTGGCACTCTT
* ** * *
350297 TTCAAAGCCCACATGAGTCGGTGGCAATTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAA
1 TTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
* * *
350362 AGCCCATAAATCAGTGGCAC-CAT
63 AGCCCACAAGTCAGTGGCACTCTT
* * * *
350385 TTCAATGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCATAAGTTAGTGGCACCCTTCCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
* **
350450 ACACACGAGTTGGTGGCAACTCTT
66 -C-CACAAGTCAGTGGC-ACTCTT
* *
350474 TTCAAAGCCCACATAAGTTAGTGGCACCTTTTT
1 TTCAAAGCCCAC--AAGTCAGTGGCACCCTTTT
350507 TTTAAAAAAA
Statistics
Matches: 251, Mismatches: 33, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
85 54 0.22
86 18 0.07
87 18 0.07
88 36 0.14
89 107 0.43
91 18 0.07
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACTCTT
Found at i:350323 original size:117 final size:117
Alignment explanation
Indices: 350117--350501 Score: 440
Period size: 117 Copynumber: 3.3 Consensus size: 117
350107 CTAAAATGTT
* * * * * *
350117 CATCTCTTCAAAACCCACAAGTCAGTGGCACCCTTTTAATGCTCATAAGTTAGTAGCACTCTTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGCCCATAAGTCAGTGGCACTCTTTT
* *
350182 CAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGG
66 CAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGG
* * *
350234 CATCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTCATTGGCACTCTTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGCCCATAAGTCAGTGGCACTCTTTT
*
350299 CAAAGCCCACATGAGTCGGTGGCAATTCTTTTCAAAGCCCACAAGTTAGTGG
66 CAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGG
* * * *
350351 CATCCTTTT-AAAGCCCATAAATCAGTGGCACCATTTCAATGCCCACAAGTCAGTGGCAC-CTTT
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGCCCATAAGTCAGTGGCACTC-TT
* ** * * * *
350414 TTCAAAG-CC-CATAAGTTAGTGGC-AC-CCTTCCAAAGCACACACGAGTTGGTGG
64 TTCAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGC-C-CACAAGTTAGTGG
*
350466 CAACTCTTTTCAAAGCCCACATAAGTTAGTGGCACC
1 C-A-TCTTTTCAAAGCCCAC--AAGTCAGTGGCACC
350502 TTTTTTTTAA
Statistics
Matches: 229, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
113 9 0.04
114 2 0.01
115 23 0.10
116 9 0.04
117 169 0.74
118 5 0.02
119 12 0.05
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (117 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGCCCATAAGTCAGTGGCACTCTTTT
CAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGG
Found at i:350388 original size:145 final size:145
Alignment explanation
Indices: 350174--350505 Score: 425
Period size: 145 Copynumber: 2.2 Consensus size: 145
350164 AGTTAGTAGC
** * * *
350174 ACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCT
1 ACTCTTTTCAAAGCCCACA--AGTTAGTGGC-AC-CTTTTCAAAGCCCACAAATCAGTGGCACCA
* * * *
350239 TTTCAAAGCCCACAAGTTAGTGGCACC-CTTTCAAAGCCCATAAGTCATTGGCACTCTTTTCAAA
62 TTTCAAAGCCCACAAGTCAGTGGCACCTCTTTCAAAGCCCATAAGTCAGTGGCAC-CCTTCCAAA
* *
350303 GCCCACATGAGTCGGTGGCA
126 GCACACACGAGTCGGTGGCA
* *
350323 ATTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTT-AAAGCCCATAAATCAGTGGCACCATTT
1 ACTCTTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAATCAGTGGCACCATTT
* * *
350387 CAATGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCATAAGTTAGTGGCACCCTTCCAAAGCAC
65 CAAAGCCCACAAGTCAGTGGCACCTCTTTCAAAGCCCATAAGTCAGTGGCACCCTTCCAAAGCAC
*
350452 ACACGAGTTGGTGGCA
130 ACACGAGTCGGTGGCA
350468 ACTCTTTTCAAAGCCCACATAAGTTAGTGGCACCTTTT
1 ACTCTTTTCAAAGCCCAC--AAGTTAGTGGCACCTTTT
350506 TTTTAAAAAA
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
145 86 0.53
146 36 0.22
147 21 0.13
149 18 0.11
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (145 bp):
ACTCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAATCAGTGGCACCATTTC
AAAGCCCACAAGTCAGTGGCACCTCTTTCAAAGCCCATAAGTCAGTGGCACCCTTCCAAAGCACA
CACGAGTCGGTGGCA
Found at i:350884 original size:18 final size:19
Alignment explanation
Indices: 350859--350906 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
350849 TTTTGTCCAG
350859 CCATTTTTTTTTAAGATAC
1 CCATTTTTTTTTAAGATAC
350878 CCATTTTTTTTTAAGATAC
1 CCATTTTTTTTTAAGATAC
*
350897 TCATTTTTTT
1 CCATTTTTTT
350907 AACTAATCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (19 bp):
CCATTTTTTTTTAAGATAC
Found at i:358804 original size:79 final size:79
Alignment explanation
Indices: 358713--359386 Score: 512
Period size: 79 Copynumber: 8.5 Consensus size: 79
358703 AAATTTAATA
* * * * * * * * *
358713 TTTTGGAGATAAAAACGGGGTCGAAGTACCCCCTTAGAAATAACAGGATTGGAGTATCCCCAATG
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
358778 GTAAAAAATAGATG
66 GTAAAAAATAGATG
* * ** * * *
358792 TTTTGGAAATAAAATCGAGGCTAAAGTATACCCTC-GAAAATAACGGGGTTAGAGTATCCCCGAT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAG-AAATAACAGGGTTGGAGTATCCCCGAT
* * *
358856 TGTAGAAAATTGGTG
65 TGTAAAAAATAGATG
* * * * *
358871 TTTTGAAAAT-AAAACTGGGGTTGGAGTATCCCCTCA-AAAGTAA-TGAGGTTGGAATATCCCTG
1 TTTTGGAAATAAAAAC-GAGGTTGGAGTATCCCCTCAGAAA-TAACAG-GGTTGGAGTATCCCCG
* *
358933 ATTGTGAAAAATTGATG
63 ATTGTAAAAAATAGATG
* * * *
358950 TTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
*
359015 GTGAAAAATTA-A-G
66 GT-AAAAAATAGATG
* * * * * *
359028 ATTTCGGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAATAGGGTTGGAGTATCCCTC-A
1 -TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCC-CGA
*
359092 TTGTGAAAAATTAG-TG
64 TTGT-AAAAAATAGATG
* * * * * **
359108 TTTTGAAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTTGCGTATCCCTAATT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
*
359172 GTGAAAAATCAG-TG
66 GTAAAAAAT-AGATG
* * * * * *
359186 TTTTGAAAAT-AAAACCAGGGTTGGAGTATCCCCTC-GAAAATAACGGGGTTGGAGCATCCCTGT
1 TTTTGGAAATAAAAACGA-GGTTGGAGTATCCCCTCAG-AAATAACAGGGTTGGAGTATCCCCGA
* * *
359249 TTGTGAAAAATTGGTG
64 TTGTAAAAAATAGATG
* * * * * * * * *
359265 TTTTGAAAATAAAACCGGGGTTAGAGTATCTCTTCAAAAATAACGGGGTTGGAGCATCCCCGATT
1 TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
* * *
359330 GTGAAAAATTGGTG
66 GTAAAAAATAGATG
* *
359344 TTTTGGAAAT-AAAACTG-GGATTGGAGTATCCACTCGGAAATAA
1 TTTTGGAAATAAAAAC-GAGG-TTGGAGTATCCCCTCAGAAATAA
359387 AAACATGAAT
Statistics
Matches: 484, Mismatches: 88, Indels: 46
0.78 0.14 0.07
Matches are distributed among these distances:
77 10 0.02
78 73 0.15
79 382 0.79
80 19 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
TTTTGGAAATAAAAACGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
GTAAAAAATAGATG
Found at i:359005 original size:158 final size:157
Alignment explanation
Indices: 358761--359374 Score: 718
Period size: 158 Copynumber: 3.9 Consensus size: 157
358751 AATAACAGGA
** * * * * * * * *
358761 TTGGAGTATCCCCAATGGTAAAAAATAGATGTTTTGGAAATAAAATCGAGGCTAAAGTATACCCT
1 TTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCCCCT
* * *
358826 CGAAAATAACGGGGTTAGAGTATCCCCGATTGT-AGAAAATTGGTGTTTTGAAAATAAAACTGGG
66 CAAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATTAGTGTTTTGAAAATAAAACTGGG
358890 GTTGGAGTATCCCCTCAAAAGTAATGAGG
130 GTTGGAGTATCCCCTCAAAA-TAATGAGG
* * * *
358919 TTGGAATATCCCTGATTGTGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCCT
1 TTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCCCCT
** * * *
358984 CGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAAG-ATTTCGGAAATAAAA-TCGG
66 CAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTTTTGAAAATAAAACT-GG
*
359047 GGTTGGAGTATCCCTTCAAAAATAAT-AGGG
129 GGTTGGAGTATCCCCTC-AAAATAATGA-GG
* *
359077 TTGGAGTATCCCTCATTGTGAAAAATT-AGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCC
1 TTGGAGTATCCCTGATTGTGAAAAATTGA-TGTTTTGAAAATAAAACCGAGGTTAGAGTATCCCC
* * ** * **
359141 TCAAAAATAAC-GGGTTTGCGTATCCCTAATTGTGAAAAATCAGTGTTTTGAAAATAAAACCAGG
65 TCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACTGGG
* *
359205 GTTGGAGTATCCCCTCGAAAATAACGGGG
130 GTTGGAGTATCCCCTC-AAAATAATGAGG
* * * * * *
359234 TTGGAGCATCCCTGTTTGTGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCTCTT
1 TTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCCCCT
* * * *
359299 CAAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGA
66 CAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACTGGGG
359364 TTGGAGTATCC
131 TTGGAGTATCC
359375 ACTCGGAAAT
Statistics
Matches: 387, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
156 2 0.01
157 132 0.34
158 247 0.64
159 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (157 bp):
TTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGAGGTTAGAGTATCCCCT
CAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACTGGGG
TTGGAGTATCCCCTCAAAATAATGAGG
Found at i:359255 original size:236 final size:236
Alignment explanation
Indices: 358750--359374 Score: 769
Period size: 236 Copynumber: 2.6 Consensus size: 236
358740 ACCCCCTTAG
* * * * * * * * * *
358750 AAATAACAGGATTGGAGTATCCCCAATGGT-AAAAAATAGATGTTTTGGAAATAAAATCGAGGCT
1 AAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATTAG-TATTTCGGAAATAAAATCGGGGTT
* * *
358814 AAAGTATACCC-TCGAAAATAACGGGGTTAGAGTATCCCCGATTGT-AGAAAATTGGTGTTTTGA
65 AGAGTAT-CCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGA
* * *
358877 AAATAAAACTGGGGTTGGAGTATCCCCTCAAAAGTAATGAGGTTGGAATATCCCTGATTGTGAAA
128 AAATAAAACT-GGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAATATCCCTAATTGTGAAA
* * *
358942 AATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCGG
192 AATAGATGTTTTGAAAATAAAACCAAGGTTGGAGTATCCCCTCGA
*
358987 AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAAG-ATTTCGGAAATAAAATCGGGGTT
1 AAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATT-AGTATTTCGGAAATAAAATCGGGGTT
* ** *
359051 GGAGTATCCCTTCAAAAATAATAGGGTTGGAGTATCCCTC-ATTGTGAAAAATTAGTGTTTTGAA
65 AGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCC-CGATTGTGAAAAATTGGTGTTTTGAA
* * **
359115 AATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACG-GGTTTGCGTATCCCTAATTGTGAAAA
129 AATAAAACTG-GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAATATCCCTAATTGTGAAAA
*
359179 ATCAG-TGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCGA
193 AT-AGATGTTTTGAAAATAAAACCAAGGTTGGAGTATCCCCTCGA
* * * * * * *
359223 AAATAACGGGGTTGGAGCATCCCTGTTTGTGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTA
1 AAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATTAGTATTTCGGAAATAAAATCGGGGTTA
* * *
359288 GAGTATCTCTTCAAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATTGGTGTTTTGGAAA
66 GAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAA
359353 TAAAACTGGGATTGGAGTATCC
131 TAAAACTGGG-TTGGAGTATCC
359375 ACTCGGAAAT
Statistics
Matches: 335, Mismatches: 43, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
235 4 0.01
236 193 0.58
237 128 0.38
238 8 0.02
239 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (236 bp):
AAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATTAGTATTTCGGAAATAAAATCGGGGTTA
GAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAA
TAAAACTGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAATATCCCTAATTGTGAAAAATA
GATGTTTTGAAAATAAAACCAAGGTTGGAGTATCCCCTCGA
Found at i:362576 original size:42 final size:41
Alignment explanation
Indices: 362425--362695 Score: 307
Period size: 42 Copynumber: 6.5 Consensus size: 41
362415 TTACTCCTCA
* * * *
362425 AGGACAAAGGAAAAGAAGGAAATTAAGTGTGTCCTACTCTTTG
1 AGGACAAAGG-GAA-AAGGAAATAAAGTGCGTCCTGCTCTTTG
