Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 52 of 65
Found at i:10306613 original size:73 final size:73
Alignment explanation
Indices: 10306526--10306665 Score: 201
Period size: 73 Copynumber: 1.9 Consensus size: 73
10306516 AAAGCCAAGT
*
10306526 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGCCTTCACCAAAGAGTAG-TGAAGCAAACC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGCCTTCACCAAAGAGT-GTTGAAGCAAACC
10306590 ATCTTAAGC
65 ATCTTAAGC
* * * ** *
10306599 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAGCCTTCTCGGAAGAGTGTTGGAGCAAACCA
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGCCTTCACCAAAGAGTGTTGAAGCAAACCA
10306664 TC
66 TC
10306666 AGACTATCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 1 0.02
73 58 0.98
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (73 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGCCTTCACCAAAGAGTGTTGAAGCAAACCA
TCTTAAGC
Found at i:10307003 original size:37 final size:36
Alignment explanation
Indices: 10306958--10307029 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 36
10306948 AAACCGGTCA
10306958 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
*
10306994 ATCTGTAAGCCTTCACGGAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
10307030 TCATTTTATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAACC
Found at i:10307224 original size:55 final size:54
Alignment explanation
Indices: 10307044--10307343 Score: 314
Period size: 51 Copynumber: 5.6 Consensus size: 54
10307034 TTTATGAAGA
* * *
10307044 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACATTT-TATAAAGA---
1 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTAT-TGAAGATTT
* * * *
10307095 TCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTAAAGA--T
1 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATTT
10307147 T-GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGAC-CTGTTTATTGAAGATTT
1 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACAC-GTTTATTGAAGATTT
* * *
10307200 TCCGAGTTCTATACTCTCTGAAGGAATAGAGAGTGGACCCGTTTTATTGAAGATTGT
1 T-CGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACG-TTTATTGAAGATT-T
* * * * * *
10307257 TCAAGTCTTATACTCTCTGAATGAATAGGGAGCAGACACATTTA-TGAAGATTGT
1 TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATT-T
*
10307311 TCGAGTCTTATACT-TCCTGAAGGAATAGAGAGC
1 TCGAGTCCTATACTCT-CTGAAGGAATAGAGAGC
10307344 AAGCTCGTCA
Statistics
Matches: 218, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
50 1 0.00
51 90 0.41
52 2 0.01
53 3 0.01
54 38 0.17
55 38 0.17
56 44 0.20
57 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (54 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTATTGAAGATTT
Found at i:10311209 original size:19 final size:15
Alignment explanation
Indices: 10311166--10311205 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10311156 TTATTGAACA
10311166 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10311181 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10311196 TGAATTAATT
1 TGAATTAATT
10311206 AATTAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10312971 original size:25 final size:25
Alignment explanation
Indices: 10312935--10312995 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
10312925 CAGGGGAGGA
* *
10312935 CGACGGCAGCTGCAGCAATGGCAGG
1 CGACGGCGGCTGCAACAATGGCAGG
* *
10312960 CGACTGCGGCTGCAATAATGGCAGG
1 CGACGGCGGCTGCAACAATGGCAGG
10312985 CGACGGCGGCT
1 CGACGGCGGCT
10312996 ATAACAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.39, T:0.11
Consensus pattern (25 bp):
CGACGGCGGCTGCAACAATGGCAGG
Found at i:10315416 original size:15 final size:15
Alignment explanation
Indices: 10315393--10315432 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
10315383 TTATTGAACA
10315393 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
*
10315408 TGAAATAATTTGCTT
1 TGAATTAATTTGCTT
10315423 TGAATTAATT
1 TGAATTAATT
10315433 AATTAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10317396 original size:3 final size:3
Alignment explanation
Indices: 10317383--10317422 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
10317373 ATGTAATTCA
*
10317383 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10317423 TTTTTAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10320583 original size:17 final size:19
Alignment explanation
Indices: 10320546--10320583 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10320536 TCTTTTTTTC
*
10320546 TTTCGAACAGTCTCTCTTT
1 TTTCGAACAGTCTCGCTTT
10320565 TTTCGAACAG-CT-GCTTT
1 TTTCGAACAGTCTCGCTTT
10320582 TT
1 TT
10320584 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (19 bp):
TTTCGAACAGTCTCGCTTT
Found at i:10321464 original size:13 final size:12
Alignment explanation
Indices: 10321444--10321478 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10321434 GCTTAATCGG
10321444 AAAAAAAAATAA
1 AAAAAAAAATAA
*
10321456 AAGAAAAAATAA
1 AAAAAAAAATAA
*
10321468 AAATAAAAATA
1 AAAAAAAAATA
10321479 TAACGGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATAA
Found at i:10326413 original size:15 final size:15
Alignment explanation
Indices: 10326390--10326429 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
10326380 TTATTGAACA
10326390 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
*
10326405 TGAAATAATTTGCTT
1 TGAATTAATTTGCTT
10326420 TGAATTAATT
1 TGAATTAATT
10326430 AATTAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10328021 original size:15 final size:16
Alignment explanation
Indices: 10328001--10328030 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10327991 TTTGAATCCT
10328001 TGATTTTT-TTTTCTC
1 TGATTTTTCTTTTCTC
10328016 TGATTTTTCTTTTCT
1 TGATTTTTCTTTTCT
10328031 TTTTCCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (16 bp):
TGATTTTTCTTTTCTC
Found at i:10333034 original size:15 final size:15
Alignment explanation
Indices: 10332996--10333035 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10332986 TTATTGAACA
10332996 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
* *
10333011 TAAAATAATTTGCTT
1 TGAATTAATTTGCTT
10333026 TGAATTAATT
1 TGAATTAATT
10333036 CATTAATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10337278 original size:19 final size:15
Alignment explanation
Indices: 10337235--10337274 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10337225 TTATTGAACA
10337235 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10337250 TGAATTAATTTGCTT
1 TGAATTAATTTGCTT
10337265 TGAATTAATT
1 TGAATTAATT
10337275 AATTAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (15 bp):
TGAATTAATTTGCTT
Found at i:10340215 original size:15 final size:16
Alignment explanation
Indices: 10340195--10340224 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10340185 TTTGAATCCT
10340195 TGATTTTT-TTTTCTC
1 TGATTTTTCTTTTCTC
10340210 TGATTTTTCTTTTCT
1 TGATTTTTCTTTTCT
10340225 TTGTCCCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (16 bp):
TGATTTTTCTTTTCTC
Found at i:10349426 original size:17 final size:17
Alignment explanation
Indices: 10349406--10349449 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
10349396 GTGGTTGGTT
10349406 TCTTCTGCTTGCCCAAG
1 TCTTCTGCTTGCCCAAG
10349423 TCTTCTGCTTGCCCAAG
1 TCTTCTGCTTGCCCAAG
10349440 TCTTCTGCTT
1 TCTTCTGCTT
10349450 TGTTCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (17 bp):
TCTTCTGCTTGCCCAAG
Found at i:10353441 original size:34 final size:34
Alignment explanation
Indices: 10353402--10353468 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
10353392 AAAAGGAGTT
*
10353402 TTATCT-TTTCAATATTTCAAATTAAAAGATATTG
1 TTATCTATTT-AATATTGCAAATTAAAAGATATTG
* * *
10353436 TTATCTATTTAATGTTGGATATTAAAAGATATT
1 TTATCTATTTAATATTGCAAATTAAAAGATATT
10353469 TGGTTGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (34 bp):
TTATCTATTTAATATTGCAAATTAAAAGATATTG
Found at i:10354218 original size:45 final size:43
Alignment explanation
Indices: 10354167--10354287 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
10354157 GCTAAAGTTC
*
10354167 GCGGCGTTTGTTAACGAAAAACGTCGCAATAGGTGACGATATATA
1 GCGGCGTTTGTTAA--AAAAACGCCGCAATAGGTGACGATATATA
* ** * *
10354212 GCGGCGTTTGTTGAAAAAACGCCGCAATAGGTGTTGCTATTTA
1 GCGGCGTTTGTTAAAAAAACGCCGCAATAGGTGACGATATATA
* *
10354255 GCGGCGTTTGTCT-TAAAAATGCCGCAATAGGTG
1 GCGGCGTTTGT-TAAAAAAACGCCGCAATAGGTG
10354288 TTGTTGTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 53 0.79
44 1 0.01
45 13 0.19
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGTTAAAAAAACGCCGCAATAGGTGACGATATATA
Found at i:10354288 original size:43 final size:43
Alignment explanation
Indices: 10354185--10354419 Score: 211
Period size: 43 Copynumber: 5.5 Consensus size: 43
10354175 TGTTAACGAA
* ** * * * *
10354185 AAACGTCGCAATAGGTGACGATATATAGCGGCGTTTGT-TGAAA
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCT-CAC
* *
10354228 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTTAA
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTCAC
* * * * *
10354271 AAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTCAC
* * * * * *
10354314 AAACGTCGCAGTAGGTATTGCTATTTAGCAGCGTTTGGCTTAC
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTCAC
* * * * *
10354357 AAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTCAC
* *
10354400 AAATGTCGCAATAGGTGTTG
1 AAACGCCGCAATAGGTGTTG
10354420 TTGTTTTAGC
Statistics
Matches: 153, Mismatches: 38, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
43 152 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTCAC
Found at i:10354318 original size:86 final size:86
Alignment explanation
Indices: 10354183--10354419 Score: 305
