Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 23
Found at i:2099556 original size:36 final size:34
Alignment explanation
Indices: 2099440--2099594 Score: 140
Period size: 35 Copynumber: 4.4 Consensus size: 34
2099430 AATTATATGT
2099440 TATATGTTTTC-AAACGTACTTT-AAAAACTATATA
1 TATATGTTTTCAAAAC-T-CTTTCAAAAACTATATA
* * *
2099474 T-TATATTGTCAAAAC-CGTTTTAAAAAAACTATATA
1 TATATGTTTTCAAAACTC--TTT-CAAAAACTATATA
* *
2099509 TTATACGTTTTCAAAATTACTTT-AAAAACTATATA
1 -TATATGTTTTCAAAACT-CTTTCAAAAACTATATA
*
2099544 CTATATGTTTTTCAAAACTGTTTCAAAAACTATATA
1 -TATATG-TTTTCAAAACTCTTTCAAAAACTATATA
2099580 TATATGTTTTCAAAA
1 TATATGTTTTCAAAA
2099595 GTTATATTTG
Statistics
Matches: 100, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
31 1 0.01
33 10 0.10
34 14 0.14
35 38 0.38
36 23 0.23
37 13 0.13
39 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (34 bp):
TATATGTTTTCAAAACTCTTTCAAAAACTATATA
Found at i:2100327 original size:36 final size:36
Alignment explanation
Indices: 2100287--2100526 Score: 191
Period size: 36 Copynumber: 6.9 Consensus size: 36
2100277 GGTTTTTTTG
*
2100287 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
2100323 TGTTTCAAAAGAAACTGTCTC-A-AGA-A-AAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
2100355 AGTTTTAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
2100391 TGTTTCAAG-GAAA-AGATATTCAA-AG-G-----TTT
1 TGTTTCAAGAGAAACTG-T-CTCAAGAGAGACAAAATT
* * *
2100420 TGTTTCAAGGGAAGCTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
2100456 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
* *
2100493 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
2100527 CTTGGAAATT
Statistics
Matches: 161, Mismatches: 27, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
29 15 0.09
30 6 0.04
31 1 0.01
32 24 0.15
33 2 0.01
34 6 0.04
35 8 0.05
36 66 0.41
37 33 0.20
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:2100495 original size:37 final size:36
Alignment explanation
Indices: 2100417--2100525 Score: 164
Period size: 37 Copynumber: 3.0 Consensus size: 36
2100407 TATTCAAAGG
* *
2100417 TTTTGTTTCAAGGGAAGCTATCTCAAGAGAGACAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
* *
2100453 ATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAGA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-A
*
2100490 TTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
2100526 ACTTGGAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 32 0.49
37 33 0.51
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (36 bp):
TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
Found at i:2101131 original size:105 final size:105
Alignment explanation
Indices: 2100901--2101804 Score: 1353
Period size: 105 Copynumber: 8.5 Consensus size: 105
2100891 TGAAAGTTGT
* * * * *
2100901 GTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TT
* * * * *
2100966 GTTAACAACCAGCCGTCCATTCGTTGTGAAGTTGAACTTGT
65 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2101007 GTTGTCTCGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
2101072 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
2101112 GTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTG
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
2101177 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2101217 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTGTTA
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
2101282 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2101322 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TT
* * *
2101387 ATTGACAACCAGTGATCCCTTCGTCGTGAAGTTGAACTTGC
65 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
2101428 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
*
2101493 TTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2101533 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGAAATT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT--G--GG--A--
2101598 GAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
58 -AG---TTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
2101650 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTT
* *
2101715 GTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGT
65 GTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
2101756 GTTGTCTCGAGTCCAA-ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
2101805 TGAAACTGAA
Statistics
Matches: 738, Mismatches: 45, Indels: 31
0.91 0.06 0.04
Matches are distributed among these distances:
105 420 0.57
106 210 0.28
107 2 0.00
108 1 0.00
109 2 0.00
111 2 0.00
113 2 0.00
114 2 0.00
115 1 0.00
117 96 0.13
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
Found at i:2101474 original size:316 final size:315
Alignment explanation
Indices: 2100901--2101804 Score: 1371
Period size: 316 Copynumber: 2.8 Consensus size: 315
2100891 TGAAAGTTGT
* * * * *
2100901 GTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTG-TT
* * * * * * *
2100966 GTTAACAACCAGCCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTT
65 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* * *
2101031 GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGT
130 GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG-TGTCCCTTCGT
*
2101095 CGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
194 CGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
*
2101160 AAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
259 AAATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
*
2101217 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTGTTA
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTGTTG
2101282 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
66 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
* * *
2101347 CTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATTGTTTATTGACAACCAGTGATCCCTTCGTC
131 CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTG-TCCCTTCGTC
*
2101412 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
195 GTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
*
2101477 AATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
260 AATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
* * *
2101533 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGAAATT
1 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTG-AATT-TG--GG--A--
2101598 GAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
58 -AG---TTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
2101663 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTGTTGACAACCAGT
119 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGT
* *
2101728 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAA-ATCCTTCGCTGTGAAGTTGA
184 -GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGA
*
2101792 AATTGACTCTGAA
248 AATTGGCTCTGAA
2101805 TGAAACTGAA
Statistics
Matches: 538, Mismatches: 35, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
315 94 0.17
316 244 0.45
317 4 0.01
318 1 0.00
320 2 0.00
322 1 0.00
325 2 0.00
327 32 0.06
328 157 0.29
329 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (315 bp):
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTGTTG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTGTCCCTTCGTCG
TGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
ATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
Found at i:2101644 original size:222 final size:223
Alignment explanation
Indices: 2101369--2101804 Score: 725
Period size: 222 Copynumber: 2.0 Consensus size: 223
2101359 AATTGACTCT
*
2101369 GAAATTGAGAAATTGTTTATTGACAACCAGTGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 GAAATTGAGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
2101434 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGAC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTAGTTGTTGAC
* *
2101498 AACCAG-CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
131 AACCAGTC-GTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAA-ATCCTTCGCTGT
*
2101562 GAAGTTGAAATTGGCTCTGAAATTGGGAAG
194 GAAGTTGAAATTGACTCTGAAATTGGGAAG
* *
2101592 GAAATTGAGAAATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 GAAATTGAGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
2101656 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTGTTGAC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTAGTTGTTGAC
* * *
2101721 AACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAATCCTTCGCTGTGA
131 AACCAGTCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAAATCCTTCGCTGTGA
2101786 AGTTGAAATTGACTCTGAA
196 AGTTGAAATTGACTCTGAA
2101805 TGAAACTGAA
Statistics
Matches: 199, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
222 130 0.65
223 68 0.34
224 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (223 bp):
GAAATTGAGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTAGTTGTTGAC
AACCAGTCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAAATCCTTCGCTGTGA
AGTTGAAATTGACTCTGAAATTGGGAAG
Found at i:2101668 original size:117 final size:112
Alignment explanation
Indices: 2101475--2101804 Score: 469
Period size: 117 Copynumber: 3.0 Consensus size: 112
2101465 AATTGGCTCT
* *
2101475 GAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATT-GGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
2101540 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
65 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT--G--G
2101592 GAAATTGAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 GAAATTG-GAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
2101657 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGG
65 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
2101705 GAAATT----A-T-TTGTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1 GAAATTGGAAATTGTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
2101763 CGAGTCCAA-ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