* *
362468 AGGACAAAAGG-AAAGGAAAATAAAGT--GTCCTGCTATTTG
1 AGGACAAAGGGAAAAGG-AAATAAAGTGCGTCCTGCTCTTTG
*
362507 AGGACAAAGGGAAAAGGAAATATAGTGCGTCCTGCTCTTTG
1 AGGACAAAGGGAAAAGGAAATAAAGTGCGTCCTGCTCTTTG
*
362548 AGGACATAAGGGAAAAGGAAATAAAGTGCGTCCTGCTCTTTA
1 AGGACA-AAGGGAAAAGGAAATAAAGTGCGTCCTGCTCTTTG
* * *
362590 AGGAGAAAAGGGAAAATAAGAAAATAAAGTGCGTCCTGCTTTTTG
1 AGGA-CAAAGGG--AA-AAGGAAATAAAGTGCGTCCTGCTCTTTG
* * *
362635 AGGACAAAAGGAAAA-GAAATAAAGTGTGTCCTGTTCTTTG
1 AGGACAAAGGGAAAAGGAAATAAAGTGCGTCCTGCTCTTTG
362675 AGGACAAAGGAGAAAAGGAAA
1 AGGACAAAGG-GAAAAGGAAA
362696 AGGCATCCTA
Statistics
Matches: 196, Mismatches: 21, Indels: 23
0.82 0.09 0.10
Matches are distributed among these distances:
39 29 0.15
40 39 0.20
41 34 0.17
42 48 0.24
43 10 0.05
44 7 0.04
45 29 0.15
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (41 bp):
AGGACAAAGGGAAAAGGAAATAAAGTGCGTCCTGCTCTTTG
Found at i:362759 original size:62 final size:62
Alignment explanation
Indices: 362686--363584 Score: 996
Period size: 62 Copynumber: 14.6 Consensus size: 62
362676 GGACAAAGGA
* * * *
362686 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * ** *
362748 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGACCACCAACTCATGTGGGTTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG-CCACCAACTTGTGTGGGCTTT
* * * * * *
362811 AAAAAGAAAAAGACGTCTTGCTCTTTGAGGAC-AAAAGGGTGCCACCAGCTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTTGTGTGGGCTTT
* * * * *
362873 GAAAAGAAAAAGACGTCTTG-TCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* ** * * **
362934 GAAAAGAAAAAGAAGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *** * * * *
362996 GAAAAGAAAAAAATGTCCTACTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
363058 GAAAAGGAAAATGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
363120 G-ATAGGAAAA--CGTCCTACTCTTTGAGGAATAGAAGGTGCCACCAACTTGTATGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
363179 -AAAAAGAAAAGGCATTCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
363240 -TAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTCT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
363301 -AAAAGGAAAATGCGTCCTGCTTTTTGAGGAATGAAAA-GTGCCACCAACTTGTATGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
363362 GAAAAGGAAAATGCATCATGCTTTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
363423 TAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTATGTGGGCTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
** * * *
363485 -AAAAGGAAAATACATCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGTGT-GGCTTTT
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGC-TTT
* * *
363546 GAAAAGGAACAGGTGTCCTACTCTTTGAGGACTAAAAGG
1 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
363585 GCTAAAAGGG
Statistics
Matches: 727, Mismatches: 95, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
59 51 0.07
60 10 0.01
61 297 0.41
62 320 0.44
63 49 0.07
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:362963 original size:123 final size:123
Alignment explanation
Indices: 362686--363584 Score: 951
Period size: 123 Copynumber: 7.3 Consensus size: 123
362676 GGACAAAGGA
* * * * *
362686 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTTGAA
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * * *
362751 AAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGACCACCAACTCATGTGGGTTTT
65 AAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTG-CCACCAACTCGTGTGGGCTTT
* * * *
362811 AAAAAGAAAAAGACGTCTTGCTCTTTGAGGAC-AAAAGGGTGCCACCAGCTCGTGTGGGCTTTGA
1 GAAAAGAAAAAG-CGTCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTTGTGTGGGCTTTGA
* * *
362875 AAAGAAAAAGACGTCTTG-TCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
64 AAAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * **
362934 GAAAAGAAAAAGAAGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAA
1 GAAAAGAAAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* ** * * *
362999 AAGAAAAAAATGTCCTACTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT
65 AAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* *
363058 GAAAAGGAAAATGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-A
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * * * * * * *
363122 TAG-GAAA-ACGTCCTACTCTTTGAGGAATAGAAGGTGCCACCAACTTGTATGGGCTTT
65 AAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
363179 AAAAAGAAAAGGCATTCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-TA
1 GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * * * * *
363242 AAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTCT
65 AAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
363301 -AAAAGGAAAATGCGTCCTGCTTTTTGAGGAATGAAAA-GTGCCACCAACTTGTATGGGCTTTGA
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGA
* * *
363364 AAAGGAAAATG-CATCATGCTTTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
64 AAA-GAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
363423 TAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTATGTGGGCTTT-AA
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA
* * * * *
363487 AAGGAAAATACATCCTGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGTGT-GGCTTTT
65 AAGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGC-TTT
* * * *
363546 GAAAAGGAACAGGTGTCCTACTCTTTGAGGACTAAAAGG
1 GAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTAAAAGG
363585 GCTAAAAGGG
Statistics
Matches: 663, Mismatches: 94, Indels: 36
0.84 0.12 0.05
Matches are distributed among these distances:
120 51 0.08
121 64 0.10
122 146 0.22
123 215 0.32
124 123 0.19
125 64 0.10
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (123 bp):
GAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
AGAAAAAGACATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:368559 original size:31 final size:31
Alignment explanation
Indices: 368521--368583 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
368511 GAAAGTGCGT
368521 GATGTGTGTTGGGGAAACAAACAAACCTTTA
1 GATGTGTGTTGGGGAAACAAACAAACCTTTA
368552 GATGTGTGTTGGGGAAACAAACAAACCTTTA
1 GATGTGTGTTGGGGAAACAAACAAACCTTTA
368583 G
1 G
368584 TTTTACTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (31 bp):
GATGTGTGTTGGGGAAACAAACAAACCTTTA
Found at i:369847 original size:79 final size:79
Alignment explanation
Indices: 369749--370332 Score: 710
Period size: 79 Copynumber: 7.4 Consensus size: 79
369739 TATTTTAGAG
* * * * * *
369749 ATAAAAACGGGGTCGGAGTACCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
369814 TTGATGTTTTGAAA
66 TTGATGTTTTGAAA
* ** * *
369828 ATAAAATCGGGGTTCGAGTATCCTTTC-GAAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
*
369892 ATTGGTGTTTTGAAA
65 ATTGATGTTTTGAAA
* * * * * *
369907 ATAAAACCAGGGTTGGAGTATCCTCTCAGAAATAACGAGATTGGAGTATCCCCAATTGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
369972 TTGATGTTTTGGAA
66 TTGATGTTTTGAAA
* ***
369986 ATAAAA-CTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTTTCGATTGTGAAAA
1 ATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
*
370050 ATTGGTGTTTTGAAA
65 ATTGATGTTTTGAAA
* ** * *
370065 ATAAAATCGGGGGTACAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGGTTGTAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA
* * *
370129 ATTGGTATTTTGGAA
65 ATTGATGTTTTGAAA
* * * * * *
370144 ATAAAATCGAGGTTGGAGTGTCCCTTCGGAAATAACGGGGTTGGAGTAACCCCGATTGTAAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
370209 TTAATGTTTTGAAA
66 TTGATGTTTTGAAA
* *
370223 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGCATCCCCGATTGTGAAAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
*
370288 TTGATATTTT-AGAA
66 TTGATGTTTTGA-AA
*
370302 ATAAAATCGGGATTGGAGTATCCCCTC-GAAA
1 ATAAAATCGGGGTTGGAGTATCCCCTCAGAAA
370333 ATAAAAACAT
Statistics
Matches: 430, Mismatches: 68, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
78 7 0.02
79 420 0.98
80 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
ATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TTGATGTTTTGAAA
Found at i:372761 original size:20 final size:20
Alignment explanation
Indices: 372732--372785 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
372722 TAAAACCCAG
*
372732 AATGTTTCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
372752 AATGTATCGATACACTGAAC
1 AATGTATCGATACAATGAAC
372772 AATGTATCGATACA
1 AATGTATCGATACA
372786 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:372795 original size:70 final size:70
Alignment explanation
Indices: 372682--372835 Score: 236
Period size: 70 Copynumber: 2.2 Consensus size: 70
372672 AAAATGCCTA
* *
372682 AATGTATCAATACATTGAAAAATGTATCGATACATATGGGTAAAACCCAGAATGTTTCGATACAA
1 AATGTATCAATACACTGAAAAATGTATCGATACATATGGGTAAAACCCAGAATGTATCGATACAA
372747 TGAAC
66 TGAAC
* * * *
372752 AATGTATCGATACACTGAACAATGTATCGATACATCTGGGTAAAACCTAGAATGTATCGATACAA
1 AATGTATCAATACACTGAAAAATGTATCGATACATATGGGTAAAACCCAGAATGTATCGATACAA
372817 TGAAC
66 TGAAC
* *
372822 AATGTGTTAATACA
1 AATGTATCAATACA
372836 AATTGTGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (70 bp):
AATGTATCAATACACTGAAAAATGTATCGATACATATGGGTAAAACCCAGAATGTATCGATACAA
TGAAC
Found at i:373662 original size:22 final size:22
Alignment explanation
Indices: 373634--373680 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
373624 AGCAGCTGAA
*
373634 TTGCTTTTTCTTTAATTTGTTC
1 TTGCTTTTTCTTTAATTTCTTC
373656 TTGCTTTTTCTTTAATTTCTTC
1 TTGCTTTTTCTTTAATTTCTTC
373678 TTG
1 TTG
373681 TTGTCGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.09, C:0.15, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGCTTTTTCTTTAATTTCTTC
Found at i:375283 original size:14 final size:14
Alignment explanation
Indices: 375264--375298 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
375254 TTTTAATAAT
*
375264 AAAATCACACAAAA
1 AAAATCAAACAAAA
375278 AAAATCAAACAAAA
1 AAAATCAAACAAAA
375292 AAAATCA
1 AAAATCA
375299 TCAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.74, C:0.17, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAATCAAACAAAA
Found at i:379678 original size:130 final size:131
Alignment explanation
Indices: 379477--379750 Score: 489
Period size: 130 Copynumber: 2.1 Consensus size: 131
379467 AATGACAGGG
379477 TTGGAGTATCCCC-TCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGATTTA
1 TTGGAGTATCCCCGTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGATTTA
*
379541 GAAATAAGGCAAGGGTTAAAGTGTCCCTGATTATAGAAAATAGATGTTTCAAAAATAAAATCGGG
66 GAAATAAGGCAAGGGTTAAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATCGGG
379606 A
131 A
* *
379607 TTTGAGTATCCCCGT-GAAAATAATGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGATTTA
1 TTGGAGTATCCCCGTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGATTTA
*
379671 GAAATAAGGCAAGGGTTGAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATCGGG
66 GAAATAAGGCAAGGGTTAAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATCGGG
379736 A
131 A
*
379737 TTGGAATATCCCCG
1 TTGGAGTATCCCCG
379751 ATTGTGGAGA
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
130 136 0.99
131 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (131 bp):
TTGGAGTATCCCCGTCGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGATTTA
GAAATAAGGCAAGGGTTAAAGTGTCCCCGATTATAGAAAATAGATGTTTCAAAAATAAAATCGGG