Period size: 86 Copynumber: 2.8 Consensus size: 86
10354173 TTTGTTAACG
* * * * * ** * *
10354183 AAAAACGTCGCAATAGGTGACGATATATAGCGGCGTTTGTT-GAAAAAACGCCGCAATAGGTGTT
1 AAAAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTT-TTCCCACAAACGTCGCAATAGGTGTT
* *
10354247 GCTATTTAGCGGCGTTTGTCTT
65 GCTATTTAGCAGCGTTTGGCTT
* * * *
10354269 AAAAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCACAAACGTCGCAGTAGGTATTG
1 AAAAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCACAAACGTCGCAATAGGTGTTG
10354334 CTATTTAGCAGCGTTTGGCTT
66 CTATTTAGCAGCGTTTGGCTT
* *
10354355 ACAAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCACAAATGTCGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCACAAACGTCGCAATAGGTGTTG
10354420 TTGTTTTAGC
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
85 2 0.02
86 127 0.98
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCACAAACGTCGCAATAGGTGTTG
CTATTTAGCAGCGTTTGGCTT
Found at i:10354329 original size:129 final size:130
Alignment explanation
Indices: 10354185--10354439 Score: 311
Period size: 129 Copynumber: 2.0 Consensus size: 130
10354175 TGTTAACGAA
* *
10354185 AAACGTCGCAATAGGTGA-CGATATATAGCGGCGTTT-G-TTGAAAAAACGCCGCAATAGGTGTT
1 AAACGTCGCAATAGGT-ATCGATATATAGCAGCGTTTGGCTT--AAAAACGCCGCAATAGGTGTC
** *
10354247 GCTATTTAGCGGCGTTTGTCTTAAAAATGCCGCAATAGGTGTTGTTG-TTTAGCGGCGTTTTTCC
63 GCTATTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTTGTTTTAGCAGCGTTTTTCC
10354311 CAC
128 CAC
* * * * * *
10354314 AAACGTCGCAGTAGGTATTGCTATTTAGCAGCGTTTGGCTTACAAACGCCGCAATAGGTGTCGTT
1 AAACGTCGCAATAGGTATCGATATATAGCAGCGTTTGGCTTAAAAACGCCGCAATAGGTGTCGCT
* * * * *
10354379 GTTTAGCGGCGTTTTTCCCACAAATGTCGCAATAGGTGTTGTTGTTTTAGCAGTGTTTTTC
66 ATTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTTGTTTTAGCAGCGTTTTTC
10354440 AAACAAGCGC
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
128 1 0.01
129 88 0.83
130 15 0.14
131 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (130 bp):
AAACGTCGCAATAGGTATCGATATATAGCAGCGTTTGGCTTAAAAACGCCGCAATAGGTGTCGCT
ATTTAGCGGCGTTTGTCCCAAAAATGCCGCAATAGGTGTTGTTGTTTTAGCAGCGTTTTTCCCAC
Found at i:10354423 original size:43 final size:43
Alignment explanation
Indices: 10354228--10354456 Score: 224
Period size: 43 Copynumber: 5.3 Consensus size: 43
10354218 TTTGTTGAAA
* * * ** *
10354228 AAACGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCTTAA
1 AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
*
10354271 AAATGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
* * * * * * ** **
10354314 AAACGTCGCAGTAGGTATTGCTATTTAGCAGCGTTTGGCTTAC
1 AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
*
10354357 AAACGCCGCAATAGGTGTCGTTGTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
* * * * **
10354400 AAATGTCGCAATAGGTGTTGTTGTTTTAGCAGTGTTTTTCAAAC
1 AAACGCCGCAATAGGTGTTGTTG-TTTAGCGGCGTTTTTCCCAC
*
10354444 AAGCGCCGCAATA
1 AAACGCCGCAATA
10354457 AGCATTGAGA
Statistics
Matches: 146, Mismatches: 39, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
43 120 0.82
44 26 0.18
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGTTGTTTAGCGGCGTTTTTCCCAC
Found at i:10358547 original size:42 final size:42
Alignment explanation
Indices: 10358495--10358819 Score: 389
Period size: 42 Copynumber: 7.8 Consensus size: 42
10358485 TTGTAAATAC
10358495 AAACGCCACTAAAGTACGAGTC-ATTAGCAGCGTTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCTA-TAGCAGCGTTTGTATTCA
*
10358537 AAACGCCACTAAAGTACGAGTCTATAGC-GACGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCAG-CGTTTGTATTCA
10358579 AAACG-CACTAAAGTACGAGTC-ATTAGCAGCGTTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCTA-TAGCAGCGTTTGTATTCA
* *
10358620 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCAGCGTTTGTATTCA
* * * *
10358662 AAATGCCACTAAAGTAAGAGTCTATAGCGGCGTTTGTA-TAA
1 AAACGCCACTAAAGTACGAGTCTATAGCAGCGTTTGTATTCA
* * * *
10358703 AAACGCCACTAAAGTACTAGTTTATAGC-GACGTTTATA-TAA
1 AAACGCCACTAAAGTACGAGTCTATAGCAG-CGTTTGTATTCA
* * * *
10358744 AAACGCTACTAAAGTACGTGTCTTTAG-AGGCGTTTGCATTCA
1 AAACGCCACTAAAGTACGAGTCTATAGCA-GCGTTTGTATTCA
* *
10358786 AAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTT
1 AAACGCCACTAAAGTACGAGTCTATAGCAGCGTTT
10358820 TTGGATACAA
Statistics
Matches: 246, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.01
41 114 0.46
42 128 0.52
43 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCACTAAAGTACGAGTCTATAGCAGCGTTTGTATTCA
Found at i:10358599 original size:83 final size:84
Alignment explanation
Indices: 10358495--10358819 Score: 448
Period size: 83 Copynumber: 3.9 Consensus size: 84
10358485 TTGTAAATAC
10358495 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
1 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
10358560 ATAGCGACGTTTGCATTCA
66 ATAGCGACGTTTGCATTCA
10358579 AAACG-CACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
1 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
*
10358643 ATAGCGGCGTTTGCATTCA
66 ATAGCGACGTTTGCATTCA
* * * * * *
10358662 AAATGCCACTAAAGTAAGAGTC-TATAGCGGCGTTTGTA-TAAAAACGCCACTAAAGTACTAGTT
1 AAACGCCACTAAAGTACGAGTCAT-TAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTC
*
10358725 TATAGCGACGTTT--ATATAA
65 TATAGCGACGTTTGCAT-TCA
* * * * *
10358744 AAACGCTACTAAAGTACGTGTCTTTAG-AGGCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTT
1 AAACGCCACTAAAGTACGAGTCATTAGCA-GCGTTTGTATTCAAAACGCCACTAAAGTACGAGTC
*
10358807 TATAGCGGCGTTT
65 TATAGCGACGTTT
10358820 TTGGATACAA
Statistics
Matches: 217, Mismatches: 18, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
81 2 0.01
82 47 0.22
83 135 0.62
84 33 0.15
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (84 bp):
AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCT
ATAGCGACGTTTGCATTCA
Found at i:10358832 original size:42 final size:42
Alignment explanation
Indices: 10358491--10358862 Score: 352
Period size: 42 Copynumber: 9.0 Consensus size: 42
10358481 GCGTTTGTAA
* * *
10358491 ATAC-AAACGCCACTAAAGTACGAG-TCATTAGCAGCGTTTGT
1 ATACAAAACGCCACTAAAGTACGAGTTTA-TAGCGGCGTTTGC
* * *
10358532 ATTCAAAACGCCACTAAAGTACGAGTCTATAGCGACGTTTGC
1 ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGC
* * * *
10358574 ATTCAAAACG-CACTAAAGTACGAG-TCATTAGCAGCGTTTGT
1 ATACAAAACGCCACTAAAGTACGAGTTTA-TAGCGGCGTTTGC
* *
10358615 ATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGC
1 ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGC
* * * * *
10358657 ATTCAAAATGCCACTAAAGTAAGAGTCTATAGCGGCGTTTGT
1 ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGC
* * **
10358699 ATA-AAAACGCCACTAAAGTACTAGTTTATAGCGACGTTTAT
1 ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGC
* * *
10358740 ATA-AAAACGCTACTAAAGTACGTGTCTT-TAGAGGCGTTTGC
1 ATACAAAACGCCACTAAAGTACGAGT-TTATAGCGGCGTTTGC
* *
10358781 ATTCAAAACGCCACTAAAGTA-GAGTTTATAGCGGCGTTTTTGG
1 ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCG--TTTGC
* *
10358824 ATAC-AAACGCCACAAAATGTTA-GA-TCTATAGCGGCGTTT
1 ATACAAAACGCCACTAAA-G-TACGAGTTTATAGCGGCGTTT
10358863 CTAGATACAA
Statistics
Matches: 279, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.01
41 115 0.41
42 136 0.49
43 21 0.08
44 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
ATACAAAACGCCACTAAAGTACGAGTTTATAGCGGCGTTTGC
Found at i:10359422 original size:42 final size:39
Alignment explanation
Indices: 10359366--10359447 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
10359356 TATATATTTA
10359366 ACATTTTGCGGCGTTTATACAAAAAAACACCACTATTGATT
1 ACATTTTGCGGCGTTTAT-CAAAAAAA-ACCACTATTGATT
* * * *
10359407 ACATTATTGTGGCGTTTGTTAAAAAAAGCCACTATTGATT
1 ACATT-TTGCGGCGTTTATCAAAAAAAACCACTATTGATT
10359447 A
1 A
10359448 AAACTATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 13 0.36
41 12 0.33
42 11 0.31
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (39 bp):
ACATTTTGCGGCGTTTATCAAAAAAAACCACTATTGATT
Found at i:10359431 original size:41 final size:42
Alignment explanation
Indices: 10359363--10359546 Score: 157
Period size: 41 Copynumber: 4.5 Consensus size: 42
10359353 GACTATATAT
* * * *
10359363 TTAACA-TTTTGCGGCGTTTATACAAAAAAACACCACTATTGA
1 TTAACACTATTGCGGCGTTTGT-TAAAAAAACGCCACTATTGA
* *
10359405 TT-ACATTATTGTGGCGTTTGTTAAAAAAA-GCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
* * ** **
10359445 TTAAAACTATTACGGTATTT-TTGTAAAAACGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
*
10359486 TTAACACTATTGCGGCGTTTGTCT--AAAAACGCCACTATTTA
1 TTAACACTATTGCGGCGTTTGT-TAAAAAAACGCCACTATTGA
* *
10359527 TTATA-AATATTGCAGCGTTT
1 TTA-ACACTATTGCGGCGTTT
10359547 TAAGAATAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
40 19 0.16
41 80 0.69
42 16 0.14
43 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (42 bp):
TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
Found at i:10359507 original size:82 final size:81
Alignment explanation
Indices: 10359388--10359537 Score: 214
Period size: 82 Copynumber: 1.8 Consensus size: 81
10359378 GTTTATACAA
* *
10359388 AAAAACACCACTATTGATTACATTATTGTGGCGTTTGT-TAAAAAAAGCCACTATTGATTA-AAA
1 AAAAACACCACTATTGATTACACTATTGCGGCGTTTGTCT-AAAAAAGCCACTATTGATTATAAA
10359451 CTATTACGGTATTTTTGT
65 -TATTACGGTATTTTTGT
* * *
10359469 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCTAAAAACGCCACTATTTATTATAAA
1 AAAAACACCACTATTGATT-ACACTATTGCGGCGTTTGTCTAAAAAAGCCACTATTGATTATAAA
10359534 TATT
65 TATT
10359538 GCAGCGTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
81 18 0.30
82 39 0.64
83 4 0.07
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (81 bp):
AAAAACACCACTATTGATTACACTATTGCGGCGTTTGTCTAAAAAAGCCACTATTGATTATAAAT
ATTACGGTATTTTTGT
Found at i:10359688 original size:41 final size:40