65 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
2101805 TGAAACTGAA
Statistics
Matches: 202, Mismatches: 9, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
105 31 0.15
106 54 0.27
107 2 0.01
108 1 0.00
113 7 0.03
115 1 0.00
116 1 0.00
117 105 0.52
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (112 bp):
GAAATTGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:2101795 original size:421 final size:416
Alignment explanation
Indices: 2100901--2101804 Score: 1283
Period size: 421 Copynumber: 2.1 Consensus size: 416
2100891 TGAAAGTTGT
* * * * *
2100901 GTTGTCTCGAGTCCAATATACTTCGCTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTT
1 GTTGTCTCGAGTCCAATATCCTTCGC-GT--AGTTGAAA-T-GATCTGAAATTGAGAAATTGTTT
* * * *
2100966 GTTAACAACCAGCCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTT
61 ATTAACAACCAGCCGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTC
* *
2101031 GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
126 GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATC
*
2101096 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
191 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
2101161 AATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
256 AATTGGGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2101226 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAATTTGGGAAGTTGTTATTGACAACC
321 AGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAATTGTTATTGACAACC
2101291 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
386 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
2101322 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATTGTTT
1 GTTGTCTCGAGTCCAATATCCTTCGC-GT--AGTTGAAA-TGA-TCTGAAATTGAGAAATTGTTT
* * * *
2101387 ATTGACAACCAG-TGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
61 ATTAACAACCAGCCG-TCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTT
2101451 CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCAT
125 CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCAT
*
2101516 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
190 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
2101581 AAATTGGGAAGGAAATTGAGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
255 AAATTGGGAA-G---TT-----A---TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
2101646 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATT
308 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAATT
* * * *
2101711 ATTTGTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGT
373 -GTTATTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGC
2101756 GTTGTCTCGAGTCCAA-ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
1 GTTGTCTCGAGTCCAATATCCTTCGC-GT--AGTTGAAA-TGA-TCTGAA
2101805 TGAAACTGAA
Statistics
Matches: 440, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
420 2 0.00
421 247 0.56
422 1 0.00
425 2 0.00
430 1 0.00
433 133 0.30
434 53 0.12
435 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (416 bp):
GTTGTCTCGAGTCCAATATCCTTCGCGTAGTTGAAATGATCTGAAATTGAGAAATTGTTTATTAA
CAACCAGCCGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGT
GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAA
GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
GGAAGTTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAATTGTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGC
Found at i:2106845 original size:10 final size:11
Alignment explanation
Indices: 2106817--2106871 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
2106807 AATAAGAGAT
2106817 AATATAAATATA
1 AATA-AAATATA
2106829 AATAAAATA-A
1 AATAAAATATA
2106839 AATAAAATACT-
1 AATAAAATA-TA
2106850 AATAATAATATA
1 AATAA-AATATA
2106862 TATATAAAAT
1 -A-ATAAAAT
2106872 TATATGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.27
11 11 0.30
12 8 0.22
13 4 0.11
14 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAAATATA
Found at i:2106952 original size:70 final size:71
Alignment explanation
Indices: 2106867--2107035 Score: 211
Period size: 70 Copynumber: 2.4 Consensus size: 71
2106857 ATATATATAT
* * *
2106867 AAAATTATATGTTATATGTTTTCAAACGTACTTTAAAAACTATATA-T-TAT-ATTGTCAAAACC
1 AAAACTATATATTATATGTTTTCAAAAGTACTTTAAAAACTATATACTATATGATTGTCAAAACC
2106929 GTTTTAAA
66 G-TTT-AA
* * * * *
2106937 AAAACTATATATTATACGTTTTCAAAATTACTTTAAAAACTATATACTATATGTTTTTCAAAACT
1 AAAACTATATATTATATGTTTTCAAAAGTACTTTAAAAACTATATACTATATGATTGTCAAAACC
*
2107002 GTTTCA
66 GTTTAA
2107008 AAAACTATATA-TATATGTTTTCAAAAGT
1 AAAACTATATATTATATGTTTTCAAAAGT
2107036 TATATTTGAC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 56 0.66
71 13 0.15
72 6 0.07
73 10 0.12
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (71 bp):
AAAACTATATATTATATGTTTTCAAAAGTACTTTAAAAACTATATACTATATGATTGTCAAAACC
GTTTAA
Found at i:2106995 original size:36 final size:34
Alignment explanation
Indices: 2106879--2107033 Score: 140
Period size: 35 Copynumber: 4.4 Consensus size: 34
2106869 AATTATATGT
2106879 TATATGTTTTC-AAACGTACTTT-AAAAACTATATA
1 TATATGTTTTCAAAAC-T-CTTTCAAAAACTATATA
* * *
2106913 T-TATATTGTCAAAAC-CGTTTTAAAAAAACTATATA
1 TATATGTTTTCAAAACTC--TTT-CAAAAACTATATA
* *
2106948 TTATACGTTTTCAAAATTACTTT-AAAAACTATATA
1 -TATATGTTTTCAAAACT-CTTTCAAAAACTATATA
*
2106983 CTATATGTTTTTCAAAACTGTTTCAAAAACTATATA
1 -TATATG-TTTTCAAAACTCTTTCAAAAACTATATA
2107019 TATATGTTTTCAAAA
1 TATATGTTTTCAAAA
2107034 GTTATATTTG
Statistics
Matches: 100, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
31 1 0.01
33 10 0.10
34 14 0.14
35 38 0.38
36 23 0.23
37 13 0.13
39 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (34 bp):
TATATGTTTTCAAAACTCTTTCAAAAACTATATA
Found at i:2109521 original size:28 final size:28
Alignment explanation
Indices: 2109489--2109548 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
2109479 ATTTGGATAT
2109489 ATATCATTGGATAGCAGCCAAATGATTC
1 ATATCATTGGATAGCAGCCAAATGATTC
2109517 ATATCATTGGATAGCAGCCAAATGATTC
1 ATATCATTGGATAGCAGCCAAATGATTC
2109545 ATAT
1 ATAT
2109549 AATACATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (28 bp):
ATATCATTGGATAGCAGCCAAATGATTC
Found at i:2121072 original size:32 final size:32
Alignment explanation
Indices: 2121028--2121093 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
2121018 GAATATGTAA
*
2121028 ATCGCAACGCGATAATACAAAATCTCAACGCG
1 ATCGCAACGCGATAATACAAAATCGCAACGCG
* *
2121060 ATCGCAATGCGATAATACAAAATCGCAATGCG
1 ATCGCAACGCGATAATACAAAATCGCAACGCG
2121092 AT
1 AT
2121094 TTTCAAAGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (32 bp):
ATCGCAACGCGATAATACAAAATCGCAACGCG
Found at i:2121733 original size:20 final size:20
Alignment explanation
Indices: 2121708--2121756 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
2121698 GCGATTATCT
2121708 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
2121728 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
2121748 TGTTGCGAT
1 CGTTGCGAT
2121757 TTTCATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2121786 original size:20 final size:20
Alignment explanation
Indices: 2121724--2121779 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2121714 GATAGTCAAA
* **
2121724 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2121744 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
2121764 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
2121780 ATGTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2123138 original size:18 final size:18
Alignment explanation
Indices: 2123117--2123165 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
2123107 CTCCACTTCG
2123117 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
2123135 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
2123153 AGAGCCATCACCT
1 AGAGCCATCACCT
2123166 GATCGACCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.47, G:0.12, T:0.12
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:2123245 original size:33 final size:34
Alignment explanation
Indices: 2123208--2123283 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 34
2123198 GAATTTGACT
* * *
2123208 ATCGCAACGGGATAATTGCAATGC-GAAATAAAA
1 ATCGCAACGGGAAAATCGCAATGCAAAAATAAAA
* *
2123241 ATCGCAACGTGAAAATCGCAATGCAAAAATGAAA
1 ATCGCAACGGGAAAATCGCAATGCAAAAATAAAA
2123275 ATCGCAACG
1 ATCGCAACG
2123284 CAAATTTAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCGCAATGCAAAAATAAAA
Found at i:2123273 original size:20 final size:20
Alignment explanation
Indices: 2123250--2123287 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2123240 AATCGCAACG
*
2123250 TGAAAATCGCAATGCAAAAA
1 TGAAAATCGCAACGCAAAAA
2123270 TGAAAATCGCAACGCAAA
1 TGAAAATCGCAACGCAAA
2123288 TTTAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCAAAAA
Found at i:2123919 original size:21 final size:21
Alignment explanation
Indices: 2123890--2123943 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2123880 ACTCATCTAT
*
2123890 CATCATTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCTCTCC
2123911 CATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCTCTCC
*
2123932 TATCGTTCAAGA
1 CATCGTTCAAGA
2123944 AGCCCCTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCTCTCC
Found at i:2123963 original size:42 final size:42
Alignment explanation
Indices: 2123917--2123998 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
2123907 CTCCCATCGT
* * *
2123917 TCAAGAGGCCTCTCCTA-TCGTTCAAGAAGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACT-GTTCAAGAAGCCACTATCATCCC
* *
2123959 TCAAGAGTCCCCTCCCACTGTTCAAGAAGCCACTGTCATC
1 TCAAGAGGCCCCTCCCACTGTTCAAGAAGCCACTATCATC
2123999 GTTGAAGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACTGTTCAAGAAGCCACTATCATCCC
Found at i:2125517 original size:20 final size:20
Alignment explanation
Indices: 2125492--2125565 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
2125482 CATGTCACTT
*
2125492 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