A
Found at i:379975 original size:107 final size:108
Alignment explanation
Indices: 379807--380011 Score: 286
Period size: 107 Copynumber: 1.9 Consensus size: 108
379797 CCCCTTGAAA
* ** * *
379807 ATAACGGGGTTGGAGTATCCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGG
1 ATAACGGGCTTGGAGTATCCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGG
*
379872 AGTATCCCCTCGGAAATAACGGAATTGGAGTATTCCCGATGAC
66 AGTATCCCCGCGGAAATAACGGAATTGGAGTATTCCCGATGAC
* * *
379915 ATAACGGGCTTGGAGTA-CCCCCGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTGG
1 ATAACGGGCTTGGAGTATCCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGG
* * **
379979 AGTATCCTCGCTGAAATAACGGGGTTGGAGTAT
66 AGTATCCCCGCGGAAATAACGGAATTGGAGTAT
380012 CCCCAATTGT
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
107 68 0.81
108 16 0.19
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (108 bp):
ATAACGGGCTTGGAGTATCCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGG
AGTATCCCCGCGGAAATAACGGAATTGGAGTATTCCCGATGAC
Found at i:380058 original size:79 final size:78
Alignment explanation
Indices: 379895--380068 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 78
379885 AAATAACGGA
* *
379895 ATTGGAGTATTCCCGATGACATAACGGGCTTGGAGTACCCCCGATTATGAAAAATCAATATTTTA
1 ATTGGAGTA-TCCCGATGAAATAACGGGCTTGGAGTACCCCCAATTATGAAAAATCAATATTTTA
* *
379960 GATATAAAGCCGGG
65 GAAATAAAGCCAGG
* * * * * * *
379974 GTTGGAGTATCCTCGCTGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTAATGTTTTA
1 ATTGGAGTATCC-CGATGAAATAACGGGCTTGGAGTACCCCCAATTATGAAAAATCAATATTTTA
*
380039 GAAATGGAA-CCAGG
65 GAAAT-AAAGCCAGG
380053 ATTGGAGTATCACCGA
1 ATTGGAGTATC-CCGA
380069 GATGAAAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 3 0.04
79 72 0.92
80 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (78 bp):
ATTGGAGTATCCCGATGAAATAACGGGCTTGGAGTACCCCCAATTATGAAAAATCAATATTTTAG
AAATAAAGCCAGG
Found at i:382387 original size:20 final size:20
Alignment explanation
Indices: 382362--382455 Score: 120
Period size: 20 Copynumber: 4.7 Consensus size: 20
382352 AAAATGCCTG
*
382362 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
382382 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
* *
382402 AATATATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
382422 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
382442 AATGTATCGATACA
1 AATGTATCGATACA
382456 TCTGGGTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:383097 original size:13 final size:13
Alignment explanation
Indices: 383079--383103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
383069 CATAAAGTGT
383079 TGTATCGATACAA
1 TGTATCGATACAA
383092 TGTATCGATACA
1 TGTATCGATACA
383104 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:383119 original size:32 final size:33
Alignment explanation
Indices: 383059--383124 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
383049 TTCAACGATT
383059 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
383092 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
383124 T
1 T
383125 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:383183 original size:13 final size:13
Alignment explanation
Indices: 383165--383189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
383155 ATTACTCAAA
383165 TGTATCGATACAT
1 TGTATCGATACAT
383178 TGTATCGATACA
1 TGTATCGATACA
383190 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:383254 original size:52 final size:52
Alignment explanation
Indices: 383198--383326 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
383188 CACTGATCTT
*
383198 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATATACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
383250 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
383302 TGTATCGATATATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
383327 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:387662 original size:20 final size:20
Alignment explanation
Indices: 387615--387689 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
387605 AAAAAGACAT
*
387615 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
387634 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
387655 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
387675 AATGTATCGATACAT
1 AATGTATCGATACAT
387690 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:387683 original size:40 final size:39
Alignment explanation
Indices: 387612--387689 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
387602 GGTAAAAAGA
* *
387612 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
387651 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
387690 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:388266 original size:32 final size:32
Alignment explanation
Indices: 388225--389419 Score: 1471
Period size: 32 Copynumber: 39.0 Consensus size: 32
388215 GATTTCAAAA
* ** *
388225 GGGTTGCCACTGACTTGCATGGGCTTTTAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388257 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388289 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388321 GGGTTGCCACCGACTTGTGTGGGTTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388353 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388385 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388417 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388449 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388481 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388513 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388545 GGGTTGCCACCGACTTGTGT-GGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388576 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
388608 GAGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388640 GGGTTGCCACCGACTTGTGTGGGTTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388672 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388704 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388736 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388768 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388800 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388832 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388864 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388896 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
388928 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
388960 GGGTTGCCACCGAC-T-TGTGGGCTCTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
** * *
388989 GGG-TGCCACTAAC-T-TGTGGGCTCTGAAAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* * *
389018 GAG-TGCCACTGGC-T-TGTGGGCTTTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
389046 GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
389075 GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAAT
* ** *
389104 -GGATGCCAATGA-GT-TGTGGGCTTTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
389132 GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
389161 GAG-TGCCACTGA-TT-TGTGGGCTTTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
389189 GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAAT
* * *
389218 GGAG-TGCCACTGAC-T-TGTGGGCTTTAAAAA
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAAT
* * *
389248 GAG-TGCCACTGA-TT-TGTGGGCTTTGAAAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* ** *
389277 GAG-TGCCACTAAC-T-TGTAGGCTTTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
389305 GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
389334 GGG-TGCCACTGAC-T-TGTGGGCTTTGAAAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
389363 GAG-TGCCACTGA-TT-TGTGGGCTTTGAAA-
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
*
389391 GGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA
1 GG-GTTGCCACCGACTTGTGTGGGCTTTGAAA
389420 GGGATGAACA
Statistics
Matches: 1101, Mismatches: 43, Indels: 41
0.93 0.04 0.03
Matches are distributed among these distances:
27 1 0.00
28 100 0.09
29 289 0.26
30 14 0.01
31 31 0.03
32 666 0.60
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.30
Consensus pattern (32 bp):
GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
Found at i:390680 original size:18 final size:18
Alignment explanation
Indices: 390654--390689 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
390644 TTTTTGCTAT
*
390654 TTTTTTTTTGTTTTTTTG
1 TTTTATTTTGTTTTTTTG
*
390672 TTTTATTTTTTTTTTTTG
1 TTTTATTTTGTTTTTTTG
390690 GGTGTAACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (18 bp):
TTTTATTTTGTTTTTTTG
Found at i:392954 original size:16 final size:17
Alignment explanation
Indices: 392923--392955 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
392913 TTAAAGGACG
392923 ACCAAGCACCGGCGGGT
1 ACCAAGCACCGGCGGGT
*
392940 ACCAA-CACTGGCGGGT
1 ACCAAGCACCGGCGGGT
392956 TTGACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.09
Consensus pattern (17 bp):
ACCAAGCACCGGCGGGT
Found at i:404744 original size:20 final size:20
Alignment explanation
Indices: 404697--404771 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
404687 AAAAAGACAT
*
404697 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
404716 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
404737 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
404757 AATGTATCGATACAT
1 AATGTATCGATACAT
404772 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:404765 original size:40 final size:39
Alignment explanation
Indices: 404694--404771 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
404684 GGTAAAAAGA
* *
404694 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
404733 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
404772 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:415505 original size:52 final size:52
Alignment explanation
Indices: 415420--415544 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
415410 ATATGAAAAG
* *
415420 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
415472 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
415524 TTGCCTGCATGTATCAATACA
1 TTGCCTGCATGTATCGATACA
415545 AAGATCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:415555 original size:52 final size:52
Alignment explanation
Indices: 415420--415564 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
415410 ATATGAAAAG
* * * *
415420 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCAATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
* ***
415472 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCAATACATAAGATAATGTATCGATACATCTGGGCAAAT
415524 TTGCCTGCATGTATCAATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCAATACATAAGAT-AATGTATCGATACA
415565 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 4 0.05
52 80 0.95
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCAATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:415568 original size:13 final size:13
Alignment explanation
Indices: 415550--415575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
415540 ATACAAAGAT
415550 CAATGTATCGATA
1 CAATGTATCGATA
415563 CAATGTATCGATA
1 CAATGTATCGATA
415576 TATTTGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:415657 original size:33 final size:33