Alignment explanation
Indices: 10359388--10359709 Score: 157
Period size: 41 Copynumber: 8.0 Consensus size: 40
10359378 GTTTATACAA
* * *
10359388 AAAAACACCACTAT-TGATTACAT-TATTGTGGCGTTTGTT-A
1 AAAAACGCCACTATATG-TTA-ATCTATTGCGGCGTTT-TTGT
* * * **
10359428 AAAAAAGCCACTAT-TGATTAAAACTATTACGGTATTTTTGT
1 AAAAACGCCACTATATG-TT-AATCTATTGCGGCGTTTTTGT
* * *
10359469 AAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGTCT
1 AAAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTTTGT
* * ** * *
10359510 AAAAACGCCACTATTTATTATAAATATTGCAGCGTTTTAAG-
1 AAAAACGCCACTATATGTTA-ATCTATTGCGGCGTTTT-TGT
* *
10359551 AATAAATGACACTATATGTGTAATCTATTGCGGCG--TTTGT
1 AA-AAACGCCACTATATGT-TAATCTATTGCGGCGTTTTTGT
* * *
10359591 --AAACGCCGCTA-AT-TTACCGATTTATTGCGGCGTTTTGGCT
1 AAAAACGCCACTATATGTTA---ATCTATTGCGGCGTTTTTG-T
*
10359631 -AAAACACCACTATATGTTAATCTATTGCGGCGTTTGTTGT
1 AAAAACGCCACTATATGTTAATCTATTGCGGCGTTT-TTGT
* * **
10359671 AAAAACGCCGCTATATGTCAACTCTATTGCATCGTTTTT
1 AAAAACGCCACTATATGTTAA-TCTATTGCGGCGTTTTT
10359710 ATAACAAATG
Statistics
Matches: 218, Mismatches: 42, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
34 2 0.01
35 1 0.00
36 2 0.01
37 20 0.09
39 4 0.02
40 41 0.19
41 104 0.48
42 39 0.18
43 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (40 bp):
AAAAACGCCACTATATGTTAATCTATTGCGGCGTTTTTGT
Found at i:10359707 original size:42 final size:40
Alignment explanation
Indices: 10359631--10359725 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
10359621 CGTTTTGGCT
* * * * *
10359631 AAAACACCACTATATGTTAATCTATTGCGGCGTTTGTTGTA
1 AAAACGCCGCTATATGTCAATCTATTGCAGCGTTT-TTATA
*
10359672 AAAACGCCGCTATATGTCAACTCTATTGCATCGTTTTTATA
1 AAAACGCCGCTATATGTCAA-TCTATTGCAGCGTTTTTATA
*
10359713 ACAAATGCCGCTA
1 A-AAACGCCGCTA
10359726 AAGTATCAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 22 0.49
42 23 0.51
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (40 bp):
AAAACGCCGCTATATGTCAATCTATTGCAGCGTTTTTATA
Found at i:10360028 original size:13 final size:13
Alignment explanation
Indices: 10360012--10360042 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10360002 TTATCTAAAG
10360012 TATTTATATTTAA
1 TATTTATATTTAA
*
10360025 TATTTATATTTGA
1 TATTTATATTTAA
10360038 TATTT
1 TATTT
10360043 GATGCCAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
TATTTATATTTAA
Found at i:10361739 original size:18 final size:18
Alignment explanation
Indices: 10361694--10361739 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10361684 TAGTTTGATT
*
10361694 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
10361712 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
*
10361730 AATGAGCTAA
1 AATGAACTAA
10361740 ATGCATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:10364490 original size:22 final size:22
Alignment explanation
Indices: 10364465--10364509 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10364455 CAATTTTTAC
10364465 TAAGAGTCTCTTTTTAAGAATT
1 TAAGAGTCTCTTTTTAAGAATT
10364487 TAAGAGTCTCTTTTTAAGAATT
1 TAAGAGTCTCTTTTTAAGAATT
10364509 T
1 T
10364510 GCACAGGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
TAAGAGTCTCTTTTTAAGAATT
Found at i:10365918 original size:20 final size:19
Alignment explanation
Indices: 10365888--10365947 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 19
10365878 AAAGTCGTCA
10365888 AAAATAAAAATAATAATAT
1 AAAATAAAAATAATAATAT
** *
10365907 TGAATAAAAAATAATATTAT
1 AAAAT-AAAAATAATAATAT
10365927 AAAATAAAAATAATAAT-T
1 AAAATAAAAATAATAATAT
10365945 AAA
1 AAA
10365948 TAATTCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATAAAAATAATAATAT
Found at i:10366687 original size:21 final size:21
Alignment explanation
Indices: 10366658--10366698 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10366648 GGTAAAAAAT
*
10366658 TACCTAAAATATTATTATTTC
1 TACCGAAAATATTATTATTTC
10366679 TACCGAAAATATTATTATTT
1 TACCGAAAATATTATTATTT
10366699 GGTACTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (21 bp):
TACCGAAAATATTATTATTTC
Found at i:10369237 original size:24 final size:24
Alignment explanation
Indices: 10369209--10369254 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10369199 TTTTATATAA
*
10369209 AATAATATTACATATTTAATTATT
1 AATAATATTACATATTAAATTATT
* *
10369233 AATAATTTTATATATTAAATTA
1 AATAATATTACATATTAAATTA
10369255 AACTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AATAATATTACATATTAAATTATT
Found at i:10369437 original size:14 final size:14
Alignment explanation
Indices: 10369418--10369446 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10369408 CATAACATCC
10369418 GGGTCGGGACACAG
1 GGGTCGGGACACAG
10369432 GGGTCGGGACACAG
1 GGGTCGGGACACAG
10369446 G
1 G
10369447 TCAACCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.52, T:0.07
Consensus pattern (14 bp):
GGGTCGGGACACAG
Found at i:10371803 original size:21 final size:21
Alignment explanation
Indices: 10371774--10371813 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10371764 TCTCAACGAA
* * *
10371774 AAATGAATAATTACATCAATT
1 AAATAAATAAATAAATCAATT
10371795 AAATAAATAAATAAATCAA
1 AAATAAATAAATAAATCAA
10371814 AATTCATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATAAATAAATAAATCAATT
Found at i:10372065 original size:18 final size:19
Alignment explanation
Indices: 10372036--10372072 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10372026 CTAATTAGTG
*
10372036 TAATTAATATATATGATTA
1 TAATTAATATATATAATTA
10372055 TAATT-ATATATATAATTA
1 TAATTAATATATATAATTA
10372073 ATTTAGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TAATTAATATATATAATTA
Found at i:10372074 original size:16 final size:17
Alignment explanation
Indices: 10372036--10372075 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10372026 CTAATTAGTG
10372036 TAATTAA-TATATATGA
1 TAATTAATTATATATGA
*
10372052 TTA-TAATTATATAT-A
1 TAATTAATTATATATGA
10372067 TAATTAATT
1 TAATTAATT
10372076 TAGAACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAATTAATTATATATGA
Found at i:10373357 original size:15 final size:15
Alignment explanation
Indices: 10373337--10373384 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
10373327 AAATAGTTAT
10373337 TATTTTTTATATTAA
1 TATTTTTTATATTAA
*
10373352 TA--TTTTAT-GTAA
1 TATTTTTTATATTAA
10373364 TATTTTTT-TATTAA
1 TATTTTTTATATTAA
*
10373378 TAATTTT
1 TATTTTT
10373385 AAATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
12 5 0.19
13 7 0.26
14 13 0.48
15 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTTTTTATATTAA
Found at i:10373380 original size:101 final size:99
Alignment explanation
Indices: 10373201--10373385 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 99
10373191 TAGTGGTAGA
10373201 AATTTATTTTTGTTAGTATTTTTTTAAATAGTTATTATTTTTATATTAATATTTATGTAAATTTC
1 AATTTATTTTTGTTAGTATTTTTTTAAATAGTTATTATTTTTATATTAATATTTATGTAAATTT-
10373266 CTTTTATAAAATAATATTTATTAATTTTATTATTAG
65 CTTTTATAAAATAAT-TTTATTAATTTTATTATTAG
10373302 AATTTATTTTT-TGTAGTATTTTTTTAAATAGTTATTATTTTTTATATTAATATTTTATGTAATA
1 AATTTATTTTTGT-TAGTATTTTTTTAAATAGTTATTA-TTTTTATATTAATA-TTTATGTAA-A
*
10373366 TTT-TTTTAT-TAATAATTTTA
62 TTTCTTTTATAAAATAATTTTA
10373386 AATTATTTTT
Statistics
Matches: 79, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
100 5 0.06
101 41 0.52
102 20 0.25
103 9 0.11
104 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (99 bp):
AATTTATTTTTGTTAGTATTTTTTTAAATAGTTATTATTTTTATATTAATATTTATGTAAATTTC
TTTTATAAAATAATTTTATTAATTTTATTATTAG
Found at i:10373400 original size:27 final size:25
Alignment explanation
Indices: 10373335--10373400 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
10373325 TTAAATAGTT
* *
10373335 ATTATTTTTTATATTAATATTTTAT
1 ATTATTTTTTTTATTAATATTTTAA
* *
10373360 GTAATATTTTTTTATTAATAATTTTAA
1 ATTAT-TTTTTTTATTAAT-ATTTTAA
10373387 ATTATTTTTATTTA
1 ATTATTTTT-TTTA
10373401 AATTATTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.09
26 16 0.50
27 13 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTATTTTTTTTATTAATATTTTAA
Found at i:10373409 original size:23 final size:21
Alignment explanation
Indices: 10373365--10373416 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
10373355 TTTATGTAAT
10373365 ATTTTTTTATTAATAATTTTAA
1 ATTTTTTTATTAATAATTTT-A
*
10373387 ATTATTTTTATTTA-AATTATTA
1 ATT-TTTTTATTAATAATT-TTA
10373409 ATTTTTTT
1 ATTTTTTT
10373417 GCTAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 11 0.41
23 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTATTAATAATTTTA
Found at i:10375060 original size:21 final size:21
Alignment explanation
Indices: 10375030--10375077 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10375020 GCAGGGGTAC
* *
10375030 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
10375051 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
10375072 ATGCCA
1 ATGCCA
10375078 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:10375107 original size:21 final size:21
Alignment explanation
Indices: 10375081--10375173 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
10375071 TATGCCATCT
* *
10375081 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
10375102 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
10375123 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
10375144 CCGCCA--GTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
10375164 CCGCAGGGTT
1 CCGCAGGGTT
10375174 TTATACCATA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.03
20 17 0.25
21 46 0.69
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:10375165 original size:41 final size:41
Alignment explanation