2125512 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
*
2125532 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
2125552 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
2125566 TCAATTCGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.43, C:0.27, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:2125617 original size:34 final size:33
Alignment explanation
Indices: 2125559--2125636 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
2125549 AAATCGCAAC
* * *
2125559 GCGAAAGTCAATTCGCTTTGCGATTTTCGCGTT
1 GCGATAGTCAATACGCTTTACGATTTTCGCGTT
*
2125592 GCGATAGTCTAATACGCTTTACGATTTTCTCGTT
1 GCGATAGTC-AATACGCTTTACGATTTTCGCGTT
*
2125626 GCGATCGTCAA
1 GCGATAGTCAA
2125637 ATTCCCGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 10 0.26
34 29 0.74
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (33 bp):
GCGATAGTCAATACGCTTTACGATTTTCGCGTT
Found at i:2125647 original size:20 final size:20
Alignment explanation
Indices: 2125622--2125710 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
2125612 ACGATTTTCT
* *
2125622 CGTTGCGATCGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
2125642 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
2125662 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
2125682 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
2125702 CGTTGCGAT
1 CGTTGCGAT
2125711 TTTTATGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2125946 original size:18 final size:18
Alignment explanation
Indices: 2125923--2125957 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2125913 AAGCTGGTTG
*
2125923 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2125941 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2125958 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2128241 original size:24 final size:24
Alignment explanation
Indices: 2128207--2128260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2128197 CTGAAACATC
2128207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2128231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2128255 ATCAAA
1 ATCAAA
2128261 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2128274 original size:24 final size:24
Alignment explanation
Indices: 2128207--2128274 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
2128197 CTGAAACATC
* * *
2128207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
2128231 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
2128255 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
2128275 TAGTACTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:2128938 original size:17 final size:17
Alignment explanation
Indices: 2128916--2128948 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2128906 GATGGGGAAT
2128916 GATGTCGTTGGATATAA
1 GATGTCGTTGGATATAA
2128933 GATGTCGTTGGATATA
1 GATGTCGTTGGATATA
2128949 GGAACGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.30, T:0.36
Consensus pattern (17 bp):
GATGTCGTTGGATATAA
Found at i:2129124 original size:20 final size:20
Alignment explanation
Indices: 2129098--2129145 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2129088 GAAATTCGGT
2129098 GTTGCGATAGCCAGAATCGC
1 GTTGCGATAGCCAGAATCGC
* *
2129118 TTTGCGATAGTCAGAATCGC
1 GTTGCGATAGCCAGAATCGC
2129138 GTTGCGAT
1 GTTGCGAT
2129146 TTACATATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGCCAGAATCGC
Found at i:2129143 original size:40 final size:40
Alignment explanation
Indices: 2129098--2129181 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
2129088 GAAATTCGGT
* * * *
2129098 GTTGCGATAGCCAGAATCGCTTTGCGATAGTCAGAATCGC
1 GTTGCGATAGACAGAATCGCATTGCGATAGTCAAAATCAC
** * *
2129138 GTTGCGATTTACATATTCGCATTGCGATAGTCAAAATCAC
1 GTTGCGATAGACAGAATCGCATTGCGATAGTCAAAATCAC
2129178 GTTG
1 GTTG
2129182 TGAATCTGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (40 bp):
GTTGCGATAGACAGAATCGCATTGCGATAGTCAAAATCAC
Found at i:2129681 original size:38 final size:38
Alignment explanation
Indices: 2129630--2129707 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
2129620 ACTTGGCGAC
*
2129630 CTATAGAGCTGCAACAGCGAGGGAAGAGAGAAGAGTTG
1 CTATAGAGCTGCAACAGCGAGGGAAGAGAAAAGAGTTG
2129668 CTATAGAGCTGCAACAGCGAGGGAAGAGAAAAGAGTTG
1 CTATAGAGCTGCAACAGCGAGGGAAGAGAAAAGAGTTG
2129706 CT
1 CT
2129708 GCAACATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.37, C:0.14, G:0.35, T:0.14
Consensus pattern (38 bp):
CTATAGAGCTGCAACAGCGAGGGAAGAGAAAAGAGTTG
Found at i:2137469 original size:13 final size:13
Alignment explanation
Indices: 2137451--2137475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2137441 TGCTAAATGA
2137451 TTAAAAATTATCT
1 TTAAAAATTATCT
2137464 TTAAAAATTATC
1 TTAAAAATTATC
2137476 AAATCTACTT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAAATTATCT
Found at i:2143887 original size:2 final size:2
Alignment explanation
Indices: 2143880--2143904 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2143870 ACTGCATCCA
2143880 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2143905 ATTAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2144396 original size:24 final size:26
Alignment explanation
Indices: 2144341--2144396 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
2144331 CTCGAACTCA
* *
2144341 AAAAAATTTAGAAGTTCGATTGAAGC
1 AAAAAATTTAGAAGATCAATTGAAGC
**
2144367 CTAAAATTT-G-AGATCAATTGAAGC
1 AAAAAATTTAGAAGATCAATTGAAGC
2144391 AAAAAA
1 AAAAAA
2144397 ATAGTTTGCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 16 0.67
25 1 0.04
26 7 0.29
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (26 bp):
AAAAAATTTAGAAGATCAATTGAAGC
Found at i:2151492 original size:16 final size:15
Alignment explanation
Indices: 2151453--2151493 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
2151443 GAATCTGGGT
2151453 AAAAGATTTTAGAAA
1 AAAAGATTTTAGAAA
2151468 AAAAGATTTTAGAAA
1 AAAAGATTTTAGAAA
*
2151483 AAAAGAATTTA
1 AAAAGATTTTA
2151494 TAGTGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (15 bp):
AAAAGATTTTAGAAA
Found at i:2152113 original size:25 final size:24
Alignment explanation
Indices: 2152067--2152117 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
2152057 TATATTATAA
2152067 TAAATTGTTTATTTATTATTTTAT
1 TAAATTGTTTATTTATTATTTTAT
2152091 TAAATTGTATTATGTTATT-TTTTAT
1 TAAATTGT-TTAT-TTATTATTTTAT
2152116 TA
1 TA
2152118 TTTTTTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 8 0.32
25 12 0.48
26 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TAAATTGTTTATTTATTATTTTAT
Found at i:2153759 original size:20 final size:21
Alignment explanation
Indices: 2153715--2153756 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2153705 AAATCTTGCA
*
2153715 TGGGGGGTATCGGTACCCTCT
1 TGGGGGGTATCGATACCCTCT
2153736 TGGGGGGTATCGATACCCTCT
1 TGGGGGGTATCGATACCCTCT
2153757 GGGCAATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.24, G:0.36, T:0.29
Consensus pattern (21 bp):
TGGGGGGTATCGATACCCTCT
Found at i:2154435 original size:14 final size:15
Alignment explanation
Indices: 2154403--2154435 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2154393 TTAACAATTC
2154403 AAAGTTCTAAATCTG
1 AAAGTTCTAAATCTG
2154418 -AAGTTCTAAATC-G
1 AAAGTTCTAAATCTG
2154431 AAAGT
1 AAAGT
2154436 AGGCAAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.06
14 16 0.94
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (15 bp):
AAAGTTCTAAATCTG
Found at i:2156380 original size:21 final size:21
Alignment explanation
Indices: 2156356--2156424 Score: 84
Period size: 23 Copynumber: 3.1 Consensus size: 21
2156346 AACCCGTGGA
2156356 GGGTATCGGTACCCTCAAGGG
1 GGGTATCGGTACCCTCAAGGG
* *
2156377 GGGTATCGGTACCTACTCAAAGA
1 GGGTATCGGTACC--CTCAAGGG
2156400 GGGTATCGGTACCCATGCAAGGG
1 GGGTATCGGTACCC-T-CAAGGG
2156423 GG
1 GG
2156425 TATTGATACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.35
22 1 0.03
23 25 0.62
ACGTcount: A:0.23, C:0.22, G:0.36, T:0.19
Consensus pattern (21 bp):
GGGTATCGGTACCCTCAAGGG
Found at i:2161975 original size:64 final size:63
Alignment explanation
Indices: 2161845--2161985 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
2161835 CATATCGAAT
* *
2161845 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCAATACATAAGGA
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCAATACATAAGGA
* * * * * * *
2161908 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCAT-GGGT
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCAATACATAAGG-
2161971 A
63 A
2161972 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2161986 ATGTTAAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 18 0.27
64 48 0.73
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCAATACATAAGGA
Found at i:2162018 original size:20 final size:22
Alignment explanation
Indices: 2161973--2162030 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
2161963 GCATGGGTAG
2161973 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
2161997 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
2162017 TGCATCGATGCACT
1 TGCATCGATGCACT
2162031 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:2162535 original size:2 final size:2
Alignment explanation
Indices: 2162528--2162554 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2162518 AGGAAAGATG
2162528 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2162555 AAGATGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2162622 original size:2 final size:2
Alignment explanation
Indices: 2162615--2162640 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2162605 GAACATGTGA
2162615 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
2162641 GATAAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2163099 original size:23 final size:23
Alignment explanation
Indices: 2163032--2163101 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
2163022 AACCTTATAT
*
2163032 GGCACTTCGGTGCATTTCTACAA
1 GGCACTTCGGTGCATTTCTACGA
* * *