Alignment explanation
Indices: 415620--415684 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
415610 TAGCTTAAAA
415620 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
415653 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
415685 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:415658 original size:13 final size:13
Alignment explanation
Indices: 415640--415664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
415630 CAAAAAAATA
415640 TGTATCGATACAT
1 TGTATCGATACAT
415653 TGTATCGATACA
1 TGTATCGATACA
415665 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:416044 original size:52 final size:52
Alignment explanation
Indices: 415963--416072 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
415953 AGTGTCTACA
* * *
415963 GATACATTTCATAGTGTATCGATATATCTGGGCAAATTTGCCTGCATGTATC
1 GATACATTTCATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATC
*
416015 GATACATTTTATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATC
1 GATACATTTCATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATC
416067 GATACA
1 GATACA
416073 AAGATCAGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
GATACATTTCATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATC
Found at i:416083 original size:52 final size:52
Alignment explanation
Indices: 415973--416092 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 52
415963 GATACATTTC
* * * ***
415973 ATAGTGTATCGATATATCTGGGCAAATTTGCCTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATCGATACATAAG
416025 ATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATCGATACATAAG
416076 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
416093 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGAAAATTTACCTGCATGTATCGATACATAAG
Found at i:416099 original size:13 final size:13
Alignment explanation
Indices: 416081--416105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
416071 CAAAGATCAG
416081 TGTATCGATACAA
1 TGTATCGATACAA
416094 TGTATCGATACA
1 TGTATCGATACA
416106 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:416185 original size:13 final size:13
Alignment explanation
Indices: 416167--416191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
416157 ACAAAACTTA
416167 TGTATCGATACAT
1 TGTATCGATACAT
416180 TGTATCGATACA
1 TGTATCGATACA
416192 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:416185 original size:32 final size:33
Alignment explanation
Indices: 416146--416211 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
416136 AGTAGCTTAA
416146 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
416178 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
416211 A
1 A
416212 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:417088 original size:58 final size:55
Alignment explanation
Indices: 417046--417186 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 55
417036 GGTGCCACTG
417046 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAA-GA--CGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAATGAGGCGCCAATA
* * * *
417098 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG--ACAT-AGGCACCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAATGAGGCGCCAATA
*
417150 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
417187 CTAATGTGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 3 0.04
52 78 0.96
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (55 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAATGAGGCGCCAATA
Found at i:417350 original size:49 final size:49
Alignment explanation
Indices: 417025--417549 Score: 495
Period size: 43 Copynumber: 11.1 Consensus size: 49
417015 CTTAGGAATG
* * * *
417025 TTAAAGATGAAGGTGCCACTGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
**
417074 TTAAAGATGATAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAT---GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* **
417126 TTAAAAATGACATAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG--AT-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * * *
417178 TT-AA-A-GA---TGCTAATGTGCTAATTCAAGGCTAGCGACATTGGGC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
417221 TTAAAAAATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
417271 TT---G--GA-GTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
417314 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
417363 TTAAAG--G-TGCTG---ATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
417406 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
417455 TT--A-A--A-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
417498 TTAAAGAAGAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGGC
1 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
417547 TTA
1 TTA
417550 GAAGGGTTGC
Statistics
Matches: 398, Mismatches: 48, Indels: 60
0.79 0.09 0.12
Matches are distributed among these distances:
43 137 0.34
44 3 0.01
45 4 0.01
46 11 0.03
47 5 0.01
48 3 0.01
49 118 0.30
50 33 0.08
51 2 0.01
52 80 0.20
54 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:417379 original size:92 final size:92
Alignment explanation
Indices: 417091--417554 Score: 649
Period size: 92 Copynumber: 5.0 Consensus size: 92
417081 TGATAAAGAC
* * * * **
417091 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGACATAGGCACCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG--A-AGGTGCCAATATGCTGA
*
417156 TTCAAGGCCAGCGATATTGGACTTAAAGAT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* * * * * * *
417186 GCTAATGTGCTAATTCAAGGCTAGCGACATTGGGCTTAAAAAATGAGGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT
** *
417251 CAAGGCCAGCGATATTGGACTTGGAGTT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
*
417279 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
417344 AAGGCCAGCTATATTAGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
**
417371 GCTGATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
417436 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
417463 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTT
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
417528 AAGGCCAGCTATATTGGGCTTAGAAGG
66 AAGGCCAGCGATATTGGACTTA-AAGG
417555 GTTGCCACCG
Statistics
Matches: 332, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
92 216 0.65
93 77 0.23
94 1 0.00
95 31 0.09
96 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:417628 original size:65 final size:65
Alignment explanation
Indices: 417542--418083 Score: 790
Period size: 65 Copynumber: 8.5 Consensus size: 65
417532 CCAGCTATAT
*
417542 TGGGC-TTAG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
* *
417605 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTGT
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCAACTTGT
417669 G
65 G
* * * *
417670 TGGGCTTT-GAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAG-AGGGTTGCCATCGACTTGT
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGT
417733 G
65 G
* *
417734 TGGGCTTTAG-AA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
* *
417797 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
* *
417862 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
* *
417924 TGGGCTTTAGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAGAG--GGGATTGCCACCAACTTG
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG-TTGCCACCAACTTG
417987 TG
64 TG
*
417989 TGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGT
418053 G
65 G
418054 TGGGCTTTAG-AA-GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTG
418084 GGATTTTGAA
Statistics
Matches: 442, Mismatches: 21, Indels: 33
0.89 0.04 0.07
Matches are distributed among these distances:
62 73 0.17
63 67 0.15
64 36 0.08
65 259 0.59
66 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (65 bp):
TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
Found at i:417806 original size:160 final size:161
Alignment explanation
Indices: 417542--418083 Score: 900
Period size: 160 Copynumber: 3.4 Consensus size: 161
417532 CCAGCTATAT
*
417542 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAA-GGTTGCCACCGACTTGTG
* * *
417605 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
63 TGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCGACTTGT
417669 GTGGGCTTT-GAAAAAGGTTGCCACCAACTTGTG
128 GTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTG
*
417702 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTGTGG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTGTGG
*
417767 GCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAA-AGGGTTGCCACCGACTTGTGTG
66 GCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCGACTTGTGTG
417831 GGCTTTAGAAAAAGGTTGCCACCAACTTGTG
131 GGCTTTAGAAAAAGGTTGCCACCAACTTGTG
417862 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTGTGG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTGTGG
* *
417927 GCTTTAGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAG-AG-GGGATTGCCACCAACTTGTGT
66 GCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGG-TTGCCACCGACTTGTGT
* *
417990 GGGCTTTAGAAAAGGGTTGCCACCGACTTGTG
130 GGGCTTTAGAAAAAGGTTGCCACCAACTTGTG
*
418022 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
418084 GGATTTTGAA
Statistics
Matches: 363, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
159 58 0.16
160 273 0.75
161 5 0.01
162 27 0.07
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (161 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTGTGG
GCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCGACTTGTGTG
GGCTTTAGAAAAAGGTTGCCACCAACTTGTG
Found at i:417869 original size:192 final size:188
Alignment explanation
Indices: 417542--418083 Score: 840
Period size: 192 Copynumber: 2.8 Consensus size: 188
417532 CCAGCTATAT
*
417542 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGT
1 TGGGCTTTAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGA-AAAGGTTGCCACCAACTTGTGT
* *
417606 GGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGT
64 GGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGT
* * *
417671 GGGCTTTGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
129 GGGCTTT-AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGA-A-GGTTGCCACCGACTTGTG
417734 TGGGCTTTAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTG
1 TGGGCTTTAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-AAAAGGTTGCCACCAACTTGTGTG
*
417799 GGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTG
65 GGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTG
*
417864 GGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
130 GGCTTTA-AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
* **
417924 TGGGCTTTAGAAAAAGGTTGCCACTGACTTGTGTGGGCTTTAG-AGGGGATTGCCACCAACTTGT
1 TGGGCTTTAG---AAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG-TTGCCACCAACTTGT
*
417988 GTGGGCTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AAAGGGTTGCCACCGACTTG
62 GTGGGCTTTAG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTG
418052 TGTGGGCTTT-AGAAGGTTGCCACCGACTTGTG
126 TGTGGGCTTTAAGAAGGTTGCCACCGACTTGTG
418084 GGATTTTGAA
Statistics
Matches: 328, Mismatches: 14, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
190 48 0.15
191 5 0.02