Indices: 10375087--10375167 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
10375077 ATCTCCGCAG
* *
10375087 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATGCCGAGCCCGCA-GGTTACATGCCTAGCCCGCCA
*
10375129 GGTTACATGCCTAGCCCGCCA-GTTACATGCCTAGCCCGC
1 GGTTACATGCCGAGCCCG-CAGGTTACATGCCTAGCCCGC
10375168 AGGGTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 17 0.49
42 16 0.46
43 2 0.06
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (41 bp):
GGTTACATGCCGAGCCCGCAGGTTACATGCCTAGCCCGCCA
Found at i:10375698 original size:31 final size:31
Alignment explanation
Indices: 10375662--10375758 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
10375652 TAATGTTTTT
10375662 AAAATACAATTTATTATTCGAAATTTAAA-TA
1 AAAATA-AATTTATTATTCGAAATTTAAATTA
* *
10375693 AAAATAAAAATAATTATTC-AAATTTAAATTTA
1 AAAAT-AAATTTATTATTCGAAATTTAAA-TTA
* *
10375725 AAATATAAATTATAGTATTCG-AATTTACATTA
1 AAA-ATAAATT-TATTATTCGAAATTTAAATTA
10375757 AA
1 AA
10375759 TTTCAACTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
30 9 0.17
31 15 0.28
32 15 0.28
33 15 0.28
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATAAATTTATTATTCGAAATTTAAATTA
Found at i:10376373 original size:124 final size:125
Alignment explanation
Indices: 10376133--10376731 Score: 1098
Period size: 124 Copynumber: 4.8 Consensus size: 125
10376123 TTTAAGTTAT
10376133 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACG-AATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
10376197 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
10376258 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAAT-CTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
10376322 GCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
66 GCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
10376382 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
10376447 GCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG--ATATCTAGTG
66 GCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
10376505 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTTTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
10376570 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
10376631 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
10376696 GCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCC-GGGAACGCGCCTTCATGTGAATAGTGAA
10376732 CCGATTATAG
Statistics
Matches: 459, Mismatches: 9, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
123 75 0.16
124 150 0.33
125 130 0.28
126 104 0.23
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (125 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:10376580 original size:249 final size:249
Alignment explanation
Indices: 10376133--10376731 Score: 1105
Period size: 249 Copynumber: 2.4 Consensus size: 249
10376123 TTTAAGTTAT
10376133 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACG-AATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
10376197 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGA-ATATCTAGTGTCCC
10376262 CGAGGGACATGAGTGACATAATAGGGCAATGATAATCTCTCTGACGAAATAATGGAAGGCGCGCC
130 CGAGGGACATGAGTGACATAATAGGGCAATGATAATCTCTCTGACGAAATAATGGAAGGCGCGCC
10376327 CCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
195 CCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
10376382 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
10376447 GC-CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG-ATATCTAGTGTCCCC
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAATATCTAGTGTCCCC
* *
10376510 GAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTTTGACGAAATAATGGAAGGCGCGCC
131 GAGGGACATGAGTGACATAATAGGGCAATGATAAT-CTCTCTGACGAAATAATGGAAGGCGCG-C
*
10376575 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
194 CCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
*
10376631 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
10376696 GCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
10376732 CCGATTATAG
Statistics
Matches: 341, Mismatches: 5, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
247 50 0.15
248 25 0.07
249 219 0.64
250 47 0.14
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (249 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGAATATCTAGTGTCCCC
GAGGGACATGAGTGACATAATAGGGCAATGATAATCTCTCTGACGAAATAATGGAAGGCGCGCCC
CGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
Found at i:10376812 original size:8 final size:8
Alignment explanation
Indices: 10376799--10376839 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
10376789 TCACAATCTT
10376799 TCAAATTC
1 TCAAATTC
10376807 TCAAATTC
1 TCAAATTC
*
10376815 TCAAACTC
1 TCAAATTC
10376823 T-AAATTC
1 TCAAATTC
10376830 TCAAATTC
1 TCAAATTC
10376838 TC
1 TC
10376840 TGAAAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAAATTC
Found at i:10376829 original size:15 final size:16
Alignment explanation
Indices: 10376799--10376839 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
10376789 TCACAATCTT
*
10376799 TCAAATTCTCAAATTC
1 TCAAACTCTCAAATTC
10376815 TCAAACTCT-AAATTC
1 TCAAACTCTCAAATTC
*
10376830 TCAAATTCTC
1 TCAAACTCTC
10376840 TGAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAACTCTCAAATTC
Found at i:10379858 original size:12 final size:13
Alignment explanation
Indices: 10379825--10379862 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
10379815 AAATACATAA
10379825 ATATATTTAATAT
1 ATATATTTAATAT
*
10379838 ATTTATTTAATAT
1 ATATATTTAATAT
10379851 A-ATATTTAATAT
1 ATATATTTAATAT
10379863 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:10381583 original size:18 final size:18
Alignment explanation
Indices: 10381557--10381594 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10381547 TGAGATTTTT
*
10381557 TTTTTAGATTTTTGAAAA
1 TTTTGAGATTTTTGAAAA
*
10381575 TTTTGAGATTTTTTAAAA
1 TTTTGAGATTTTTGAAAA
10381593 TT
1 TT
10381595 GTAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTTGAGATTTTTGAAAA
Found at i:10383548 original size:24 final size:23
Alignment explanation
Indices: 10383516--10383564 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
10383506 ATTTTTTATA
*
10383516 TATTATAATATTACATATTCAAT
1 TATTATAATATTACATATTAAAT
* *
10383539 TATTAATAATTTTATATATTAAAT
1 TATT-ATAATATTACATATTAAAT
10383563 TA
1 TA
10383565 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATAATATTACATATTAAAT
Found at i:10387482 original size:29 final size:29
Alignment explanation
Indices: 10387376--10387488 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 29
10387366 GTAATTACTG
* * * *
10387376 TTTAGTCCATTAACTTTTTGTTATTGTTA
1 TTTAGTCCTTTAAATTTATGTTTTTGTTA
*
10387405 TTTAGTCCTTTAAATTTATGTTTTTTGTTGT
1 TTTAGTCCTTTAAATTTATG-TTTTTGTT-A
* * *
10387436 TTTA-ACCATTTTAGTTTATGTTTTTGTTA
1 TTTAGTCC-TTTAAATTTATGTTTTTGTTA
*
10387465 TTTAGTCCTTTAAATTTATATTTT
1 TTTAGTCCTTTAAATTTATGTTTT
10387489 AGCTATTTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
29 34 0.51
30 19 0.28
31 14 0.21
ACGTcount: A:0.20, C:0.08, G:0.10, T:0.62
Consensus pattern (29 bp):
TTTAGTCCTTTAAATTTATGTTTTTGTTA
Found at i:10388289 original size:23 final size:23
Alignment explanation
Indices: 10388259--10388311 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
10388249 TCCCGAAGGA
*
10388259 CCACATAGGTTTGCACCAAAGTG
1 CCACATAGGTTTGCAACAAAGTG
*
10388282 CCACATAGGTTTGCAACGAAGTG
1 CCACATAGGTTTGCAACAAAGTG
10388305 CCACATA
1 CCACATA
10388312 ATTGTCCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGGTTTGCAACAAAGTG
Found at i:10389036 original size:21 final size:20
Alignment explanation
Indices: 10389010--10389065 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
10389000 AGGGTGTCAA
* *
10389010 AGTGCATCCATGCACCTTTGT
1 AGTGCATCCATGCACC-ATGC
* *
10389031 AGTGCATCGATACACCATGC
1 AGTGCATCCATGCACCATGC
10389051 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
10389066 TCAAACACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTGCATCCATGCACCATGC
Found at i:10389499 original size:34 final size:33
Alignment explanation
Indices: 10389460--10389530 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
10389450 TTTTGTAAAG
*
10389460 GGGAAAGGTTATAGCTTAGCCCATGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCATG-AAAAACTA
* * * *
10389494 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCATGAAAAACTA
10389527 GGGA
1 GGGA
10389531 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTATAGCTTAGCCCATGAAAAACTA
Found at i:10392471 original size:21 final size:21
Alignment explanation
Indices: 10392445--10392523 Score: 149
Period size: 21 Copynumber: 3.8 Consensus size: 21
10392435 ACGGTGTCAA
*
10392445 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTGC
10392466 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
10392487 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
10392508 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
10392524 TGCCACTAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.20, C:0.41, G:0.19, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:10392979 original size:34 final size:33
Alignment explanation
Indices: 10392935--10393000 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
10392925 TTGTAAAGGG
*
10392935 GAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTAGA
1 GAAAGGTTCTAGCTTAGCCCGTG-AAAAACTAGA
* * *
10392969 GAAATGTTCTAGTTTATCCCGTGAAAAACTAG
1 GAAAGGTTCTAGCTTAGCCCGTGAAAAACTAG
10393001 GGAGTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
GAAAGGTTCTAGCTTAGCCCGTGAAAAACTAGA
Found at i:10396048 original size:2 final size:2
Alignment explanation
Indices: 10396041--10396072 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10396031 TCTAGAAATG