2163055 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGA
* *
2163078 GGTACTTCGGTGCATTTATACGA
1 GGCACTTCGGTGCATTTCTACGA
2163101 G
1 G
2163102 CTATGGTGAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGA
Found at i:2166217 original size:64 final size:63
Alignment explanation
Indices: 2166101--2166241 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
2166091 CACATTCAAT
*
2166101 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAGTGCAATTGGTGCATCGATGCATAAGGA
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAGTGCAATTGGTGCATCGATGCATAAGGA
* * * * * * *
2166164 GTGCATTGATGCATCCCTTTAAA-ATGAAAACATCGAAG-GTAATTTGTGTATCGATGTAT-GGG
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCG-AGTGCAATTGGTGCATCGATGCATAAGG
2166226 TA
63 -A
2166228 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2166242 ATGTTAAAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
63 17 0.26
64 46 0.71
65 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAGTGCAATTGGTGCATCGATGCATAAGGA
Found at i:2166274 original size:20 final size:20
Alignment explanation
Indices: 2166229--2166346 Score: 191
Period size: 20 Copynumber: 5.7 Consensus size: 20
2166219 GTATGGGTAG
2166229 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
2166253 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
2166273 TGCATCGATGCATTGTAGAA
1 TGCATCGATGCACTGTAGAA
2166293 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
2166313 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
2166333 TGCATCGATGCACT
1 TGCATCGATGCACT
2166347 TCAAAGGGAA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
20 76 0.83
22 1 0.01
23 2 0.02
24 13 0.14
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:2166734 original size:19 final size:19
Alignment explanation
Indices: 2166712--2166751 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2166702 GGTGAATATC
* *
2166712 ATATAATGAGGTATAAGTT
1 ATATAATAAGATATAAGTT
*
2166731 ATATGATAAGATATAAGTT
1 ATATAATAAGATATAAGTT
2166750 AT
1 AT
2166752 TTTATACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (19 bp):
ATATAATAAGATATAAGTT
Found at i:2167370 original size:23 final size:23
Alignment explanation
Indices: 2167335--2167402 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
2167325 AACCTTATAT
*
2167335 GGCACTTCTGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
2167358 GGCACTACGGTGCAATTATACGT
1 GGCACTTCGGTGCATTTCTACGC
2167381 GGCACTTCGGTGCATTTCTACG
1 GGCACTTCGGTGCATTTCTACG
2167403 AGTTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:2171026 original size:45 final size:44
Alignment explanation
Indices: 2170961--2171059 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 44
2170951 TTCAGTGTGT
*
2170961 ATCGATGCACCCATTAAAAATGGAAACATCGAA-TGCAGTTAGTGC
1 ATCGATGCACCCATTAAAAATGAAAACATCGAAGTG-A-TTAGTGC
* * *
2171006 ATCGATGCACCCCTTTAAAATGAAAACATCGAAGGTGATTTGTGC
1 ATCGATGCACCCATTAAAAATGAAAACATCGAA-GTGATTAGTGC
2171051 ATCGATGCA
1 ATCGATGCA
2171060 TGGGTAGTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 45 0.94
46 1 0.02
47 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (44 bp):
ATCGATGCACCCATTAAAAATGAAAACATCGAAGTGATTAGTGC
Found at i:2171112 original size:20 final size:20
Alignment explanation
Indices: 2171087--2171124 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2171077 CACAAGTTAA
*
2171087 AGAATGCCTCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
2171107 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
2171125 TCAAGGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:2176193 original size:64 final size:65
Alignment explanation
Indices: 2176052--2176213 Score: 172
Period size: 64 Copynumber: 2.5 Consensus size: 65
2176042 AATTGTTCAG
* * * *
2176052 TGTGTATCGATGCACAGGAAGTGCATTGATGCA-CCCATTAAAAATGGAAATATCGAATGCAGTT
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAATGCAGTT
* * * *
2176116 AGTGCATCAATGCATAAGG-AGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAAGGTG-A
1 TGTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAA--TGCA
2176178 -TT
63 GTT
* *
2176180 TGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 TGTGTATCGATGCATAGGAAGTGCATCGATGCAC
2176214 ATGTTAAAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
63 2 0.02
64 68 0.84
65 9 0.11
66 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (65 bp):
TGTGTATCGATGCATAGGAAGTGCATCGATGCACCCCATTAAAAATGAAAACATCGAATGCAGTT
Found at i:2182399 original size:24 final size:24
Alignment explanation
Indices: 2182335--2182402 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
2182325 CCTTAGTTTC
2182335 TAAATTATATAAC-C-TAAAATAT
1 TAAATTATATAACACATAAAATAT
*
2182357 TAAATCTTAGATATAACACATAATATAT
1 TAAA--TT--ATATAACACATAAAATAT
2182385 TAAATTATATAACACATA
1 TAAATTATATAACACATA
2182403 TACAATCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.10
24 14 0.36
26 9 0.23
27 1 0.03
28 11 0.28
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.35
Consensus pattern (24 bp):
TAAATTATATAACACATAAAATAT
Found at i:2183407 original size:14 final size:14
Alignment explanation
Indices: 2183388--2183454 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
2183378 GGGTCCTATC
*
2183388 TAAAATTTAGAGGT
1 TAAAATTTAAAGGT
*
2183402 TAAAATTTAAAGTT
1 TAAAATTTAAAGGT
* **
2183416 TAAGATTTAAAAAT
1 TAAAATTTAAAGGT
* **
2183430 TAAACTTGTAAATTT
1 TAAAATT-TAAAGGT
2183445 TAAAATTTAA
1 TAAAATTTAA
2183455 GATTTAAGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (14 bp):
TAAAATTTAAAGGT
Found at i:2183412 original size:21 final size:20
Alignment explanation
Indices: 2183388--2183470 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
2183378 GGGTCCTATC
*
2183388 TAAAATTTAGAGGTTAAAATT
1 TAAAATTTA-AGTTTAAAATT
* *
2183409 TAAAGTTTAAGATTTAAAAAT
1 TAAAATTTAAG-TTTAAAATT
* *
2183430 TAAACTTGTAAATTTTAAAATT
1 TAAAATT-T-AAGTTTAAAATT
* *
2183452 TAAGATTTAAGATTAAAAT
1 TAAAATTTAAGTTTAAAAT
2183471 AGATAAATTG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 11 0.22
21 22 0.45
22 14 0.29
23 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAAATTTAAGTTTAAAATT
Found at i:2183417 original size:7 final size:7
Alignment explanation
Indices: 2183401--2183470 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
2183391 AATTTAGAGG
2183401 TTAAAAT
1 TTAAAAT
*
2183408 TTAAAGT
1 TTAAAAT
*
2183415 TTAAGAT
1 TTAAAAT
*
2183422 TTAAAAA
1 TTAAAAT
*
2183429 TTAAACT
1 TTAAAAT
*
2183436 TGTAAATT
1 T-TAAAAT
2183444 TTAAAAT
1 TTAAAAT
*
2183451 TTAAGAT
1 TTAAAAT
*
2183458 TTAAGA-
1 TTAAAAT
2183464 TTAAAAT
1 TTAAAAT
2183471 AGATAAATTG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
6 5 0.10
7 39 0.78
8 6 0.12
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:2183478 original size:36 final size:36
Alignment explanation
Indices: 2183402--2183479 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
2183392 ATTTAGAGGT
* * * *
2183402 TAAAATTTAAAGTTTAAGATTTAAAAATTAAACTTG
1 TAAATTTTAAAATTTAAGATTTAAAAATTAAAATAG
*
2183438 TAAATTTTAAAATTTAAGATTT-AAGATTAAAATAG
1 TAAATTTTAAAATTTAAGATTTAAAAATTAAAATAG
2183473 ATAAATT
1 -TAAATT
2183480 GAGTAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 10 0.28
36 26 0.72
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (36 bp):
TAAATTTTAAAATTTAAGATTTAAAAATTAAAATAG
Found at i:2186540 original size:6 final size:6
Alignment explanation
Indices: 2186525--2186553 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2186515 GACTCCCTCG
2186525 TAAA-A TAAATA TAAATA TAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA
2186554 AATAATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:2191682 original size:13 final size:13
Alignment explanation
Indices: 2191664--2191691 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2191654 TTGGGCGTCA
2191664 GATCTTCTATTTG
1 GATCTTCTATTTG
2191677 GATCTTCTATTTG
1 GATCTTCTATTTG
2191690 GA
1 GA
2191692 GATCCCAACA
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:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (13 bp):
GATCTTCTATTTG
Found at i:2198055 original size:24 final size:25
Alignment explanation
Indices: 2198016--2198073 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
2198006 AAACACTCGC
* *
2198016 ACTAATAAT-TAACCTATTTAAT-TA
1 ACTAATAATACAACCTA-TAAATATA
2198040 AC-AATAATACAACCTATAAATATA
1 ACTAATAATACAACCTATAAATATA
2198064 ACTAATAATA
1 ACTAATAATA
2198074 ATATATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 10 0.34
24 12 0.41
25 7 0.24
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (25 bp):
ACTAATAATACAACCTATAAATATA
Found at i:2204401 original size:58 final size:58
Alignment explanation
Indices: 2204329--2204438 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
2204319 AGATTCATGG
* *
2204329 TTTAGGGATAAAATTAAAATATACAAAAATTTAAGGA-CTAATTTAAAATGAGTCATAA
1 TTTAGAGATAAAATTAAAATATACAAAAATTTAAAGATC-AATTTAAAATGAGTCATAA
* * * *
2204387 TTTAGAGATGAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAATGAG
1 TTTAGAGATAAAATTAAAATATACAAAAATTTAAAGATCAATTTAAAATGAG
2204439 GAATATAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 44 0.98
59 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (58 bp):
TTTAGAGATAAAATTAAAATATACAAAAATTTAAAGATCAATTTAAAATGAGTCATAA
Found at i:2213494 original size:32 final size:32
Alignment explanation
Indices: 2213450--2213525 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
2213440 TTCACCCTAA
* **
2213450 ACCCGACCCGAATATCACATTTAAAAAATTCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
*
2213482 ACCCGACTCGAATATCACACTTAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAACCCG
2213514 ACCCGACCCGAA
1 ACCCGACCCGAA
2213526 CAAAATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.34, G:0.11, T:0.16
Consensus pattern (32 bp):
ACCCGACCCGAATATCACACTTAAAAAACCCG
Found at i:2218962 original size:27 final size:26
Alignment explanation
Indices: 2218932--2219015 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