192 207 0.63
193 68 0.21
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (188 bp):
TGGGCTTTAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACTTGTGTGG
GCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGG
GCTTTAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGTTGCCACCGACTTGTG
Found at i:418157 original size:27 final size:27
Alignment explanation
Indices: 418105--418247 Score: 97
Period size: 34 Copynumber: 4.7 Consensus size: 27
418095 AGGAGAAAGA
* *
418105 TGCCACGCAGTTGTGGACGTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
418132 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTT-------AAAAGGG
* *
418166 TGCCACAGAGTTGTGGGCTTCAAAAGGG
1 TGCCACGGAGTTGTGGACTT-AAAAGGG
*
418194 TGCCACGGAGTTGTGGGCTTTAAAAAGACAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----GG
418228 TGCCACGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
418248 TAAGAAGGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
27 18 0.19
28 23 0.25
29 7 0.08
33 2 0.02
34 43 0.46
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:418169 original size:34 final size:32
Alignment explanation
Indices: 418125--418253 Score: 115
Period size: 34 Copynumber: 4.0 Consensus size: 32
418115 TTGTGGACGT
418125 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTA-AA-GA
* * * *
418159 AAAAGAGTGCCACAGAGTTGTGGGCTT----C
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
*
418187 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAA-A
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGA
* *
418219 AGACAAAGGTGCCACGGAGTTGTGGACTTTAAGA
1 A-A-AAGGGTGCCACGGAGTTGTGGACTTAAAGA
418253 A
1 A
418254 GGTATTTGAC
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
28 23 0.29
29 2 0.03
32 1 0.01
33 5 0.06
34 47 0.60
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
Found at i:418199 original size:28 final size:28
Alignment explanation
Indices: 418159--418218 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
418149 CTTAGAAGGA
418159 AAAAGAGTGCCACAGAGTTGTGGGCTTC
1 AAAAGAGTGCCACAGAGTTGTGGGCTTC
* * *
418187 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTC
418215 AAAA
1 AAAA
418219 AGACAAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (28 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTC
Found at i:418200 original size:62 final size:61
Alignment explanation
Indices: 418064--418245 Score: 190
Period size: 62 Copynumber: 2.9 Consensus size: 61
418054 TGGGCTTTAG
* * * * *
418064 AAGGTTGCCACCGACTTGTGGGATTTTGAAAAGGAGAAAGA-TGCCACGCAGTTGTGGACGTAA
1 AAGGGTGCCACGGAGTTGT-GGACTTT-AAAAGGAAAAAGAGTGCCACG-AGTTGTGGACGTAA
* * *
418127 AAGGGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTCAA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCAC-GAGTTGTGGACGT-AA
* * *
418189 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGACAAAG-GTGCCACGGAGTTGTGGAC
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCAC-GAGTTGTGGAC
418246 TTTAAGAAGG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
60 11 0.11
61 18 0.18
62 45 0.45
63 27 0.27
ACGTcount: A:0.30, C:0.15, G:0.35, T:0.20
Consensus pattern (61 bp):
AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAGTGCCACGAGTTGTGGACGTAA
Found at i:419221 original size:28 final size:27
Alignment explanation
Indices: 419190--419250 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
419180 GTGAAAAGGG
419190 GTTTTTCCCTTCTTCTTCTTTT-TTTTTT
1 GTTTTT-CCTTCTT-TTCTTTTCTTTTTT
* *
419218 GTTTTTTCTTCTTTTTTTTTCCTTTTTT
1 GTTTTTCCTTCTTTTCTTTT-CTTTTTT
419246 GTTTT
1 GTTTT
419251 GTTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 6 0.21
28 17 0.59
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (27 bp):
GTTTTTCCTTCTTTTCTTTTCTTTTTT
Found at i:419243 original size:21 final size:21
Alignment explanation
Indices: 419191--419245 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
419181 TGAAAAGGGG
* *
419191 TTTTTCCCTTCTTCTTCTTTT
1 TTTTTCCTTTTTTCTTCTTTT
**
419212 TTTTTTGTTTTTTCTTCTTTT
1 TTTTTCCTTTTTTCTTCTTTT
419233 TTTTTCCTTTTTT
1 TTTTTCCTTTTTT
419246 GTTTTGTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTCCTTTTTTCTTCTTTT
Found at i:419250 original size:14 final size:14
Alignment explanation
Indices: 419212--419250 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
419202 TTCTTCTTTT
*
419212 TTTTTTGTTTTTTC
1 TTTTTTGTTTTTCC
419226 TTCTTTT-TTTTTCC
1 TT-TTTTGTTTTTCC
419240 TTTTTTGTTTT
1 TTTTTTGTTTT
419251 GTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTTTTCC
Found at i:419525 original size:9 final size:9
Alignment explanation
Indices: 419513--419553 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
419503 TTTTCTGTGT
419513 TTTTTTTTG
1 TTTTTTTTG
*
419522 TTTTTTTCG
1 TTTTTTTTG
419531 --TTTTTTG
1 TTTTTTTTG
419538 -TTTTTTTG
1 TTTTTTTTG
419546 TTTTTTTT
1 TTTTTTTT
419554 TCATCACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.21
8 7 0.25
9 15 0.54
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:419527 original size:8 final size:8
Alignment explanation
Indices: 419514--419552 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
419504 TTTCTGTGTT
419514 TTTTTTTG
1 TTTTTTTG
419522 TTTTTTTCG
1 TTTTTTT-G
419531 -TTTTTTG
1 TTTTTTTG
419538 TTTTTTTG
1 TTTTTTTG
419546 TTTTTTT
1 TTTTTTT
419553 TTCATCACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:426560 original size:52 final size:52
Alignment explanation
Indices: 426411--426539 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
426401 CGAAATATGA
*
426411 AAATTTGCATGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
426463 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
426515 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
426540 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:426645 original size:32 final size:33
Alignment explanation
Indices: 426604--426665 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
426594 GCTTAAATTG
*
426604 TATCGATACAAAAC-TTATGTATTGATACATTA
1 TATCGATACAAAACTTTATGTATCGATACATTA
*
426636 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAAAACTTTATGTATCGATACA
426666 AATCGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (33 bp):
TATCGATACAAAACTTTATGTATCGATACATTA
Found at i:435043 original size:15 final size:15
Alignment explanation
Indices: 435023--435053 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
435013 CAGGTGCTAC
435023 CCCATTCTCTCTTGT
1 CCCATTCTCTCTTGT
435038 CCCATTCTCTCTTGT
1 CCCATTCTCTCTTGT
435053 C
1 C
435054 TATGGCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.42, G:0.06, T:0.45
Consensus pattern (15 bp):
CCCATTCTCTCTTGT
Found at i:437072 original size:28 final size:28
Alignment explanation
Indices: 437004--437155 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
436994 TTTTCCTTTT
* *
437004 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
437034 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
437062 AAGCCCACAAGTCAGTGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
437090 AAGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
437118 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
437147 AAGCCCACA
1 AAGCCCACA
437156 CAAGTTGGTG
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
27 3 0.03
28 72 0.66
29 13 0.12
30 21 0.19
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:437296 original size:48 final size:49
Alignment explanation
Indices: 437185--437799 Score: 679
Period size: 48 Copynumber: 12.8 Consensus size: 49
437175 TCTAAGTTTG
* ** *
437185 ATATCGCTGGCCTTGAACCAGCATATTGGTGCCTTTATCTTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCCA
* * *
437235 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
437283 ATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATCTTTAAGTCCA
* * *
437335 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGCCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * *
437384 ATATAGCTGGCCTTGAATCAGCATGTTGGCACCTT-GTCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * * *
437432 ATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGCCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* *
437481 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * *
437529 ATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * *
437577 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATCTTTAAGTCCA
*
437629 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
437678 ATGTAGCTGGCCTTGAATCAGCACATTGGTA-C--C-TC----A--CC-
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* *
437716 -TATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * * *
437763 ATGTCGTTGGCCTTGAATCAGCACATTGTCACCTTCA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
437800 AGTCTAACTG
Statistics
Matches: 483, Mismatches: 59, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
37 26 0.05
38 1 0.00
39 1 0.00
40 2 0.00
41 1 0.00
44 1 0.00
45 2 0.00
46 3 0.01
47 3 0.01
48 187 0.39
49 135 0.28
50 29 0.06
51 4 0.01
52 88 0.18
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (49 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
Found at i:437471 original size:97 final size:98
Alignment explanation
Indices: 437185--437706 Score: 701
Period size: 97 Copynumber: 5.3 Consensus size: 98
437175 TCTAAGTTTG
* * * *
437185 ATATCGCTGGCCTTGAACCAGCATATTGGTGCCTTTATCTTTTAAGTCCAATGTAGCTGGCCTTG
1 ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC-TTTAAGTCCAATGTAGCTGGCCTTG
437250 AATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
65 AATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * * * * *
437283 ATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTAATATCGTTGGCCT
1 ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTT-G--TCTTTAAGTCCAATGTAGCTGGCCT
* * *
437348 TGAATCAGCATATTGGCACCTTCACCTTTAAGCCCA
63 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
437384 ATATAGCTGGCCTTGAATCAGCATGTTGGCACC-TTGTCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGTCCAATGTAGCTGGCCTTGA
* *
437448 ATCAGCACATTGGCACCTTCACCTTTAAGCCCA
66 ATCAGCACATTGGCACCTTCATCTTTAAGTCCA
*
437481 ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGTCCAATGTAGCTGGCCTTGA
437545 ATCAGCACATTGGCA-CTTCATCTTTAAGTCCA
66 ATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * * *
437577 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACCTTTAAGTCTAATATCGCTGGCCT
1 ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTT-G--TCTTTAAGTCCAATGTAGCTGGCCT
* *
437642 TGAATCAGCATATTGGCACCTTCATCTTTAAGTCTA
63 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
437678 ATGTAGCTGGCCTTGAATCAGCACATTGG
1 ATATAGCTGGCCTTGAATCAGCATATTGG
437707 TACCTCACCT
Statistics
Matches: 379, Mismatches: 36, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
96 46 0.12
97 135 0.36
98 34 0.09
99 1 0.00
100 76 0.20
101 87 0.23
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (98 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGTCCAATGTAGCTGGCCTTGA
ATCAGCACATTGGCACCTTCATCTTTAAGTCCA
Found at i:437790 original size:85 final size:86
Alignment explanation
Indices: 437630--437790 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 86
437620 TTAAGTCTAA
* *
437630 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATGTAGCTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCTGGCCTTGAA
437695 TCAGCACATTGGTACCTCACC
66 TCAGCACATTGGTACCTCACC
* * *
437716 TATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGTTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCTGGCCTTGAA
437780 TCAGCACATTG
66 TCAGCACATTG
437791 TCACCTTCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 36 0.51
86 34 0.49
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (86 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTAGCTGGCCTTGAA
TCAGCACATTGGTACCTCACC
Found at i:438332 original size:14 final size:14
Alignment explanation
Indices: 438313--438340 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
438303 TGGCGACGAA
438313 TCCATTTCCCATCG
1 TCCATTTCCCATCG
438327 TCCATTTCCCATCG
1 TCCATTTCCCATCG
438341 ACGGACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.43, G:0.07, T:0.36
Consensus pattern (14 bp):
TCCATTTCCCATCG
Found at i:438575 original size:13 final size:13
Alignment explanation
Indices: 438557--438581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
438547 CATAAAGTGT
438557 TGTATCGATACAA
1 TGTATCGATACAA
438570 TGTATCGATACA
1 TGTATCGATACA
438582 TAAATATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:438597 original size:32 final size:33
Alignment explanation
Indices: 438537--438602 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
438527 TTCAACGATT
*
438537 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
438570 TGTATCGATACATAAA-TATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
438602 T
1 T
438603 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:438661 original size:13 final size:13
Alignment explanation
Indices: 438643--438667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
438633 ATTACTCAAA
438643 TGTATCGATACAT
1 TGTATCGATACAT
438656 TGTATCGATACA
1 TGTATCGATACA
438668 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:438720 original size:52 final size:52
Alignment explanation
Indices: 438676--438804 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
438666 CACTGATCTT
438676 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* ** * *
438728 TGTATTGATACATGCAAACAAATTTGCCCATATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
438780 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
438805 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:454799 original size:19 final size:20
Alignment explanation
Indices: 454754--454805 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
454744 TTACAAGCCA
*
454754 ATGTATCGATACATTTTAGG
1 ATGTATCGATACATATTAGG
454774 ATGTATCGATACATATT-GTG
1 ATGTATCGATACATATTAG-G
454794 -TGTATCGATACA
1 ATGTATCGATACA
454806 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTAGG
Found at i:454894 original size:20 final size:21
Alignment explanation
Indices: 454847--454899 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
454837 GCCAATGACC
**
454847 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
454868 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
454888 TGTATCGATACA
1 TGTATCGATACA
454900 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:454905 original size:13 final size:13
Alignment explanation
Indices: 454887--454911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
454877 ACATTTGGTC
454887 ATGTATCGATACA
1 ATGTATCGATACA
454900 ATGTATCGATAC
1 ATGTATCGATAC
454912 TGTGCAATCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:454960 original size:20 final size:20
Alignment explanation
Indices: 454901--454961 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
454891 ATCGATACAA
* * **
454901 TGTATCGATACTGTGCAATC
1 TGTATCGATACTTTTCAAGG
* *
454921 TGTATTGATA-TATTTAAAGG
1 TGTATCGATACT-TTTCAAGG
454941 TGTATCGATACTTTTCAAGG
1 TGTATCGATACTTTTCAAGG
454961 T
1 T
454962 TTTGACCCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (20 bp):
TGTATCGATACTTTTCAAGG
Found at i:455495 original size:22 final size:22
Alignment explanation
Indices: 455468--455512 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
455458 TGTTCTTTTC
455468 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
455490 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
455512 T
1 T
455513 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:456926 original size:20 final size:22
Alignment explanation
Indices: 456887--456930 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
456877 GTTGCTAGTA
*
456887 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
456909 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
456929 TG
1 TG
456931 ATGGGTGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.05, C:0.30, G:0.48, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:457390 original size:13 final size:13
Alignment explanation
Indices: 457372--457409 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
457362 ATAAACCCTT
*
457372 TGTATCGATACAC
1 TGTATCGATACAA
457385 TGTATCGATACAA
1 TGTATCGATACAA
457398 TGTATCGATACA
1 TGTATCGATACA
457410 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:463588 original size:19 final size:20
Alignment explanation
Indices: 463543--463594 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
463533 TTACAAGCCA
*
463543 ATGTATCGATACATTTTAGG
1 ATGTATCGATACATATTAGG
463563 ATGTATCGATACATATT-GTG
1 ATGTATCGATACATATTAG-G
463583 -TGTATCGATACA
1 ATGTATCGATACA
463595 AACAGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTAGG
Found at i:463683 original size:20 final size:21
Alignment explanation
Indices: 463636--463688 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
463626 GCCAATGACC
**
463636 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
463657 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
463677 TGTATCGATACA
1 TGTATCGATACA
463689 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:463694 original size:13 final size:13
Alignment explanation
Indices: 463676--463700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
463666 ACATTTGGTC
463676 ATGTATCGATACA
1 ATGTATCGATACA
463689 ATGTATCGATAC
1 ATGTATCGATAC
463701 TGTGCAATCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:463733 original size:20 final size:20
Alignment explanation
Indices: 463710--463750 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
463700 CTGTGCAATC
463710 TGTATCGATACATTTAAAGG
1 TGTATCGATACATTTAAAGG
* *
463730 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTAAAGG
463750 T
1 T
463751 TTTGACCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTAAAGG
Found at i:464833 original size:28 final size:28
Alignment explanation
Indices: 464786--465674 Score: 977
Period size: 28 Copynumber: 31.7 Consensus size: 28
464776 CTAGAACGTT
* *
464786 CATCTTTTCAAAGCCTACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
464814 CATCTTTTTAAAACCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
** * *
464842 TGTCCTTTT-AAAGACCATAAGTCAGTGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGG
* *
464870 CATCTGTTCAAAGCGCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
464898 CATCTTTTCAAAGCCCACAAGTCAATGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
464926 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
464954 CATCTCTTCAAAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
464982 CATATCTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
465010 CATCCTTTT-AAAGCCCACAAGTCAGTGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGG
* * *
465038 CATCATTTCAAAACCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
465066 CATCTTTTCCAAGCCCACAAGTCAGTGA
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
465094 CACCTTTTTAAAGCCCAAAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
** *
465122 CATCTTTTCAAAATCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
465150 CATCTTTTCCAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
465178 CACCTTTTTAAAGCCCACGAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* **
465206 -AACATTTTCAAAGCCCACAAGTCAAAGG
1 CATC-TTTTCAAAGCCCACAAGTCAGTGG
* *
465234 CACCTTTTCAAAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
465262 CATCTTTTCCAAGCTCACAAGTCAATGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
465290 CA-CTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
465317 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* **
465345 CATCTGTT-AAAGCCCACAAACCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
465372 CATCCTTTCAAAG-CCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
465399 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
465427 CACCCTTTCAAAGCCTACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
465455 CATCCTTGCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
465483 CATCCTTTT-AAAGCTCACAAGTCAGTGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGG
* * *
465511 CACCCTTTCAAAGCCCACAAGTCAGTAG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
465539 CATCCTTTCAAAAACCCATAAGTCAGTGG
1 CATCTTTTC-AAAGCCCACAAGTCAGTGG
*
465568 CA-CTTGTTCAAAGCTCACAAGTCAGTGG
1 CATCTT-TTCAAAGCCCACAAGTCAGTGG
* * * * *
465596 CA-CTATTTTAAATCCCAGAAGTTATTGG
1 CATCT-TTTCAAAGCCCACAAGTCAGTGG
** * **
465624 CATCCATTCAAAACCCACACAAGTTGGTGG
1 CATCTTTTC-AAAGCC-CACAAGTCAGTGG
*
465654 CAACTTTCTCTAAAGCCCACA
1 CATCTTT-TC-AAAGCCCACA
465675 CAAGTTGGTG
Statistics
Matches: 725, Mismatches: 118, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
27 86 0.12
28 573 0.79
29 41 0.06
30 18 0.02
31 7 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:465655 original size:30 final size:32
Alignment explanation
Indices: 465621--465698 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
465611 CAGAAGTTAT
*
465621 TGGCATCCAT-TC-AAAACCCACACAAGTTGG
1 TGGCAACCATCTCTAAAACCCACACAAGTTGG
** *
465651 TGGCAACTTTCTCTAAAGCCCACACAAGTTGG
1 TGGCAACCATCTCTAAAACCCACACAAGTTGG
*
465683 TGGCAACCCT-TCTAAA
1 TGGCAACCATCTCTAAA
465699 CTTTAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.17
31 8 0.20
32 25 0.62
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (32 bp):
TGGCAACCATCTCTAAAACCCACACAAGTTGG
Found at i:466695 original size:20 final size:20
Alignment explanation
Indices: 466670--466742 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
466660 TTTTACTCAG
466670 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
466690 ATGTATCGAGATATGTATGA
1 ATGTATCGATACATTTTTCA
*
466710 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
466730 ATATATTGATACA
1 ATGTATCGATACA
466743 ATCTATCTTT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:466781 original size:91 final size:90
Alignment explanation
Indices: 466620--466789 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 90
466610 TTTTACCCAG
* * * *
466620 ATGTATCGATTCATTTTTCAATATATCGATACATTCTATTTTTTACTCAGATGTATCGATACATT
1 ATGTATCGATACATTCTTCAATATATCGATACAATCTATTTTTTACCCAGATGTATCGATACATT
*
466685 TTTCAATGTATCGAGATATGTATGA
66 TTTCAATATATCGAGATATGTATGA
*
466710 ATGTATCGATACATTCTTCAATATATTGATACAATCTATCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATATATCGATACAATCTAT-TTTTTACCCAGATGTATCGATACAT
466775 TTTTCAATATATCGA
65 TTTTCAATATATCGA
466790 TACATCTAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 35 0.48
91 38 0.52