10396041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10396073 TAATAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10397810 original size:17 final size:19
Alignment explanation
Indices: 10397788--10397823 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10397778 CCGTATTATT
10397788 TATTTA-TTAAATA-TAAA
1 TATTTATTTAAATACTAAA
10397805 TATTTATTTAAATACTAAA
1 TATTTATTTAAATACTAAA
10397824 AGTAGAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTATTTAAATACTAAA
Found at i:10397970 original size:21 final size:21
Alignment explanation
Indices: 10397946--10397986 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10397936 AAAATAATAT
*
10397946 CTAAAATATTATTATTTTTAC
1 CTAAAATATTAATATTTTTAC
*
10397967 CTAAAATATTAATGTTTTTA
1 CTAAAATATTAATATTTTTA
10397987 ATAATTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (21 bp):
CTAAAATATTAATATTTTTAC
Found at i:10398366 original size:17 final size:17
Alignment explanation
Indices: 10398344--10398377 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10398334 TAAAGTGGTC
10398344 AAATAATTGTATTTAAA
1 AAATAATTGTATTTAAA
10398361 AAATAATTGTATTTAAA
1 AAATAATTGTATTTAAA
10398378 GAAGTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AAATAATTGTATTTAAA
Found at i:10400822 original size:21 final size:21
Alignment explanation
Indices: 10400792--10400949 Score: 139
Period size: 21 Copynumber: 7.6 Consensus size: 21
10400782 GATTTACATA
*
10400792 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
10400813 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
10400834 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
10400853 TTCGCGTTGTGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10400876 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
10400895 TTCGCGTTGCAATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
10400918 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
10400937 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
10400950 TTATTCCAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
19 33 0.31
21 56 0.52
23 18 0.17
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:10400874 original size:42 final size:42
Alignment explanation
Indices: 10400798--10400977 Score: 292
Period size: 42 Copynumber: 4.3 Consensus size: 42
10400788 CATATTCGCA
10400798 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
10400838 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
10400880 TTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
10400922 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
10400964 TTGTGATAGTCCAA
1 TTGCGATAGTCCAA
10400978 AATCGCAACG
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 25 0.20
41 2 0.02
42 100 0.79
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:10400965 original size:21 final size:20
Alignment explanation
Indices: 10400798--10400966 Score: 105
Period size: 21 Copynumber: 8.2 Consensus size: 20
10400788 CATATTCGCA
*
10400798 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
*
10400819 TTGCGATT-TTCCAAATTCG
1 TTGCGATTATTCCAAGTTCG
* *
10400838 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
* *
10400859 TTGTGATTTATTCCAAATTCG
1 TTGCGA-TTATTCCAAGTTCG
*
10400880 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
*
10400901 TTGCAATTTATTCCAAGTTCG
1 TTGCGA-TTATTCCAAGTTCG
* *
10400922 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT--CG
*
10400943 TTGCGATTTATTCCAAATTCG
1 TTGCGA-TTATTCCAAGTTCG
10400964 TTG
1 TTG
10400967 TGATAGTCCA
Statistics
Matches: 114, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 32 0.28
21 54 0.47
22 1 0.01
23 26 0.23
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (20 bp):
TTGCGATTATTCCAAGTTCG
Found at i:10401710 original size:23 final size:23
Alignment explanation
Indices: 10401680--10401837 Score: 188
Period size: 23 Copynumber: 7.2 Consensus size: 23
10401670 ACCAGTCGTT
*
10401680 GCGAATTTGGAAAAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
*
10401703 GCGAATTTAGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
*
10401726 GCGAACTTGGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
* *
10401749 GCGAACTTGG-AT-TATCGCAA-
1 GCGAATTTGGAATAAATCGCAAC
10401769 -CGAATTTGGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
* * *
10401791 GCGAACTTCGACT--ATCGCAA-
1 GCGAATTTGGAATAAATCGCAAC
10401811 -CGAATTTGGAATAAATCGCAAC
1 GCGAATTTGGAATAAATCGCAAC
10401833 GCGAA
1 GCGAA
10401838 CTTCGACTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
19 17 0.15
20 2 0.02
21 28 0.25
22 2 0.02
23 65 0.57
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (23 bp):
GCGAATTTGGAATAAATCGCAAC
Found at i:10401767 original size:21 final size:21
Alignment explanation
Indices: 10401695--10401938 Score: 189
Period size: 21 Copynumber: 11.6 Consensus size: 21
10401685 TTTGGAAAAA
* * *
10401695 ATCGCAACGCGAATTTAGAAT
1 ATCGCAACGCGAACTTGGACT
*
10401716 AAATCGCAACGCGAACTTGGAAT
1 --ATCGCAACGCGAACTTGGACT
*
10401739 AAATCGCAACGCGAACTTGGATT
1 --ATCGCAACGCGAACTTGGACT
* *
10401762 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
10401781 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* *
10401804 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
10401823 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
10401846 ATCGCAA--CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* * **
10401865 ATCACAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
** *
10401884 ATCTTAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
10401905 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
10401926 ATCGCAATGCGAA
1 ATCGCAACGCGAA
10401939 TATGTAAATC
Statistics
Matches: 182, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
19 50 0.27
21 73 0.40
23 59 0.32
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:10401788 original size:42 final size:42
Alignment explanation
Indices: 10401681--10401862 Score: 256
Period size: 42 Copynumber: 4.2 Consensus size: 42
10401671 CCAGTCGTTG
* * * *
10401681 CGAATTTGGAAAAAATCGCAACGCGAATTTAGAATAAATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAA
* * *
10401725 CGCGAACTTGGAATAAATCGCAACGCGAACTTGGATTATCGCAA
1 --CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
10401769 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
10401811 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
*
10401853 CGAACTTGGA
1 CGAATTTGGA
10401863 CTATCACAAC
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 90 0.71
44 7 0.06
46 30 0.24
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
Found at i:10401873 original size:61 final size:60
Alignment explanation
Indices: 10401783--10401928 Score: 213
Period size: 61 Copynumber: 2.4 Consensus size: 60
10401773 TTTGGAATAA
* *
10401783 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCACAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
**
10401846 ATCGCAA-CGAACTTGGACTATCACAACGAATTTGGAAAATCTTAACGCGAACTTCGACT
1 ATCGCAACCGAACTTGGACTATCACAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
10401905 ATCGCAACGCGAACTTGGACTATC
1 ATCGCAAC-CGAACTTGGACTATC
10401929 GCAATGCGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
59 28 0.36
60 1 0.01
61 41 0.53
63 7 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (60 bp):
ATCGCAACCGAACTTGGACTATCACAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:10401980 original size:21 final size:21
Alignment explanation
Indices: 10401956--10402020 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
10401946 ATCGCAATGT
10401956 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCGTTGC
10401977 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCGTTGC
*
10401998 GATAGTCAAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCGTTGC
10402019 GA
1 GA
10402021 ATCTGGAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (21 bp):
GATAGTCGAAGTTCGCGTTGC
Found at i:10404988 original size:12 final size:12
Alignment explanation
Indices: 10404971--10405004 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
10404961 ATTAAAATAA
10404971 TTAAAATATATT
1 TTAAAATATATT
10404983 TTAAAATATATT
1 TTAAAATATATT
10404995 TTAAAATATA
1 TTAAAATATA
10405005 AATTGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAAATATATT
Found at i:10405016 original size:22 final size:22
Alignment explanation
Indices: 10404991--10405198 Score: 274
Period size: 22 Copynumber: 9.5 Consensus size: 22
10404981 TTTTAAAATA
*
10404991 TATTTTAAAATATAAATTGATT
1 TATTTTAAAATATGAATTGATT
*
10405013 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
**
10405035 TATTTTAAAATATGGAA-AAATT
1 TATTTTAAAATAT-GAATTGATT
*
10405057 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
*
10405079 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
***
10405101 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGAATTGATT
*
10405123 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
***
10405145 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGAATTGATT
*
10405167 TATTTTAAAATATGAATGGATT
1 TATTTTAAAATATGAATTGATT
10405189 TATTTTAAAA
1 TATTTTAAAA
10405199 ATTTTATTAT
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
21 2 0.01
22 157 0.98
23 2 0.01
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.47
Consensus pattern (22 bp):
TATTTTAAAATATGAATTGATT
Found at i:10405068 original size:66 final size:66
Alignment explanation
Indices: 10404985--10405198 Score: 322
Period size: 66 Copynumber: 3.2 Consensus size: 66
10404975 AATATATTTT
* **
10404985 AAAATATATTTTAAAATATAAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