2218922 TTTTAGTGTT
2218932 ATATAATATATTTAATTTATTATAATA
1 ATATAATATATTT-ATTTATTATAATA
*
2218959 ATATAATATTATATT-TTTATTTTAATA
1 ATATAATA-TAT-TTATTTATTATAATA
* * * *
2218986 AT-TAATAAATATATTTATTGTAAAA
1 ATATAATATATTTATTTATTATAATA
2219011 ATATA
1 ATATA
2219016 TTTTAATAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.02
25 14 0.29
26 7 0.15
27 21 0.44
28 3 0.06
29 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
ATATAATATATTTATTTATTATAATA
Found at i:2218984 original size:24 final size:24
Alignment explanation
Indices: 2218903--2218985 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
2218893 TATTGATAAC
*
2218903 TTTAATAATAATATTATACTTTTAGT
1 TTTAAT-ATAATATTATATTTTTA-T
* *
2218929 GTT-ATATAATATATTTAATTTATTAT
1 TTTAATATAATAT-TAT-ATTT-TTAT
**
2218955 AATAATATAATATTATATTTTTAT
1 TTTAATATAATATTATATTTTTAT
2218979 TTTAATA
1 TTTAATA
2218986 ATTAATAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 16 0.36
25 8 0.18
26 9 0.20
27 12 0.27
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATATAATATTATATTTTTAT
Found at i:2244416 original size:21 final size:21
Alignment explanation
Indices: 2244374--2244416 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2244364 TTTCTGGGTG
* * *
2244374 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2244395 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2244416 A
1 A
2244417 CGAAATAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2244477 original size:66 final size:68
Alignment explanation
Indices: 2244396--2244546 Score: 220
Period size: 67 Copynumber: 2.2 Consensus size: 68
2244386 ACCCATTCAA
* *
2244396 GGGGAACCGATACCCCCTCAACG-A-AATAAATTTCCATAATG-TTAGAGGGGAATCGATACCCC
1 GGGGAACCGATACCCCCTCAACGTATAAGAAA-TTCCAGAATGCTT-GAGGGGAATCGATACCCC
2244458 CA-GG
64 CAGGG
*
2244462 GGGGAACCGATACCCCCTCATCGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
2244527 GGG
66 GGG
*
2244530 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2244547 ATGAAAAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
66 22 0.29
67 30 0.39
68 25 0.32
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
GGG
Found at i:2244945 original size:30 final size:30
Alignment explanation
Indices: 2244911--2244969 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2244901 GTTATATGAG
* *
2244911 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
2244941 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
2244970 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:2245254 original size:22 final size:22
Alignment explanation
Indices: 2245179--2245246 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
2245169 TCCTTATGGA
2245179 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2245201 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2245223 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2245245 CA
1 CA
2245247 TTTATACGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:2251328 original size:21 final size:21
Alignment explanation
Indices: 2251286--2251328 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2251276 TTTCTGGGTG
* * *
2251286 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
2251307 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
2251328 A
1 A
2251329 CGAAATAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:2251389 original size:66 final size:67
Alignment explanation
Indices: 2251308--2251457 Score: 234
Period size: 67 Copynumber: 2.3 Consensus size: 67
2251298 ACCCATTCAA
*
2251308 GGGGAACCGATACCCCCTCAACG-A-AATAAATTTCCAGAATG-TTAGAGGGGAATCGATACCCC
1 GGGGAACCGATACCCCCTCAACGTATAAGAAA-TTCCAGAATGCTT-GAGGGGAATCGATACCCC
2251370 CAGG
64 CAGG
*
2251374 GGGGAACCGATACCCCCTCATCGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
2251439 GG
66 GG
*
2251441 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
2251458 ATGAAAAAAA
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
66 22 0.28
67 49 0.63
68 7 0.09
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGTATAAGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
GG
Found at i:2251446 original size:20 final size:20
Alignment explanation
Indices: 2251421--2251458 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2251411 GAATGCTTGA
*
2251421 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
2251441 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
2251459 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:2251858 original size:30 final size:30
Alignment explanation
Indices: 2251824--2251882 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2251814 GTTATATGAG
* *
2251824 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
2251854 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
2251883 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:2252168 original size:22 final size:22
Alignment explanation
Indices: 2252093--2252160 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
2252083 TCCTTATGGA
2252093 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2252115 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2252137 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
2252159 CA
1 CA
2252161 TTTATACGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:2255431 original size:17 final size:17
Alignment explanation
Indices: 2255411--2255490 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
2255401 ATTTTAGGAG
* *
2255411 TTTTATATTTTTAATAT
1 TTTTAAATTTTAAATAT
2255428 TTTTAAATTTTAAATAT
1 TTTTAAATTTTAAATAT
* **
2255445 GAATTTAACATTTTGGAT-T
1 --TTTTAA-ATTTTAAATAT
* *
2255464 TTTTATATTTTATAATTT
1 TTTTAAATTTTA-AATAT
2255482 TTTTAAATT
1 TTTTAAATT
2255491 ATATATTATG
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
16 5 0.10
17 21 0.44
18 9 0.19
19 6 0.12
20 7 0.15
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTAAATTTTAAATAT
Found at i:2255485 original size:18 final size:17
Alignment explanation
Indices: 2255462--2255510 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
2255452 ACATTTTGGA
*
2255462 TTTTTTATATTTTATAAT
1 TTTTTTATATTATAT-AT
*
2255480 TTTTTTAAATTATATAT
1 TTTTTTATATTATATAT
*
2255497 TATGTTTATATTAT
1 T-TTTTTATATTAT
2255511 GACATGTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTTATATTATATAT
Found at i:2259515 original size:28 final size:28
Alignment explanation
Indices: 2259482--2259551 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
2259472 AAAGGAGAAG
*
2259482 AAGAAAAAGAAAATGTTACTCGAAGTTA
1 AAGAAAAAGAAAACGTTACTCGAAGTTA
2259510 AAGAAAAAGAAAACGTTACTCGAAGTTA
1 AAGAAAAAGAAAACGTTACTCGAAGTTA
2259538 AAGAAAAAGGAAAA
1 AAGAAAAA-GAAAA
2259552 AAAGAAAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 35 0.88
29 5 0.12
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.16
Consensus pattern (28 bp):
AAGAAAAAGAAAACGTTACTCGAAGTTA
Found at i:2269106 original size:15 final size:17
Alignment explanation
Indices: 2269086--2269117 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2269076 CATAATATAA
2269086 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
2269101 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
2269118 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:2269262 original size:16 final size:17
Alignment explanation
Indices: 2269234--2269265 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2269224 CATCTTTAGA
2269234 GTAGAGATAGAGATGAT
1 GTAGAGATAGAGATGAT
2269251 GTAGAG-TAGAGATGA
1 GTAGAGATAGAGATGA
2269266 GGGCTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.22
Consensus pattern (17 bp):
GTAGAGATAGAGATGAT
Found at i:2270385 original size:24 final size:24
Alignment explanation
Indices: 2270349--2270395 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2270339 TCTTTATTCG
2270349 TTAAAAAATTATATTTTTATTAAT
1 TTAAAAAATTATATTTTTATTAAT
2270373 TTAAATAAA-TATATTTTTATTAA
1 TTAAA-AAATTATATTTTTATTAA
2270396 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAAAATTATATTTTTATTAAT
Found at i:2276328 original size:43 final size:43
Alignment explanation
Indices: 2275806--2276328 Score: 524
Period size: 43 Copynumber: 12.3 Consensus size: 43
2275796 GTAATTAGCG
* * * *
2275806 GCTATAGAT-TTGACCTTTT-AGACGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2275847 GCTATAGATCT-AACATTTTGCGGCGTTTGTTCCCAAAACT-CT
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTT-CCAAAAATGCC
* * * * *
2275889 GTTATAGATCTCGATCTTTTACGGCGTTTGTTCCAAAAATACC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2275932 GCTATAGTTAT-GACCTTTTGTGGCGTTTGTTCCAAAAATGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* ** * *
2275974 ACTATAGATAT-GATATTTTGCGGCATTTGTTCCAAAAATGCT
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * *
2276016 ACTATAGTTAT-GACCTTTTCCGGCGTTTGTTCC-AAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2276057 GCTATAGATAT-GACCTTCTGCGGCGTTTGTTCCAAAAATGTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * ** *
2276099 GCTATAGATCTCAACCTTTTGCGATGTTTATTCCAAAAATGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * **
2276142 GTTATAGATATAGACCTTCTGCGGCTTTTGTTCCAAAAATTTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2276185 GCTATAGATCTCGACCTATTGCAGTGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2276228 GCTATAGATATCGACCTTCTGCGGCGTTTGTTCCAAAAATGTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2276271 GCTATAAATCTCGACCTATTGCGGTGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
2276314 GCTATAGATATCGAC
1 GCTATAGATATCGAC
2276329 ATTTGTTCCA
Statistics
Matches: 389, Mismatches: 86, Indels: 12
0.80 0.18 0.02
Matches are distributed among these distances:
41 50 0.13
42 134 0.34
43 205 0.53
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (43 bp):
GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
Found at i:2277463 original size:43 final size:43
Alignment explanation
Indices: 2276941--2277463 Score: 533