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (90 bp):
ATGTATCGATACATTCTTCAATATATCGATACAATCTATTTTTTACCCAGATGTATCGATACATT
TTTCAATATATCGAGATATGTATGA
Found at i:472940 original size:13 final size:13
Alignment explanation
Indices: 472922--472949 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
472912 ATACAAAGAT
472922 CAATGTATCGATA
1 CAATGTATCGATA
472935 CAATGTATCGATA
1 CAATGTATCGATA
472948 CA
1 CA
472950 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:472943 original size:33 final size:33
Alignment explanation
Indices: 472904--473141 Score: 102
Period size: 32 Copynumber: 7.4 Consensus size: 33
472894 AATTTCCCAG
472904 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
** *
472937 ATGTATCGATACATTGAGTAATGTATCGATGC-
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
** * * *
472969 AT-T-TCCTTGGCAATAG-CT--TCGTAGCGATACA
1 ATGTATCGAT-ACAA-AGAGTAAT-GTATCGATACA
* * * *
473000 TTGTATCGATAC-AATACTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
* * ** * *
473032 TTGTATCGGTAC-ACCACTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
* ** * *
473064 TTGTATCGATAC-ACCATTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
* ** * *
473096 TTGTATCGATAC-ACCACTTATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
*
473128 TTGTATCGATACAA
1 ATGTATCGATACAA
473142 CACTATGTAT
Statistics
Matches: 171, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
29 1 0.01
30 12 0.07
31 8 0.05
32 117 0.68
33 32 0.19
34 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:473029 original size:32 final size:32
Alignment explanation
Indices: 472993--473158 Score: 271
Period size: 32 Copynumber: 5.2 Consensus size: 32
472983 AGCTTCGTAG
**
472993 CGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACACCACTTATGTAT
*
473025 CGATACATTGTATCGGTACACCACTTATGTAT
1 CGATACATTGTATCGATACACCACTTATGTAT
*
473057 CGATACATTGTATCGATACACCATTTATGTAT
1 CGATACATTGTATCGATACACCACTTATGTAT
473089 CGATACATTGTATCGATACACCACTTATGTAT
1 CGATACATTGTATCGATACACCACTTATGTAT
*
473121 CGATACATTGTATCGATACAACAC-TATGTAT
1 CGATACATTGTATCGATACACCACTTATGTAT
*
473152 CAATACA
1 CGATACA
473159 ATTACTGTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 13 0.10
32 113 0.90
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACACCACTTATGTAT
Found at i:474010 original size:49 final size:49
Alignment explanation
Indices: 473833--474708 Score: 945
Period size: 49 Copynumber: 17.8 Consensus size: 49
473823 AAAAGGATGT
* * * * * *
473833 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* * ** *
473886 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
*
473939 CAATATG-TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
473987 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
474039 CAATATGCTGATTCAAGGACAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
474088 CAATGTGCTGATTCAAGGGCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * **
474140 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
474189 CAATATGCTGATTCAAGGCCAGCGATATTGGATTTTAAAGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGC
* *
474239 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
474291 CAATATGCTGATTTAAGGCCAGCGATAGTGGACTT--A-A--AA-GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * **
474334 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
474383 CAATATGCTGATTCAAGGCCAGCGACATTAGTAC-TAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAAGGTGC
* * * * ** *
474432 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
474481 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
474530 CAATGTGCTGATTCAAGGCCAGCGACATTGGTA-TTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGATGAAGGTGC
*
474579 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
474622 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
474671 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
474709 AGAAGATGCC
Statistics
Matches: 708, Mismatches: 86, Indels: 62
0.83 0.10 0.07
Matches are distributed among these distances:
43 72 0.10
44 2 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 19 0.03
49 365 0.52
50 47 0.07
51 10 0.01
52 146 0.21
53 40 0.06
54 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:474013 original size:101 final size:100
Alignment explanation
Indices: 473833--474708 Score: 1019
Period size: 101 Copynumber: 8.9 Consensus size: 100
473823 AAAAGGATGT
* * * * * * *
473833 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGA-CA-AAG-GTGCCAATATGCTGAT
* ** *
473898 TCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGC
62 TCAAGGCCAGCGACATT-GGACTTAAAGATGAC-AAGGTGC
* * **
473939 CAATATG-TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
474003 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCGT
66 GGCCAGCGACATTGGACTTAAAGATGAC-AAGGTGC
* * * ** *
474039 CAATATGCTGATTCAAGGACAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
474104 GGGCAGCGACATTGGACTTAAAGATGACAAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATGAC-AAGGTGC
* *
474140 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* * *
474205 GGCCAGCGATATTGGATTTTAAAGGTG--AAGGTGC
66 GGCCAGCGACATTGGA-CTTAAAGATGACAAGGTGC
*
474239 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAAGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GACAAAGGTGCCAATATGCTGATT
* * *
474304 TAAGGCCAGCGATAGTGGACTT----A--A-AA-GTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGC
* *
474334 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
474399 GGCCAGCGACATTAGTAC-TAAAGA-CA-AAGGTGC
66 GGCCAGCGACATT-GGACTTAAAGATGACAAGGTGC
* * * *
474432 CAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
474497 GGCCAGCGACATTGGACTTAAAGAT-A-AAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAGGTGC
474530 CAATGTGCTGATTCAAGGCCAGCGACATTGGTA-TTAAAGACAAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG-ACTTAAAGACAAAGGTGCCAATATGCTGATTCA
*
474594 AGGCCAGCGATATTGGAC-T-----T-A-AAGGTGC
65 AGGCCAGCGACATTGGACTTAAAGATGACAAGGTGC
* * *
474622 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
474687 GGCCAGTGATATTGGACTTAAA
66 GGCCAGCGACATTGGACTTAAA
474709 AGAAGATGCC
Statistics
Matches: 689, Mismatches: 60, Indels: 52
0.86 0.07 0.06
Matches are distributed among these distances:
92 123 0.18
93 4 0.01
94 2 0.00
95 38 0.06
96 3 0.00
97 7 0.01
98 168 0.24
99 39 0.06
100 28 0.04
101 193 0.28
102 51 0.07
104 11 0.02
105 16 0.02
106 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (100 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAGGTGC
Found at i:474813 original size:27 final size:27
Alignment explanation
Indices: 474782--474833 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
474772 GGAGAAAGAG
474782 GCCACGGAGTTGTGGACTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTAAAAGGGT
474809 GCCACGGAGTTGTGGACTTAAAAGG
1 GCCACGGAGTTGTGGACTTAAAAGG
474834 AAAAAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.37, T:0.21
Consensus pattern (27 bp):
GCCACGGAGTTGTGGACTTAAAAGGGT
Found at i:474822 original size:63 final size:63
Alignment explanation
Indices: 474740--475124 Score: 154
Period size: 64 Copynumber: 5.9 Consensus size: 63
474730 TGGGCTTTTG
* * * * *
474740 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGG-AGAAAGAG-GCCACGGAGTTGTGGAC-TTA
1 AAGGGTGCCACGGACTTGTGGAC--TT-AAAAGGAAAAAAGAGTGCCACGAAGTTGTGGACTTTA
474802 A
63 A
* *
474803 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAA
1 AAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGACTTT-AA
* * *
474867 AAGAAAAAGGTGCCACGGAGTCGTGGACTT---A-GAAAAGAGA-TGCCACTG-AGTTGTGGACT
1 AAG-----GGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGAGTGCCAC-GAAGTTGTGGACT
474926 TATAGGAAA
60 T-T----AA
** * * ** *
474935 AAGGGATGCCATTGAGTCGTGGACTTTGAAGG-AAAGAGA-TGCCACGAAGTTGTGGACTTTAAA
1 AAGGG-TGCCACGGACTTGTGGACTTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGACTTT-AA
* * * * *
474998 AAGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAG-AAAAAG-GTGCCACGGAGTTGTGGAC
1 AAG-----G-GTGCCACGGACTTGTGGAC-TTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGAC
*
475061 TTAGAA
59 TT-TAA
* * * * *
475067 AAGAGATGCCACTGAGTTGTGGACTT-ACAGG-AAAAAGGGATGCCACTGAA-TTGTGGAC
1 AAG-GGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGAG-TGCCAC-GAAGTTGTGGAC
475125 ATACAGGAAA
Statistics
Matches: 260, Mismatches: 30, Indels: 63
0.74 0.08 0.18
Matches are distributed among these distances:
60 6 0.02
61 9 0.03
62 24 0.09
63 32 0.12
64 69 0.27
65 14 0.05
66 3 0.01
67 26 0.10
68 21 0.08
69 56 0.22
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (63 bp):
AAGGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGACTTTAA
Found at i:474847 original size:35 final size:34
Alignment explanation
Indices: 474801--475362 Score: 424
Period size: 34 Copynumber: 16.7 Consensus size: 34
474791 TTGTGGACTT
* *
474801 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-A
* *
474836 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
*
474871 AAAAG-GTGCCACGGAGTCGTGGACTT----AG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
474899 AAAAGAGATGCCACTGAGTTGTGGACTT-ATAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* ** * ** *
474933 AAAAGGGATGCCATTGAGTCGTGGACTTTGAAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* *
474968 AAGAGA-TGCCACGAAGTTGTGGACTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
* *
475002 AAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
475037 AAAAG-GTGCCACGGAGTTGTGGACTT----AG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* * *
475065 AAAAGAGATGCCACTGAGTTGTGGACTT-ACAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* * * * * *
475099 AAAAGGGATGCCACTGAATTGTGGACAT-ACAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* ** * ** *
475133 AAAAGGGATGCCACTAAGTTGTGGTCTTTGAAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* *
475168 AAGAGA-TGCCACGAAGTTGTGGACTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
475202 AAAAGAGTGCCACGGAGTTGTGTG-CTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTG-GAC-TTAAAAAGA
* * *
475237 AAAAGGGTGCCACGGAGTTATGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
* * * *
475272 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAATA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
* * * *
475307 AAAA-TGTGCCACGGAGTTATGGGCTTGAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
*
475340 AAAAGAGTGCCACAGAGTTGTGG
1 AAAAGAGTGCCACGGAGTTGTGG
475363 GCTTTGAAGA
Statistics
Matches: 442, Mismatches: 63, Indels: 45
0.80 0.11 0.08
Matches are distributed among these distances:
28 10 0.02
29 6 0.01
30 37 0.08
33 47 0.11
34 168 0.38
35 166 0.38
36 8 0.02
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
Found at i:474989 original size:166 final size:165
Alignment explanation
Indices: 474808--475461 Score: 631
Period size: 166 Copynumber: 3.9 Consensus size: 165
474798 CTTAAAAGGG
*
474808 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGAAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
474873 AAGGTGCCACGGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTATAGGAAAAAG
65 AAGGTGCCACGGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTATAGGAAAAAG
*
474938 GGATGCCATTGAGTCGTGGACTTTGAAGGAAAGAGA