10405050 A
66 A
*
10405051 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGA
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
10405116 A
66 A
* ***
10405117 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAAATTTATTTTAAAATAT-G
1 AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
10405181 A
66 A
**
10405182 ATGGATTTATTTTAAAA
1 A-AAATTTATTTTAAAA
10405199 ATTTTATTAT
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
65 2 0.01
66 134 0.99
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (66 bp):
AAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGG
A
Found at i:10405279 original size:31 final size:31
Alignment explanation
Indices: 10405222--10405280 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10405212 AGTTGTATGG
*
10405222 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
10405253 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
10405281 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:10407325 original size:34 final size:34
Alignment explanation
Indices: 10407282--10407351 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
10407272 TTTCGTCCTA
10407282 TTAGGATTCAAACTCCTAAAAATAAGATAAAATT
1 TTAGGATTCAAACTCCTAAAAATAAGATAAAATT
* * *
10407316 TTAGGATTCAAACTCCTAAAGATATGATAGAATT
1 TTAGGATTCAAACTCCTAAAAATAAGATAAAATT
10407350 TT
1 TT
10407352 GCTAGGATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (34 bp):
TTAGGATTCAAACTCCTAAAAATAAGATAAAATT
Found at i:10407804 original size:18 final size:17
Alignment explanation
Indices: 10407765--10407807 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10407755 ATTATATGGA
10407765 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
10407781 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
10407799 TATTATTAT
1 TATTATTAT
10407808 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:10407826 original size:58 final size:59
Alignment explanation
Indices: 10407764--10407883 Score: 131
Period size: 62 Copynumber: 2.0 Consensus size: 59
10407754 TATTATATGG
* *
10407764 ATATT-TTA-TTCATTT-ATTTTTATTATTCATGTTATTATTATTA-TATGTATATATATAT
1 ATATTATTATTTCATTTGATTTTTATTACT-ATATT-TTATTATTATTAT-TATATATATAT
*
10407822 ATATTAAATTATTTTCATTTGATTTTTTTTACTATATTTTATTATTATTATTATATATATAT
1 ATATT--ATTA-TTTCATTTGATTTTTATTACTATATTTTATTATTATTATTATATATATAT
10407884 TTCTTTAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
58 5 0.10
61 3 0.06
62 20 0.38
63 14 0.27
64 10 0.19
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (59 bp):
ATATTATTATTTCATTTGATTTTTATTACTATATTTTATTATTATTATTATATATATAT
Found at i:10408325 original size:2 final size:2
Alignment explanation
Indices: 10408318--10408353 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10408308 TAATACTTTG
10408318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10408354 TTCCTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10410821 original size:8 final size:8
Alignment explanation
Indices: 10410808--10410846 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
10410798 GAACATTTCA
*
10410808 TGCATTCT
1 TGCATTTT
10410816 TGCA-TTT
1 TGCATTTT
10410823 TGCATTTT
1 TGCATTTT
*
10410831 TGCCTTTT
1 TGCATTTT
10410839 TGCATTTT
1 TGCATTTT
10410847 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:10411967 original size:7 final size:7
Alignment explanation
Indices: 10411955--10412039 Score: 73
Period size: 7 Copynumber: 11.3 Consensus size: 7
10411945 TCCAATCAAG
10411955 AAGAAAA
1 AAGAAAA
10411962 AAGAAAA
1 AAGAAAA
*
10411969 GAAGCAAA
1 -AAGAAAA
10411977 AA-AAAA
1 AAGAAAA
*
10411983 AACAAAA
1 AAGAAAA
*
10411990 AAAAAACA
1 AAGAAA-A
10411998 AAGAAAA
1 AAGAAAA
10412005 AAGAGAAA
1 AAGA-AAA
10412013 CAAGAACAAA
1 -AAG-A-AAA
10412023 AAGAAAA
1 AAGAAAA
10412030 AAGGAAAA
1 AA-GAAAA
10412038 AA
1 AA
10412040 CAAGAATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
6 5 0.08
7 28 0.42
8 23 0.35
9 6 0.09
10 4 0.06
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:10411979 original size:16 final size:14
Alignment explanation
Indices: 10411955--10412039 Score: 73
Period size: 15 Copynumber: 5.6 Consensus size: 14
10411945 TCCAATCAAG
10411955 AAGAAAAAAGAAAA
1 AAGAAAAAAGAAAA
*
10411969 GAAGCAAAAA-AAAA
1 -AAGAAAAAAGAAAA
* *
10411983 AACAAAAAAAAAACA
1 AAGAAAAAAGAAA-A
10411998 AAGAAAAAAGAGAAA
1 AAGAAAAAAGA-AAA
10412013 CAAGAACAAAAAGAAAA
1 -AAG-A-AAAAAGAAAA
10412030 AAGGAAAAAA
1 AA-GAAAAAA
10412040 CAAGAATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
13 7 0.12
14 7 0.12
15 24 0.41
16 8 0.14
17 5 0.09
18 7 0.12
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGAAAA
Found at i:10411980 original size:12 final size:12
Alignment explanation
Indices: 10411959--10412006 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 12
10411949 ATCAAGAAGA
10411959 AAAAAGAAAAGAAGC
1 AAAAA-AAAA-AA-C
10411974 AAAAAAAAAAAC
1 AAAAAAAAAAAC
10411986 -AAAAAAAAAAC
1 AAAAAAAAAAAC
10411997 AAAGAAAAAA
1 AAA-AAAAAA
10412007 GAGAAACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.35
12 3 0.10
13 8 0.26
14 4 0.13
15 5 0.16
ACGTcount: A:0.85, C:0.06, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:10412038 original size:44 final size:44
Alignment explanation
Indices: 10411955--10412069 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
10411945 TCCAATCAAG
10411955 AAGAAAAAAGA-AAAGAAGCAA-AAAAA-AAAACAAAAAAAAAAC
1 AAGAAAAAAGAGAAAGAAG-AACAAAAAGAAAACAAAAAAAAAAC
* **
10411997 AAAGAAAAAAGAGAAACAAGAACAAAAAGAAAA-AAGGAAAAAAC
1 -AAGAAAAAAGAGAAAGAAGAACAAAAAGAAAACAAAAAAAAAAC
* *
10412041 AAGAATAAAAAAGAAAGAGGAACAAAAAG
1 AAGAA-AAAAGAGAAAGAAGAACAAAAAG
10412070 CACATGCAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 18 0.29
44 40 0.65
45 4 0.06
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.01
Consensus pattern (44 bp):
AAGAAAAAAGAGAAAGAAGAACAAAAAGAAAACAAAAAAAAAAC
Found at i:10412054 original size:10 final size:9
Alignment explanation
Indices: 10411952--10412056 Score: 69
Period size: 9 Copynumber: 11.7 Consensus size: 9
10411942 AGATCCAATC
10411952 AAGAAGAAAA
1 AAGAA-AAAA
*
10411962 AAG-AAAAG
1 AAGAAAAAA
10411970 AAGCAAAAAA
1 AAG-AAAAAA
10411980 AA-AAACAAA
1 AAGAAA-AAA
10411989 AA-AAAAACA
1 AAGAAAAA-A
10411998 AAG--AAAA
1 AAGAAAAAA
* *
10412005 AAGAGAAAC
1 AAGAAAAAA
*
10412014 AAGAACAAA
1 AAGAAAAAA
10412023 AAG-AAAAA
1 AAGAAAAAA
*
10412031 AGGAAAAAA
1 AAGAAAAAA
10412040 CAAGAATAAAA
1 -AAGAA-AAAA
10412051 AAGAAA
1 AAGAAA
10412057 GAGGAACAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
7 4 0.05
8 20 0.26
9 30 0.39
10 18 0.24
11 4 0.05
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:10412061 original size:27 final size:28
Alignment explanation
Indices: 10411983--10412067 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
10411973 CAAAAAAAAA
*
10411983 AACAAAA-AA-AAAACAAAGAAAAAA-G
1 AACAAAACAAGAAAAAAAAGAAAAAAGG
* *
10412008 -A-GAAACAAGAACAAAAAGAAAAAAGG
1 AACAAAACAAGAAAAAAAAGAAAAAAGG
*
10412034 AA-AAAACAAGAATAAAAAAG-AAAGAGG
1 AACAAAACAAGAA-AAAAAAGAAAAAAGG
10412061 AACAAAA
1 AACAAAA
10412068 AGCACATGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 13 0.27
26 1 0.02
27 18 0.38
28 10 0.21
ACGTcount: A:0.78, C:0.07, G:0.14, T:0.01
Consensus pattern (28 bp):
AACAAAACAAGAAAAAAAAGAAAAAAGG
Found at i:10412711 original size:22 final size:22
Alignment explanation
Indices: 10412686--10412740 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
10412676 GCTATCCCAT
10412686 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
10412708 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
10412730 CAAACCTTTGA
1 CAAACCTTTGA
10412741 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:10413178 original size:18 final size:18
Alignment explanation
Indices: 10413155--10413190 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10413145 TCAACATCAA
* *
10413155 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
10413173 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
10413191 GGATTCAACA
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:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:10413713 original size:36 final size:36
Alignment explanation
Indices: 10413670--10413951 Score: 294
Period size: 36 Copynumber: 8.0 Consensus size: 36
10413660 ACTAGAAGAG
10413670 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
10413706 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
10413742 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
10413778 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * * * *
10413814 ------ATAT-TTGA-ATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAA
*** * ** * *
10413843 TACCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAA
* *
10413880 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC-AA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
10413915 TTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
10413952 ATCTTTGAAT
Statistics
Matches: 202, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.09
30 2 0.01
35 6 0.03
36 141 0.70
37 32 0.16
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:10413713 original size:71 final size:73
Alignment explanation
Indices: 10413628--10413813 Score: 229
Period size: 72 Copynumber: 2.6 Consensus size: 73
10413618 GTTTTTCTTA
* * * * * *
10413628 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
10413690 TTTCCCTTG
65 TTTCCCTTG
* *
10413699 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
10413763 TTCCCTTG
66 TTCCCTTG
* * *
10413771 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
10413814 ATATTTGAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