Period size: 43 Copynumber: 12.3 Consensus size: 43
2276931 GTAATTAGCG
* * * *
2276941 GCTATAGAT-TTGACCTTTT-AGACGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2276982 GCTATAGATCT-AACATTTTGCGGCGTTTGTTCCCAAAACT-CT
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTT-CCAAAAATGCC
* * * *
2277024 GTTATAGATCTCGATCTTTTGCGGCGTTTGTTCCAAAAATACC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2277067 GCTATAGTTAT-GACCTTTTGTGGCGTTTGTTCCAAAAATGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* ** * *
2277109 ACTATAGATAT-GATATTTTGCGGCATTTGTTCCAAAAATGCT
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * *
2277151 ACTATAGTTAT-GACCTTTTCCGGCGTTTGTTCC-AAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2277192 GCTATAGATAT-GACCTTCTGCGGCGTTTGTTCCAAAAATGTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * ** *
2277234 GCTATAGATCTCAACCTTTTGCGATGTTTATTCCAAAAATGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * **
2277277 GTTATAGATATAGACCTTCTGCGGCTTTTGTTCCAAAAATTTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2277320 GCTATAGATCTCGACCTATTGCAGTGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* *
2277363 GCTATAGATATCGACCTTCTGCGGCGTTTGTTCCAAAAATGTC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
* * * * *
2277406 GCTATAAATCTCGACCTATTGCGGTGTTTGTTCCAAAAACGCC
1 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
2277449 GCTATAGATATCGAC
1 GCTATAGATATCGAC
2277464 ATTTGTTCCA
Statistics
Matches: 391, Mismatches: 84, Indels: 12
0.80 0.17 0.02
Matches are distributed among these distances:
41 50 0.13
42 135 0.35
43 206 0.53
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (43 bp):
GCTATAGATATCGACCTTTTGCGGCGTTTGTTCCAAAAATGCC
Found at i:2284457 original size:207 final size:205
Alignment explanation
Indices: 2284104--2284515 Score: 761
Period size: 207 Copynumber: 2.0 Consensus size: 205
2284094 TACTGGAGGA
2284104 TAATTTGAAGTTAATAGGAAGGGGTAGAAATTGGCTTACAATCTTGCATGCTAAATCGTGACAAG
1 TAATTTGAAGTTAATAGGAAGGGGTAGAAATTGGCTTACAATCTTGCATGCTAAATCGTGACAAG
*
2284169 ATCTTCTTCAAGTAATTCTTTTGTGAAAGCCAAATCTTCCTATTACTTCTGTCTCGGTGAATTTG
66 ATCATCTTCAAGTAATTCTTTTGTGAAAGCCAAATCTTCCTATTACTTCTGTCTCGGTGAATTTG
* * *
2284234 TATCCCTATAATCTTGTTTGTTGATCCCACGTCCTTCATTTCAAATTCCCTAGCCAGTTGTGCCT
131 TATCCCTAGAATCTTGTTTGTTGATCCCAAGTCCTTCATTTCAAATTCCCTAGCCAATTGTGCCT
2284299 TCAATTCTTC
196 TCAATTCTTC
*
2284309 TAATTTGAAGTTAATAGGAAGAGGGGTAGAAATTGGCTTATAATCTTGCATGCTAAATCGTGACA
1 TAATTTGAAGTTAATAGG-A-AGGGGTAGAAATTGGCTTACAATCTTGCATGCTAAATCGTGACA
2284374 AGATCATCTTCAAGTAATTCTTTTGTGAAAGCCAAATCTTCCTATTACTTCTGTCTCGGTGAATT
64 AGATCATCTTCAAGTAATTCTTTTGTGAAAGCCAAATCTTCCTATTACTTCTGTCTCGGTGAATT
2284439 TGTATCCCTAGAATCTTGTTTGTTGATCCCAAGTCCTTCATTTCAAATTCCCTAGCCAATTGTGC
129 TGTATCCCTAGAATCTTGTTTGTTGATCCCAAGTCCTTCATTTCAAATTCCCTAGCCAATTGTGC
2284504 CTTCAATTCTTC
194 CTTCAATTCTTC
2284516 AATATGATAT
Statistics
Matches: 200, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
205 18 0.09
206 1 0.00
207 181 0.90
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (205 bp):
TAATTTGAAGTTAATAGGAAGGGGTAGAAATTGGCTTACAATCTTGCATGCTAAATCGTGACAAG
ATCATCTTCAAGTAATTCTTTTGTGAAAGCCAAATCTTCCTATTACTTCTGTCTCGGTGAATTTG
TATCCCTAGAATCTTGTTTGTTGATCCCAAGTCCTTCATTTCAAATTCCCTAGCCAATTGTGCCT
TCAATTCTTC
Found at i:2295551 original size:31 final size:31
Alignment explanation
Indices: 2295515--2295573 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2295505 AACTTAAAAG
*
2295515 AGTTTTGCAATACTGATATTTAAATAATTTT
1 AGTTTTGCAATACTGAAATTTAAATAATTTT
2295546 AGTTTTGCAATACTGAAATTTAAATAAT
1 AGTTTTGCAATACTGAAATTTAAATAAT
2295574 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTGCAATACTGAAATTTAAATAATTTT
Found at i:2295649 original size:22 final size:22
Alignment explanation
Indices: 2295600--2295648 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2295590 ATAAATTATT
* **
2295600 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
2295622 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2295645 TAAA
1 TAAA
2295649 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2295652 original size:54 final size:54
Alignment explanation
Indices: 2295588--2295834 Score: 250
Period size: 54 Copynumber: 4.5 Consensus size: 54
2295578 ACAACTACAA
*
2295588 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTAAATTTTAAAATAAATCAATCCATAC
* ** *
2295642 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C-TA-AATTTTAA-AATAAATCAATCCATAC
** * ** * ** *
2295699 TTTTAAAATAAAT-CAATCCATACAA-ATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-CAATCTAAA-T-TTTAAAATAAATCAATCCATAC
*
2295754 TAATAAATTATTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCT-AAATTTTAAAATAAATCAATCCATAC
*
2295808 AAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
2295835 CACACTAATA
Statistics
Matches: 153, Mismatches: 28, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
53 2 0.01
54 90 0.59
55 17 0.11
56 14 0.09
57 15 0.10
58 15 0.10
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTAAATTTTAAAATAAATCAATCCATAC
Found at i:2295658 original size:32 final size:32
Alignment explanation
Indices: 2295620--2296038 Score: 351
Period size: 32 Copynumber: 14.4 Consensus size: 32
2295610 CAATCTATAT
2295620 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2295652 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
2295682 --T--AATAAATCAATTCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2295707 -------TAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295732 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295764 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2295786 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2295818 TTTAAAATAAATCAATCCACACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295850 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295872 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2295904 TTTAAAAT-AATCAATCCATACAATACAATCAATCTATA
1 TTTAAAATAAATCAATCCATAC--T--AAT-AA-AT-TA
2295942 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295974 -TTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2295995 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2296027 TTTAAAATAAAT
1 TTTAAAATAAAT
2296039 TATTTTAAAA
Statistics
Matches: 322, Mismatches: 14, Indels: 102
0.74 0.03 0.23
Matches are distributed among these distances:
22 61 0.19
23 9 0.03
24 2 0.01
25 8 0.02
26 22 0.07
27 1 0.00
28 9 0.03
29 1 0.00
30 5 0.02
31 34 0.11
32 133 0.41
33 2 0.01
34 2 0.01
35 6 0.02
36 2 0.01
37 2 0.01
38 10 0.03
39 13 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:2295790 original size:22 final size:22
Alignment explanation
Indices: 2295764--2295806 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2295754 TAATAAATTA
*
2295764 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2295786 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2295807 CAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2295801 original size:86 final size:86
Alignment explanation
Indices: 2295588--2296038 Score: 563
Period size: 86 Copynumber: 5.3 Consensus size: 86
2295578 ACAACTACAA
*
2295588 TAATAAATTATTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATACAAATAAATTA
2295652 TTTAAAATAAATCAATCCATAC
65 TTTAAAATAAATCAATCCATAC
*
2295674 -AACTACA--A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTA
2295732 TTTAAAATAAATCAATCCATAC
65 TTTAAAATAAATCAATCCATAC
2295754 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
*
2295819 TTAAAATAAATCAATCCACAC
66 TTAAAATAAATCAATCCATAC
* *
2295840 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
2295905 TTAAAAT-AATCAATCCATAC
66 TTAAAATAAATCAATCCATAC
* * ** * *
2295925 AATACAATCAATCTATATTTAAAATAAATCAATCCATACTAATAAATTATTAAAATAAATCAAT-
1 --T--AAT-AA-AT-TATTTAAAATAAATCAATTCATA-TTTTAAA--A-T-AAATCAATCCATA
*
2295989 C-CAT--A-T-TTTAAAATAAATCAATCCATAC
54 CAAATAAATTATTTAAAATAAATCAATCCATAC
2296017 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
2296039 TATTTTAAAA
Statistics
Matches: 329, Mismatches: 14, Indels: 45
0.85 0.04 0.12
Matches are distributed among these distances:
80 70 0.21
81 4 0.01
82 2 0.01
84 2 0.01
85 28 0.09
86 144 0.44
87 3 0.01
88 3 0.01
89 3 0.01
90 3 0.01
91 9 0.03
92 37 0.11
93 6 0.02
95 3 0.01
96 2 0.01
97 10 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (86 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACAAATAAATTAT
TTAAAATAAATCAATCCATAC
Found at i:2295876 original size:22 final size:22
Alignment explanation
Indices: 2295850--2295892 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2295840 TAATAAATTA
2295850 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2295872 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2295893 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2295876 original size:54 final size:53
Alignment explanation
Indices: 2295818--2295923 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 53
2295808 AAATAAATTA
2295818 TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAAT-AATCAATCCATAT
*
2295872 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAATCAATCCATA
1 TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAATCAATCCATA
2295924 CAATACAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAATCAATCCATAT
Found at i:2295901 original size:22 final size:22
Alignment explanation
Indices: 2295852--2295970 Score: 75
Period size: 22 Copynumber: 5.2 Consensus size: 22
2295842 ATAAATTATT
**
2295852 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2295874 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
*
2295897 TAAATTATTTAAAAT-AAT-CA-ATCCA
1 TAAA--A--T-AAATCAATCCATAT-AA
* * *
2295922 TACAATACAATCAATCTATAT-T
1 TAAAATA-AATCAATCCATATAA
2295944 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2295967 TAAA
1 TAAA
2295971 TTATTAAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
20 1 0.01