130 GGATGCCACTGAGTCGTGGACTTTGAAGGAAAGAGA
* * *
474974 TGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAAA
1 TGCCACGAAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
* *
475039 AAGGTGCCACGGAGTTGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTACAGGAAAAAG
65 AAGGTGCCACGGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTATAGGAAAAAG
* * * *
475104 GGATGCCACTGAATTGTGGAC-AT-ACAGGAAAAAGGGA
130 GGATGCCACTGAGTCGTGGACTTTGA-AGG--AAAGAGA
* * ** * *
475141 TGCCACTAAGTTGTGGTCTTTGAAGGAAAGAGA-TGCCACGAAGTTGTGGACTTTAAAAAGAAAA
1 TGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAA
* * * * * *
475205 AGAGTGCCACGGAGTTGTGTG-CTTTA-AAAAGAAAAAGGGTGCCACGGAGTTATGGGCTTTAAA
66 AG-GTGCCACGGAGTCGTG-GAC-TTAGAAAAG----A-GATGCCACTGAGTTGTGGAC-TT-AT
* * * * ** *
475268 AAGAAAAAGGG-TGCCAC-GAAGTTGTGGGCTTTAAAAATAAAAATG-
121 AGGAAAAAGGGATGCCACTG-AGTCGTGGACTTT-GAAGGAAAGA-GA
* * * *
475313 TGCCACGGAGTTATGGGCTTGAAAA-GAAAAAGAGTGCCAC-AGAGTTGTGGGCTTT--GAAG-A
1 TGCCACGAAGTTGTGGACTT-AAAAGGAAAAAGAGTGCCACGA-AGTTGTGGGCTTTAAAAAGAA
* ** *
475373 AAAGATGCCACTAAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTT-T-GGAGAA
64 AAAGGTGCCACGGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAGTTGTGGACTTATAGGA-AA
* *
475436 AA--AATGCCACTGAGTCATGGACTTTG
127 AAGGGATGCCACTGAGTCGTGGACTTTG
475462 GGACAAAATG
Statistics
Matches: 402, Mismatches: 58, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
161 18 0.04
162 5 0.01
164 4 0.01
165 50 0.12
166 167 0.42
167 33 0.08
168 3 0.01
169 18 0.04
170 6 0.01
171 20 0.05
172 43 0.11
173 33 0.08
174 1 0.00
175 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (165 bp):
TGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAA
AGGTGCCACGGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTATAGGAAAAAGG
GATGCCACTGAGTCGTGGACTTTGAAGGAAAGAGA
Found at i:475364 original size:34 final size:33
Alignment explanation
Indices: 474776--475428 Score: 415
Period size: 34 Copynumber: 19.8 Consensus size: 33
474766 TGAAAAGGAG
474776 AAAGAG-GCCACGGAGTTGTGGACTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
474806 ---G-GTGCCACGGAGTTGTGGACTTAAAAGGAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-G-AA
* *
474837 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
474872 AAAG-GTGCCACGGAGTCGTGGACTT---AG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
474900 AAAGAGATGCCACTGAGTTGTGGACTTATAGGAA
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
* ** * ** *
474934 AAAGGGATGCCATTGAGTCGTGGACTTTGAAG-G
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
*
474967 AAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAA
1 AAAGAG-TGCCACGGAGTTGTGGAC-TT-AAAAGAA
* *
475003 AAAGAGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
475038 AAAG-GTGCCACGGAGTTGTGGACTT---AG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
475066 AAAGAGATGCCACTGAGTTGTGGACTTACAGGAA
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
* * * * * *
475100 AAAGGGATGCCACTGAATTGTGGACATACAGGAA
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
* ** * ** *
475134 AAAGGGATGCCACTAAGTTGTGGTCTTTGAAG-G
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
*
475167 AAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAA
1 AAAGAG-TGCCACGGAGTTGTGGAC-TT-AAAAGAA
475203 AAAGAGTGCCACGGAGTTGTGTG-CTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTG-GAC-TT-AAAAGAA
* * *
475238 AAAGGGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
475273 AAAGGGTGCCACGAAGTTGTGGGCTTTAAAA-ATA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGA-A
* *
475307 AAA-ATGTGCCACGGAGTTATGGGCTTGAAAAGAA
1 AAAGA-GTGCCACGGAGTTGTGGACTT-AAAAGAA
* * **
475341 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
** * *
475373 AAAGA-TGCCACTAAGTCGTGGACTT---TGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
475402 AAGAGATTGCCACTGAGTTGTGGACTT
1 AA-AGAGTGCCACGGAGTTGTGGACTT
475429 TGGAGAAAAA
Statistics
Matches: 518, Mismatches: 66, Indels: 77
0.78 0.10 0.12
Matches are distributed among these distances:
26 1 0.00
27 24 0.05
28 12 0.02
29 9 0.02
30 40 0.08
31 34 0.07
32 6 0.01
33 54 0.10
34 175 0.34
35 143 0.28
36 16 0.03
37 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:475420 original size:62 final size:60
Alignment explanation
Indices: 475338--475521 Score: 210
Period size: 62 Copynumber: 3.0 Consensus size: 60
475328 GGCTTGAAAA
*
475338 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTGGACTTT-
1 GAAAAAGA-TGCCACAGAGTTGTGGGCTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTTG
* * * *
475399 GAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTGG
1 GAAAA-AGA-TGCCACAGAGTTGTGGGCTTT-GAGAAAAGATGCCACTGAGTCGTGGACTTT-G
* ** *
475463 GACAAA-ATGCCACAGAGTCATGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAAGATGCCACAGAGTTGTGGGCTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTT
475522 AAGAAGGTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
60 7 0.07
61 42 0.40
62 49 0.47
63 2 0.02
64 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (60 bp):
GAAAAAGATGCCACAGAGTTGTGGGCTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:475422 original size:200 final size:198
Alignment explanation
Indices: 474775--475429 Score: 634
Period size: 200 Copynumber: 3.3 Consensus size: 198
474765 TTGAAAAGGA
*
474775 GAAAGAG--GCCACGGAGTTGTGGAC-TT-AAAAG--G-GTGCCACGGAGTTGTGGAC-TTAAAA
1 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAAGAGTGCCACGGAGTTGTGG-CTTTAAAA
* * * *
474832 GGAAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAA-GGTGCCACGGAGTCGTGGACT
65 AG-AAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAC-GAGTTGTGGACT
* * * * ** *
474896 TAGAAAAGAGA-TGCCACTGAGTTGTGGACTTATAGGAAAAAGGGATGCCATTGAGTCGTGGACT
128 TAAAAAAAAAAGTGCCACTGAGTTGTGGACTTAAAGGAAAAAGGGATGCCACAGAGTTGTGGACT
474960 TTGAAG
193 TTGAAG
*
474966 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTATGGGCTTTA
1 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAG---AAGAGTGCCACGGAGTTGT-GGCTTTA
* *
475031 AAAAGAAAAA-GGTGCCACGGAGTTGTGGAC-TT----AG-AAAAGAGATGCCACTGAGTTGTGG
62 AAAAGAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GGTGCCAC-GAGTTGTGG
* ** * * *
475089 ACTTACAGGAAAAAGGGATGCCACTGAATTGTGGACATACAGGAAAAAGGGATGCCACTA-AGTT
125 ACTTA-A-AAAAAAAAG-TGCCACTGAGTTGTGGACTTAAAGGAAAAAGGGATGCCAC-AGAGTT
*
475153 GTGGTCTTTGAAG
186 GTGGACTTTGAAG
475166 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGTGCTTTA
1 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAG---AAGAGTGCCACGGAGTTGTG-GCTTTA
* *
475231 AAAAGAAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGGTGCCACGAAGTTGTGGG
62 AAAAGAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACG-AGTTGTGGA
* * * * *
475296 CTTTAAAAATAAAAATGTGCCACGGAGTTATGGGCTTGAAAAGAAAAAGAG-TGCCACAGAGTTG
126 C-TTAAAAA-AAAAA-GTGCCACTGAGTTGTGGACTT-AAAGGAAAAAGGGATGCCACAGAGTTG
*
475360 TGGGCTTTGAA-
187 TGGACTTTGAAG
* * * * *
475371 GAAA-AGATGCCACTAAGTCGTGGACTTTGAAAAG-AGATTGCCACTGAGTTGTGGACTTT
1 GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAAGAGTGCCACGGAGTTGTGG-CTTT
475430 GGAGAAAAAA
Statistics
Matches: 388, Mismatches: 42, Indels: 59
0.79 0.09 0.12
Matches are distributed among these distances:
191 7 0.02
193 16 0.04
194 6 0.02
195 7 0.02
196 20 0.05
198 5 0.01
199 4 0.01
200 162 0.42
201 38 0.10
202 11 0.03
204 27 0.07
205 8 0.02
206 58 0.15
207 19 0.05
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (198 bp):
GAAAGAGATGCCACGAAGTTGTGGACTTTAAAAAGAAGAGTGCCACGGAGTTGTGGCTTTAAAAA
GAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGAGTTGTGGACTTAA
AAAAAAAAGTGCCACTGAGTTGTGGACTTAAAGGAAAAAGGGATGCCACAGAGTTGTGGACTTTG
AAG
Found at i:475527 original size:31 final size:32
Alignment explanation
Indices: 475347--475527 Score: 162
Period size: 31 Copynumber: 5.9 Consensus size: 32
475337 AGAAAAAGAG
* * * *
475347 TGCCACAGAGTTGTGGGCTTTGAAGAAAAG-A
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGAA
* *
475378 TGCCACTAAGTCGTGGACTTTGAA-AAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGAA
* * *
475409 TGCCACTGAGTTGTGGACTTTGGAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGAA
* *
475440 TGCCACTGAGTCATGGACTTTG-GGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AGAGAA
* * * *
475470 TGCCACAGAGTCATGGGCTTTG-AGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAGAGAA
475501 TGCCACTGAGTCGTGGACTTT-AAGAAG
1 TGCCACTGAGTCGTGGACTTTGAAGAAG
475528 GTATTTGAAG
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.01
30 31 0.25
31 89 0.72
32 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAGAGAA
Found at i:476858 original size:15 final size:15
Alignment explanation
Indices: 476825--476876 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
476815 TTTGTGTGTG
*
476825 TTTTGTTTTTTTGT-T
1 TTTTGTTTTTTT-TAC
476840 TTTTGTTTTTTTTAC
1 TTTTGTTTTTTTTAC
476855 TTTTGTTTGTGTGTTTAC
1 TTTTGTTT-T-T-TTTAC
476873 TTTT
1 TTTT
476877 AACATTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 1 0.03
15 20 0.62
16 1 0.03
17 1 0.03
18 9 0.28
ACGTcount: A:0.04, C:0.04, G:0.13, T:0.79
Consensus pattern (15 bp):
TTTTGTTTTTTTTAC
Found at i:483365 original size:20 final size:20
Alignment explanation
Indices: 483340--483394 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
483330 ATTTGCCTGC
*
483340 ATGTATCGATACATTGAATA
1 ATGTATCGATACATCGAATA
*
483360 ATGTATCGATATATCGAATA
1 ATGTATCGATACATCGAATA
483380 ATGTATCGATACATC
1 ATGTATCGATACATC
483395 TGGGTAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATCGAATA
Found at i:483448 original size:13 final size:13
Alignment explanation
Indices: 483430--483457 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
483420 ATACAAAGAT
483430 CAATGTATCGATA
1 CAATGTATCGATA
483443 CAATGTATCGATA
1 CAATGTATCGATA
483456 CA
1 CA
483458 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:483454 original size:33 final size:33
Alignment explanation
Indices: 483412--483475 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
483402 AATTTCCCAG
483412 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
483445 ATGTATCGATACATTGAGTAATGTATCGATA
1 ATGTATCGATACAAAGAGTAATGTATCGATA
483476 TATTTCCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:483519 original size:13 final size:13
Alignment explanation
Indices: 483501--483552 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
483491 AGCTTCGTAG
483501 CGATACATTGTAT
1 CGATACATTGTAT
483514 CGATACAATACTTATGTAT
1 CGATAC---A-TT--GTAT
483533 CGATACATTGTAT
1 CGATACATTGTAT
483546 CGATACA
1 CGATACA
483553 CCACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:483533 original size:19 final size:19
Alignment explanation
Indices: 483509--483591 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
483499 AGCGATACAT
*
483509 TGTATCGATACAATACTTA
1 TGTATCGATACAACACTTA
483528 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
483541 TGTATCGATACACCACTTA
1 TGTATCGATACAACACTTA
483560 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
483579 TGTATCGACACAA
1 TGTATCGATACAA
483592 TTACTGTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.17
14 1 0.02
16 4 0.07
18 1 0.02
19 39 0.72
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Done.