70 8 0.08
71 25 0.25
72 69 0.68
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:10413912 original size:102 final size:102
Alignment explanation
Indices: 10413726--10413914 Score: 272
Period size: 102 Copynumber: 1.9 Consensus size: 102
10413716 CTTGAGACAG
** *
10413726 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATACCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
10413791 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* ** * *
10413828 TTTCT-TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATACCGTCTACCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCT
* *
10413892 TGAGATAGTTTCTCTTGAAACAA
65 TGAGACAGTTTCCCTTGAAACAA
10413915 TTTTCGTCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
101 32 0.42
102 44 0.58
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (102 bp):
TTTCTCTTGAAACAAATACCGTCTACCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:10413943 original size:138 final size:137
Alignment explanation
Indices: 10413696--10414014 Score: 388
Period size: 138 Copynumber: 2.3 Consensus size: 137
10413686 ACAGTTTCCC
*** *
10413696 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
*
10413761 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
66 GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
10413826 GTTTTCT
131 GTTTTCT
* * * * * *
10413833 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAT
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGAC
* * *
10413898 AGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAAT
65 AGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAAT
* * * *
10413962 TTATTTCCC
129 ATGTTTTCT
* * *** * *
10413971 CTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACA
1 TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
10414015 CAAAATCTTC
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
137 44 0.29
138 109 0.71
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
TTGAAACAAATACCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACA
GTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
GTTTTCT
Found at i:10414013 original size:65 final size:67
Alignment explanation
Indices: 10413909--10414066 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 67
10413899 GTTTCTCTTG
** * * **
10413909 AAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCC
10413971 CTA
65 CTA
* *
10413974 AAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
10414039 TA
66 TA
*
10414041 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
10414067 CGTTTCTCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 24 0.30
66 8 0.10
67 29 0.36
68 19 0.24
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:10414043 original size:67 final size:65
Alignment explanation
Indices: 10413900--10414066 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 65
10413890 CTTGAGATAG
* * ** * * **
10413900 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTT
10413964 A
65 A
* *
10413965 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTG-AA-ACAAAATCTTCAAATT
10414030 TA
64 TA
*
10414032 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGAC
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGAC
10414067 CGTTTCTCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 30 0.35
66 8 0.09
67 29 0.34
68 19 0.22
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTACCCTTGAAACAAAATCTTCAAATTTA
Found at i:10414909 original size:105 final size:105
Alignment explanation
Indices: 10414725--10415346 Score: 914
Period size: 105 Copynumber: 6.0 Consensus size: 105
10414715 GCACTCGAGG
* *
10414725 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
10414790 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
10414831 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
10414896 GCCAATTTCAACTTCACAATGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
10414936 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAACTTCTCAATCTCAGA
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
10415001 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
** * * * *
10415041 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTTCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
10415106 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
10415146 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
10415206 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * ** *
10415246 CAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCA
1 CAACACAAGTTCAACTTCACAACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCTCAATTTCA
* *
10415310 GAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
64 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
10415347 TGGAACAATG
Statistics
Matches: 470, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
99 2 0.00
100 81 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 298 0.63
106 76 0.16
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:10415938 original size:34 final size:34
Alignment explanation
Indices: 10415895--10415963 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
10415885 TTCGTCCTAC
10415895 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
10415929 TAGGATTCAAACTCCTAAAGATATGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
10415963 T
1 T
10415964 GCTAGGATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:10416415 original size:18 final size:17
Alignment explanation
Indices: 10416376--10416418 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10416366 ATTATATGGA
10416376 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
10416392 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
10416410 TATTATTAT
1 TATTATTAT
10416419 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:10416927 original size:2 final size:2
Alignment explanation
Indices: 10416920--10416947 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10416910 TAATACTTTG
10416920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10416948 TTCCTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10420809 original size:18 final size:19
Alignment explanation
Indices: 10420778--10420815 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10420768 GTTATTTTAA
10420778 TAAAATATATTAAAA-TAT
1 TAAAATATATTAAAAGTAT
10420796 TAAAATAT-TCTAAAAGTAT
1 TAAAATATAT-TAAAAGTAT
10420815 T
1 T
10420816 GATTAACGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 13 0.72
19 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAAATATATTAAAAGTAT
Found at i:10423294 original size:20 final size:21
Alignment explanation
Indices: 10423253--10423327 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 21
10423243 TCCAATAGTC
* * *
10423253 GTCAGTATCGGTAC-CACAGG
1 GTCAGTATCGATACTTAGAGG
* *
10423273 GTGAGTATCGATACTT-GGGG
1 GTCAGTATCGATACTTAGAGG
*
10423293 GTCAGTACCGATACTTAGAGG
1 GTCAGTATCGATACTTAGAGG
*
10423314 CTCAGTATCGATAC
1 GTCAGTATCGATAC
10423328 CGTCATACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (21 bp):
GTCAGTATCGATACTTAGAGG
Found at i:10423320 original size:21 final size:20
Alignment explanation
Indices: 10423276--10423327 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
10423266 CCACAGGGTG
* *
10423276 AGTATCGATACTTGGGGGTC
1 AGTATCGATACTTGAGGCTC
*
10423296 AGTACCGATACTTAGAGGCTC
1 AGTATCGATACTT-GAGGCTC
10423317 AGTATCGATAC
1 AGTATCGATAC
10423328 CGTCATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTTGAGGCTC
Found at i:10435700 original size:14 final size:14
Alignment explanation
Indices: 10435681--10435708 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10435671 TCTACACCTG
10435681 CCCCTGTTTACATA
1 CCCCTGTTTACATA
10435695 CCCCTGTTTACATA
1 CCCCTGTTTACATA
10435709 TTGTTCCGTA
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:0.21, C:0.36, G:0.07, T:0.36
Consensus pattern (14 bp):
CCCCTGTTTACATA
Found at i:10437015 original size:22 final size:23
Alignment explanation
Indices: 10436990--10437041 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10436980 CACCGAAGTG
* *
10436990 CCATATA-AAATGTCCTAAAGGA
1 CCATATAGAAATCTCCTAAAGAA
*
10437012 CCATATAGAAATCTCCTTAAGAA
1 CCATATAGAAATCTCCTAAAGAA
10437035 CCATATA
1 CCATATA
10437042 TATATTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (23 bp):
CCATATAGAAATCTCCTAAAGAA
Found at i:10437103 original size:21 final size:21
Alignment explanation
Indices: 10437079--10437118 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10437069 TCAAAGAACC
10437079 ACATATATGTTCCC-AAGGATT
1 ACATATATG-TCCCGAAGGATT
10437100 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCGAAGGA
10437119 CCACGTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCGAAGGATT
Found at i:10440829 original size:18 final size:19
Alignment explanation
Indices: 10440801--10440836 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10440791 TATATGTACA
*
10440801 TGTAGTATTTTTATTATTT
1 TGTAGTATTTTAATTATTT
10440820 TGTA-TATTTTAATTATT
1 TGTAGTATTTTAATTATT
10440837 CATCCATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TGTAGTATTTTAATTATTT
Found at i:10440960 original size:10 final size:10
Alignment explanation
Indices: 10440942--10440975 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10440932 TTTTTCATTC
10440942 TTTTCGTTTCG
1 TTTT-GTTTCG
*
10440953 TTTTGTTTTG
1 TTTTGTTTCG
10440963 TTTTGTTTCG
1 TTTTGTTTCG
10440973 TTT
1 TTT
10440976 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.00, C:0.09, G:0.18, T:0.74
Consensus pattern (10 bp):
TTTTGTTTCG
Found at i:10440987 original size:9 final size:9
Alignment explanation