21 15 0.20
22 29 0.39
23 11 0.15
24 3 0.04
25 6 0.08
26 2 0.03
27 4 0.05
28 4 0.05
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2295955 original size:70 final size:70
Alignment explanation
Indices: 2295855--2295993 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
2295845 AATTATTTAA
2295855 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTAAAATAAATCAAT
2295919 CCATAC
65 CCATAC
*
2295925 AATACAATCAATCTATA-TTTAAAATAAATCAATCCATACTAATAAATTATTAAAATAAATCAAT
1 AATA-AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTAAAATAAATCAAT
2295989 CCATA
65 CCATA
2295994 TTTTAAAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
69 7 0.11
70 48 0.73
71 11 0.17
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (70 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTAAAATAAATCAATC
CATAC
Found at i:2295999 original size:22 final size:22
Alignment explanation
Indices: 2295974--2296074 Score: 87
Period size: 22 Copynumber: 4.5 Consensus size: 22
2295964 TAATAAATTA
2295974 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATCAATCCATATT
*
2295996 TTAAAATAAATCAATCCATACTA
1 TTAAAATAAATCAATCCATA-TT
* * ** * **
2296019 ATAAATTATTTAAAATAAATTATT
1 TTAAAATAAAT-CAATCCA-TATT
2296043 TTAAAATAAATCAATCCAT-TT
1 TTAAAATAAATCAATCCATATT
*
2296064 TTATAATAAAT
1 TTAAAATAAAT
2296075 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
21 12 0.20
22 21 0.36
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATT
Found at i:2296047 original size:15 final size:15
Alignment explanation
Indices: 2296018--2296232 Score: 204
Period size: 15 Copynumber: 14.5 Consensus size: 15
2296008 AATCCATACT
2296018 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2296032 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2296047 AATAAATCAATCCATTTTTAT
1 AATAAAT---T--A-TTTTAA
2296068 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2296083 AATAAATTATTTT-A
1 AATAAATTATTTTAA
2296097 AATAAATTATTTTATTTTA
1 AATAAATTATTTTA----A
*
2296116 TAATAAATTATTTTAT
1 -AATAAATTATTTTAA
2296132 AATAAATTATTTT--
1 AATAAATTATTTTAA
2296145 -ATAAATTATTTTAA
1 AATAAATTATTTTAA
2296159 AAT-AATTATTTT-A
1 AATAAATTATTTTAA
*
2296172 TATAAATTA-TTT--
1 AATAAATTATTTTAA
2296184 AAT-AATTA-TTT-A
1 AATAAATTATTTTAA
*
2296196 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2296211 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2296226 AATAAAT
1 AATAAAT
2296233 AGCCTTATTA
Statistics
Matches: 173, Mismatches: 7, Indels: 41
0.78 0.03 0.19
Matches are distributed among these distances:
11 8 0.05
12 17 0.10
13 11 0.06
14 40 0.23
15 66 0.38
16 1 0.01
18 2 0.01
19 1 0.01
20 15 0.09
21 12 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2296178 original size:79 final size:76
Alignment explanation
Indices: 2296069--2296228 Score: 220
Period size: 79 Copynumber: 2.1 Consensus size: 76
2296059 CATTTTTATA
*
2296069 ATAAATTATTTTAAAATAAATTATTTTAAATAAATT-AT-TTTATTTTATAATAAATTATTTTAT
1 ATAAATTATTTTAAAATAAATTATTTTAAATAAATTAATAATTA-TTTA-AATAAATTATTTTAT
2296132 AATAAATTATTTT
64 AATAAATTATTTT
*
2296145 ATAAATTATTTTAAAAT-AATTATTTTATATAAATTATTTAATAATTATTTAAATAAATTATTTT
1 ATAAATTATTTTAAAATAAATTATTTTAAAT-AA--A-TTAATAATTATTTAAATAAATTATTTT
2296209 ATAATAAATTATTTT
62 ATAATAAATTATTTT
2296224 A-AAAT
1 ATAAAT
2296229 AAATAGCCTT
Statistics
Matches: 76, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
75 12 0.16
76 19 0.25
78 5 0.07
79 31 0.41
80 6 0.08
81 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (76 bp):
ATAAATTATTTTAAAATAAATTATTTTAAATAAATTAATAATTATTTAAATAAATTATTTTATAA
TAAATTATTTT
Found at i:2298720 original size:17 final size:18
Alignment explanation
Indices: 2298674--2298720 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
2298664 TGTTTCTGAG
2298674 GGAATTAGAATCTGTAAA
1 GGAATTAGAATCTGTAAA
* *
2298692 GGAATTGGAATCTGT-CA
1 GGAATTAGAATCTGTAAA
*
2298709 GGAATTAAAATC
1 GGAATTAGAATC
2298721 CAATTTCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (18 bp):
GGAATTAGAATCTGTAAA
Found at i:2306343 original size:31 final size:31
Alignment explanation
Indices: 2306266--2306335 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
2306256 CTTTTAAAAC
2306266 TTGCAATACAGTCCCCCAACATTTAGTTCGT
1 TTGCAATACAGTCCCCCAACATTTAGTTCGT
* *
2306297 TTCCAATACAATCCCCCAACATTTAG-TCTGT
1 TTGCAATACAGTCCCCCAACATTTAGTTC-GT
2306328 TTGCAATA
1 TTGCAATA
2306336 TGGTCCCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTTAGTTCGT
Found at i:2308345 original size:21 final size:21
Alignment explanation
Indices: 2308319--2308368 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2308309 TCAAGGGTTC
*
2308319 TACGAGGTCTTTCGGGACATA
1 TACGAGGTCCTTCGGGACATA
2308340 TACGAGGTCCTTCGGGACATA
1 TACGAGGTCCTTCGGGACATA
*
2308361 TATGAGGT
1 TACGAGGT
2308369 TATTCGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (21 bp):
TACGAGGTCCTTCGGGACATA
Found at i:2308374 original size:21 final size:21
Alignment explanation
Indices: 2308319--2308374 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
2308309 TCAAGGGTTC
*
2308319 TACGAGGTCTTTCGGGACATA
1 TACGAGGTCATTCGGGACATA
*
2308340 TACGAGGTCCTTCGGGACATA
1 TACGAGGTCATTCGGGACATA
* *
2308361 TATGAGGTTATTCG
1 TACGAGGTCATTCG
2308375 AGATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (21 bp):
TACGAGGTCATTCGGGACATA
Found at i:2311517 original size:77 final size:77
Alignment explanation
Indices: 2311412--2311565 Score: 184
Period size: 77 Copynumber: 2.0 Consensus size: 77
2311402 ACTATTGATT
* * * *
2311412 TTGTTATTATTTTTTTAACAAAACCGGTAAAAAATTATCGGAAATATTATTATTTCTACCGGTTT
1 TTGTTATTATTTTGTTAACAAAACCGGTAAAAAATTACCGAAAATATTATTATTTCTACCGATTT
*
2311477 TGTTATTATTGG
66 TATTATTATTGG
* * ** * * *
2311489 TTGTT-TTAGTTTTGTTAACATATCCGGTAAAACGTTACCTAAAATATTATTTTTTCTATCGATT
1 TTGTTATTA-TTTTGTTAACAAAACCGGTAAAAAATTACCGAAAATATTATTATTTCTACCGATT
2311553 TTATTATTATTGG
65 TTATTATTATTGG
2311566 GCACTTTACC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 3 0.05
77 61 0.95
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (77 bp):
TTGTTATTATTTTGTTAACAAAACCGGTAAAAAATTACCGAAAATATTATTATTTCTACCGATTT
TATTATTATTGG
Found at i:2312664 original size:82 final size:82
Alignment explanation
Indices: 2312527--2312690 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
2312517 AAAATGGAGT
2312527 CGGCATTGATGAGAGAAAGTAAAACGTACTGATTGAGTTGTTGGACAACTTGGTCGGGGTCCTGA
1 CGGCATTGATGAGAGAAAGTAAAACGTACTGATTGAGTTGTTGGACAACTTGGTCGGGGTCCTGA
2312592 ACTGGTGAGGAGAAAAC
66 ACTGGTGAGGAGAAAAC
2312609 CGGCATTGATGAGAGAAAGTAAAACGTACTGATTGAGTTGTTGGACAACTTGGTCGGGGTCCTGA
1 CGGCATTGATGAGAGAAAGTAAAACGTACTGATTGAGTTGTTGGACAACTTGGTCGGGGTCCTGA
2312674 ACTGGTGAGGAGAAAAC
66 ACTGGTGAGGAGAAAAC
2312691 AAGGGTGGGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (82 bp):
CGGCATTGATGAGAGAAAGTAAAACGTACTGATTGAGTTGTTGGACAACTTGGTCGGGGTCCTGA
ACTGGTGAGGAGAAAAC
Found at i:2313634 original size:22 final size:22
Alignment explanation
Indices: 2313609--2313668 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
2313599 ATAATGTGTC
* *
2313609 ATATCACATATGATT-TTTCGTG
1 ATATGACATATCATTATTT-GTG
2313631 ATATGACATATCATTATTTGTG
1 ATATGACATATCATTATTTGTG
* *
2313653 ACATGACATATTATTA
1 ATATGACATATCATTA
2313669 CTTTAAGTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (22 bp):
ATATGACATATCATTATTTGTG
Found at i:2313822 original size:60 final size:59
Alignment explanation
Indices: 2313743--2313875 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 59
2313733 AAATTATAAC
* * * * * *
2313743 CCTCATTATAAATTGGTCCTTAAAATTTTGAATATCCCAATTTTATCCCCAAACTATGA
1 CCTCATTCTAAATTAGTCCTTAAAATTTTAAACATCCCAATTTCATCCCCAAACAATGA
* * * *
2313802 CTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTCTAATTTCATCCCTAAACAATGA
1 C-CTCATTCTAAATTAGTCCTTAAAATTTTAAACATCCCAATTTCATCCCCAAACAATGA
*
2313862 CCTCTTTCTAAATT
1 CCTCATTCTAAATT
2313876 GATCCCAAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
59 13 0.21
60 49 0.79
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (59 bp):
CCTCATTCTAAATTAGTCCTTAAAATTTTAAACATCCCAATTTCATCCCCAAACAATGA
Found at i:2314087 original size:29 final size:29
Alignment explanation
Indices: 2314045--2314118 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 29
2314035 ATAGTTTGGC
*
2314045 ATGAAATTGGAAT-GTTCAAAAAGTCTGGG
1 ATGAAATTGGAATAGGTC-AAAAGTCTGGG
*
2314074 ATGAAATTGGAATGAAGGTCATAAGTCTGGG
1 ATGAAATTGGAAT--AGGTCAAAAGTCTGGG
*
2314105 ATGAAATTGAAATA
1 ATGAAATTGGAATA
2314119 TTTAAAAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 14 0.36
31 22 0.56
32 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (29 bp):
ATGAAATTGGAATAGGTCAAAAGTCTGGG
Found at i:2316490 original size:14 final size:14
Alignment explanation
Indices: 2316471--2316511 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
2316461 TAGATTATAT
2316471 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
2316485 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
2316499 GTTCATTTATGTT
1 GTTCGTTTATGTT
2316512 AATATATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.59
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:2316869 original size:31 final size:31
Alignment explanation
Indices: 2316834--2316911 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
2316824 TTATTATTTA
*
2316834 AATGAGCGAACATGAACAAGTTATATTCCTT
1 AATGAACGAACATGAACAAGTTATATTCCTT
2316865 AATGAACGAACATGAACAAGTTATATTCCTT
1 AATGAACGAACATGAACAAGTTATATTCCTT
2316896 AATGAACGAACATGAA
1 AATGAACGAACATGAA
2316912 AAAAAAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (31 bp):
AATGAACGAACATGAACAAGTTATATTCCTT
Found at i:2316946 original size:16 final size:16
Alignment explanation
Indices: 2316921--2316961 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
2316911 AAAAAAAAAT
*
2316921 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
2316937 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
2316953 T-TT-ATTTAT
1 TGTTCATTTAT
2316962 TAAATGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:2317897 original size:2 final size:2
Alignment explanation
Indices: 2317890--2317932 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2317880 TGTTTAAAAT
2317890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2317932 T
1 T
2317933 TCGTCTACGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2318710 original size:32 final size:31
Alignment explanation
Indices: 2318667--2318743 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 31
2318657 TTTATTTTGT
*
2318667 TCGGGTTGGGTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTTTTTTAA-TGTGATATTCGGG
2318699 TCGGGTCGGGTTTTTTTTAATGTGATATTCGGG
1 TCGGGTCGGG--TTTTTTAATGTGATATTCGGG
2318732 TCGGGTCGGGTT
1 TCGGGTCGGGTT
2318744 CGGATTTAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 2 0.05
32 9 0.21
33 23 0.55
34 8 0.19
ACGTcount: A:0.10, C:0.09, G:0.38, T:0.43
Consensus pattern (31 bp):
TCGGGTCGGGTTTTTTAATGTGATATTCGGG
Found at i:2318723 original size:33 final size:34
Alignment explanation
Indices: 2318677--2318743 Score: 127
Period size: 33 Copynumber: 2.0 Consensus size: 34
2318667 TCGGGTTGGG
2318677 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTT
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTT
2318711 TTTTTTAA-TGTGATATTCGGGTCGGGTCGGGTT
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTT
2318744 CGGATTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.45
Consensus pattern (34 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTT
Found at i:2319014 original size:250 final size:243
Alignment explanation
Indices: 2318468--2319041 Score: 837
Period size: 250 Copynumber: 2.3 Consensus size: 243
2318458 TCGGGTCAGA
* * *
2318468 TCGGGTTTCTTTAAGTGTGATATTCGGGTCGGGTTC-GGTTTAGGGT-AAAAAAACCGAACCGAC
1 TCGGGTTTTTTTAAGTGTGATATTCGGGTTGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGAC
*
2318531 CCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATTTTT
66 CCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATATTT
* *
2318596 TTTATTATTTCGGGTCGGTTCGGGTTGGATTTCTAATTCATATATTCGGGTCGGATGAAACTTTA
131 TTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGATGAAACTTTA
*
2318661 TTTTGTTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGGG
196 TTTTGTTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGG
*
2318709 T----TTTTTTTAA-TGTGATATTCGGGTCGGGTCGGGTTCGGATTTAGGGTGAAAAAAACCGGA
1 TCGGGTTTTTTTAAGTGTGATATTCGGGT----T-GGGTTCGGGTTTAGGGTGAAAAAAACCGGA
*
2318769 CCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTG-TTTTATTAAATAAAAA
61 CCGACCCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAA
2318833 TATTTTTT-TTATTTCGGGTCGGGTC-GGTCCGG-TTTCTAATTCATATATTCGAGTCAGGTCGG
126 TATTTTTTATTATTTCGGGTCGGGTCGGGT-CGGATTTCTAATTCATATATTC--G---GGTCGG
2318895 ATGAAACTTTATTTTGTTCGGGTCGTGTCAGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGG
185 ATGAAACTTTATTTTGTTCGGGT--TG---GGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGG
2318959 TCGGGTTTTTTTAAGTGTGATATTCGGGTTGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGAC
1 TCGGGTTTTTTTAAGTGTGATATTCGGGTTGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGAC
*
2319024 CCGAAAAAATATATAATT
66 CCGAAAATATATATAATT
2319042 TTACCTTATA
Statistics
Matches: 299, Mismatches: 11, Indels: 37
0.86 0.03 0.11
Matches are distributed among these distances:
236 14 0.05
237 8 0.03
240 21 0.07
241 25 0.08
242 33 0.11
243 58 0.19
245 29 0.10
247 2 0.01
250 85 0.28
251 1 0.00
254 9 0.03
255 14 0.05
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (243 bp):
TCGGGTTTTTTTAAGTGTGATATTCGGGTTGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGAC
CCGAAAATATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATATTT
TTTATTATTTCGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGATGAAACTTTA
TTTTGTTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGG
Found at i:2319612 original size:18 final size:16
Alignment explanation
Indices: 2319569--2319614 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
2319559 TATAGAATTG
2319569 GATTCCAATTCCTACA
1 GATTCCAATTCCTACA
*
2319585 TATTCCAATTCCTTCACA
1 GATTCCAATTCC-T-ACA
*
2319603 GATTCTAATTCC
1 GATTCCAATTCC
2319615 CTCATAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 1 0.04
18 13 0.52
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.37
Consensus pattern (16 bp):
GATTCCAATTCCTACA
Found at i:2319976 original size:21 final size:20
Alignment explanation
Indices: 2319930--2319977 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
2319920 GATTCTGTCT
2319930 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTCCCAA
* *
2319950 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGA-TTTCCCAA
2319972 ATCGCA
1 ATCGCA
2319978 ACGCGATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTCCCAA
Found at i:2320045 original size:20 final size:20
Alignment explanation
Indices: 2319969--2320046 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
2319959 GCGATTTTCC
* *
2319969 TAAATCGCAACGCGATTACG
1 TAAATCGCAATGCGAATACG
*
2319989 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
*
2320010 AAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
2320030 TAAATCGCAATGCGAAT
1 TAAATCGCAATGCGAAT
2320047 CTGACTATCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
20 33 0.65
21 18 0.35
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:2325302 original size:20 final size:19
Alignment explanation
Indices: 2325274--2325317 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
2325264 CAATCATCTT
*
2325274 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
* *
2325294 AATGACTATCGTAATGCGA
1 AATGACTATCGCAACGCGA
2325313 AATGA
1 AATGA
2325318 AAATCACAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:2325348 original size:33 final size:33
Alignment explanation
Indices: 2325301--2325427 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
2325291 GGAAATGACT
* *
2325301 ATCGTAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2325334 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2325367 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2325400 ATCGCAAAGCGAAATGAAAATCGTAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2325428 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2325357 original size:19 final size:19
Alignment explanation
Indices: 2325281--2325392 Score: 82
Period size: 19 Copynumber: 6.4 Consensus size: 19
2325271 CTTAATGTCT
* **
2325281 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
*
2325301 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2325320 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2325334 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2325353 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2325367 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2325386 ATCGCAA
1 ATCGCAA
2325393 CGAGGGAATC
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
14 19 0.27
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.45
20 8 0.11
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2325371 original size:14 final size:14
Alignment explanation
Indices: 2325319--2325406 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
2325309 GCGAAATGAA
*
2325319 AATCACAACGAGAG
1 AATCGCAACGAGAG
*
2325333 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2325352 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2325366 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2325385 AATCGCAACGAGGG
1 AATCGCAACGAGAG
2325399 AATCGCAA
1 AATCGCAA
2325407 AGCGAAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.45
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2325479 original size:33 final size:33
Alignment explanation
Indices: 2325437--2325516 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
2325427 GCGAATTTAG
* *
2325437 TTTCGCGTTGCGATTTTGTCATTACGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTACGATTTTCA
* * *
2325470 TTTCGCGTTGCAATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTACGATTTTCA
*
2325503 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2325517 AGTCATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCATTACGATTTTCA
Found at i:2325642 original size:14 final size:14
Alignment explanation
Indices: 2325623--2325659 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2325613 CATCAATTAA
2325623 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2325637 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2325651 ACAAATCAA
1 ACAAATCAA
2325660 TTAAACAATA
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:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2327570 original size:14 final size:14
Alignment explanation
Indices: 2327551--2327637 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 14
2327541 AAAAATGACT
2327551 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2327565 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2327584 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2327598 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2327617 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2327631 ATCGCAA
1 ATCGCAA
2327638 TGCGAAATGA
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.46
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2327588 original size:19 final size:19
Alignment explanation
Indices: 2327564--2327661 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
2327554 GCAACGAGAG
2327564 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2327583 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
2327597 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2327616 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
2327630 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
2327649 AATCGCAACGCGA
1 AATCGCAACGCGA
2327662 TTATAGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Done.