Indices: 10440973--10441030 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
10440963 TTTTGTTTCG
10440973 TTTATTTTA
1 TTTATTTTA
10440982 TTTA-TTTA
1 TTTATTTTA
10440990 TTTATTTTA
1 TTTATTTTA
*
10440999 TTT-CTTTA
1 TTTATTTTA
*
10441007 CTTTCATTTTG
1 -TTT-ATTTTA
*
10441018 TTTGTTTTA
1 TTTATTTTA
10441027 TTTA
1 TTTA
10441031 CCTGTTACCT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 12 0.31
9 21 0.54
10 3 0.08
11 3 0.08
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10441673 original size:13 final size:13
Alignment explanation
Indices: 10441655--10441679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10441645 TTCATCTATG
10441655 GCTCTAAACCCGA
1 GCTCTAAACCCGA
10441668 GCTCTAAACCCG
1 GCTCTAAACCCG
10441680 TTTTAAGTGG
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:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (13 bp):
GCTCTAAACCCGA
Found at i:10445043 original size:95 final size:95
Alignment explanation
Indices: 10444879--10445060 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
10444869 TATTATTTTG
* * * *
10444879 TATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAT
1 TATACAATAAAGCGTAAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
*
10444944 ATTCAGCTAGCCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
* *
10444974 TATACAATAAAGCGTAAGCTATCCCTCTA-AGGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
1 TATACAATAAAGCGTAAGCTATCCCTCTAGA-GCAATTGGTTAAACGCCCCGACTTTATGGATAA
10445038 GATTCAGCTAACCTGATAAAGGT
65 GATTCAGCTAACCTGATAAAGGT
10445061 ATTTACATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 78 0.99
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (95 bp):
TATACAATAAAGCGTAAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:10446425 original size:72 final size:72
Alignment explanation
Indices: 10446326--10446609 Score: 426
Period size: 72 Copynumber: 3.9 Consensus size: 72
10446316 TATAGATGAT
* *
10446326 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCTTCAAGATT-TTCATTCTTAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTT-ATTCTTAA
* *
10446390 AATAGACC
65 AACAGACA
* * * *
10446398 TTGTCTCATTTGAGACTGTTTTACTTGAAATAATATTTATTTCCCTCAAGATTGTCATTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTATTCTTAAA
10446463 ACAGACA
66 ACAGACA
*
10446470 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTATTCTTAAA
*
10446535 ACAGACT
66 ACAGACA
* ** *
10446542 TTGTCTCACTTAAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATTGTTTTTCTTAAA
1 TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTATTCTTAAA
10446607 ACA
66 ACA
10446610 AAATTTTGTC
Statistics
Matches: 194, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 193 0.99
73 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (72 bp):
TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTTATTCTTAAA
ACAGACA
Found at i:10446562 original size:36 final size:35
Alignment explanation
Indices: 10446410--10446609 Score: 116
Period size: 36 Copynumber: 5.6 Consensus size: 35
10446400 GTCTCATTTG
* * * *
10446410 AGACTGTTTTACTTGAAATA-ATATTTATTTCCCTCA
1 AGACTGTTTTTCTT-AAA-ACAGATTTATCTCACTCA
* ** * * **
10446446 AGATTGTCATTCTTAAAACAGACATTGTCTCACTTG
1 AGACTGTTTTTCTTAAAACAGA-TTTATCTCACTCA
* * *
10446482 AGACTGTTTTACTTGAAAGA-AGATTTATTTCCCTCA
1 AGACTGTTTTTCTT-AAA-ACAGATTTATCTCACTCA
* * *
10446518 AGATTGTTTTTCTTAAAACAGACTTTGTCTCACTTA
1 AGACTGTTTTTCTTAAAACAGA-TTTATCTCACTCA
* * * * *
10446554 AGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCA
1 AGACTGTTTTTCTTAAAA-CAGATTTATCTCACTCA
*
10446590 AGATTGTTTTTCTTAAAACA
1 AGACTGTTTTTCTTAAAACA
10446610 AAATTTTGTC
Statistics
Matches: 118, Mismatches: 39, Indels: 15
0.69 0.23 0.09
Matches are distributed among these distances:
34 2 0.02
35 12 0.10
36 94 0.80
37 9 0.08
38 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (35 bp):
AGACTGTTTTTCTTAAAACAGATTTATCTCACTCA
Found at i:10446657 original size:39 final size:39
Alignment explanation
Indices: 10446610--10446686 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
10446600 TCTTAAAACA
* *
10446610 AAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACATT
1 AAATTTTGTCTCTCTTGAGACAATTTCCCTCGAAACATT
* *
10446649 AAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAT
1 AAATTTTGTCTCTCTTGAGACAATTTCCCTCGAAACAT
10446687 AAAAATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (39 bp):
AAATTTTGTCTCTCTTGAGACAATTTCCCTCGAAACATT
Found at i:10446760 original size:39 final size:39
Alignment explanation
Indices: 10446715--10446789 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
10446705 CCTTGAAATG
* * *
10446715 AATTTTGTCTCTCTTTAGATAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
* *
10446754 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
10446790 TAAACATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (39 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
Found at i:10446852 original size:36 final size:36
Alignment explanation
Indices: 10446805--10446890 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
10446795 ATTGAAAACA
* * *
10446805 TTTCCCTTGAAATGAA-TTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAA-CAACTTTTGTCTCCCTTGAGACAG
*
10446841 TTTCCCTTGAAACAACTTTTGTCTCCCTTGAGGCAG
1 TTTCCCTTGAAACAACTTTTGTCTCCCTTGAGACAG
*
10446877 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
10446891 TAAACATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 2 0.05
36 42 0.95
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAACTTTTGTCTCCCTTGAGACAG
Found at i:10446915 original size:101 final size:102
Alignment explanation
Indices: 10446611--10447121 Score: 819
Period size: 101 Copynumber: 5.0 Consensus size: 102
10446601 CTTAAAACAA
* * *
10446611 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACATTAAATTTTGTCTCTCTTGAGACAATTTC
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA--AAATTTTGTCTCCCTTGAGACAGTTTC
*
10446676 TCTTGAAACATAAAAATTGAAAACATTTCCCTTGAAATG
64 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* *
10446715 AATTTTGTCTCTCTTTAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTC
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AAAATTTTGTCTCCCTTGAGACAGTTTC
10446780 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
64 TCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* *
10446819 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AACTTTTGTCTCCCTTGAGGCAGTTTCTC
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
10446883 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
66 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* *
10446920 AATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAC-AACTTTTGTCTCCCTTGAGACAGTTTCTC
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
10446984 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
66 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
* * * *
10447021 AATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTTTTCTCCCTTGAGACAATTTCTC
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
* *
10447086 TTGAGACATAAACTTTGAAAACAGTTTCCCTTGAAA
66 TTGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
10447122 CAAAATCTTT
Statistics
Matches: 388, Mismatches: 15, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
101 198 0.51
102 47 0.12
103 12 0.03
104 130 0.34
106 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTC
TTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:10446953 original size:36 final size:36
Alignment explanation
Indices: 10446906--10446991 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
10446896 ATTGAAAACA
* * *
10446906 TTTCCCTTGAAATGAA-TTTTATCTCTCTTGAGATAG
1 TTTCCCTTGAAA-CAACTTTTATCTCCCTTGAGACAG
*
10446942 TTTCCCTTGAAACAACTTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAACTTTTATCTCCCTTGAGACAG
*
10446978 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
10446992 TAAACATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 2 0.05
36 42 0.95
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAACTTTTATCTCCCTTGAGACAG
Found at i:10447061 original size:36 final size:37
Alignment explanation
Indices: 10447007--10447076 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
10446997 ATTGAAAACA
** *
10447007 TTTCCCTTGAAATGAA-TTTTATCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTTATCTCCCTTGAGATAG
*
10447043 TTTCCCTTGAAACAAATTTTTTTCTCCCTTGAGA
1 TTTCCCTTGAAACAAATTTTTATCTCCCTTGAGA
10447077 CAATTTCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 14 0.48
37 15 0.52
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTCCCTTGAAACAAATTTTTATCTCCCTTGAGATAG
Found at i:10447089 original size:37 final size:36
Alignment explanation
Indices: 10447006--10447089 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 36
10446996 CATTGAAAAC
** * *
10447006 ATTTCCCTTGAAATGAATTTTATCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTTATCTCCCTTGAGACA
* *
10447042 GTTTCCCTTGAAACAAATTTTTTTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAA-TTTTATCTCCCTTGAGACA
*
10447079 ATTTCTCTTGA
1 ATTTCCCTTGA
10447090 GACATAAACT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 14 0.36
37 25 0.64
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTATCTCCCTTGAGACA
Found at i:10448626 original size:17 final size:16
Alignment explanation
Indices: 10448596--10448634 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
10448586 TTTATCTACT
*
10448596 TATTTATTTATATTAC
1 TATTTTTTTATATTAC
*
10448612 TATTTTTTTATTATTAT
1 TATTTTTTTA-TATTAC
10448629 TATTTT
1 TATTTT
10448635 ACTCTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTTTATATTAC
Done.