Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 125 of 311
Found at i:41897484 original size:20 final size:20
Alignment explanation
Indices: 41897459--41897496 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41897449 CTAAATCGAG
41897459 AACTTAGGAA-ATTTTTACAA
1 AACTTA-GAAGATTTTTACAA
41897479 AACTTAGAAGATTTTTAC
1 AACTTAGAAGATTTTTAC
41897497 CATGTATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (20 bp):
AACTTAGAAGATTTTTACAA
Found at i:41902042 original size:46 final size:46
Alignment explanation
Indices: 41901992--41902167 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41901982 TGGTTGAGCA
41901992 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41902038 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41902083 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41902131 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41902168 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41902148 original size:93 final size:93
Alignment explanation
Indices: 41901989--41902160 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41901979 GGATGGTTGA
* *
41901989 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41902054 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41902082 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41902147 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41902161 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41909546 original size:46 final size:46
Alignment explanation
Indices: 41909496--41909671 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41909486 TGGTTGAGCA
41909496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41909542 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41909587 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41909635 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41909672 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41909652 original size:93 final size:93
Alignment explanation
Indices: 41909493--41909664 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41909483 GGATGGTTGA
* *
41909493 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41909558 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41909586 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41909651 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41909665 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41912092 original size:30 final size:30
Alignment explanation
Indices: 41912035--41912093 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
41912025 CCTTTTGAAG
* *
41912035 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
41912065 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
41912094 GAAAATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:41941440 original size:46 final size:46
Alignment explanation
Indices: 41941390--41941565 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
41941380 TGGTTGAGCA
*
41941390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
41941436 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
41941481 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
41941529 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41941566 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
45 3 0.03
46 58 0.54
47 25 0.23
48 3 0.03
50 6 0.06
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:41941546 original size:93 final size:93
Alignment explanation
Indices: 41941387--41941556 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
41941377 GGATGGTTGA
* * *
41941387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41941452 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
41941480 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
41941545 TGAGTCCTAGTT
66 TGAGTCCGAGTT
41941557 CGCTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:41947636 original size:21 final size:21
Alignment explanation
Indices: 41947610--41947649 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
41947600 GTGGTGCGAT
41947610 AGGCAAGAGCGAGTAGCAATG
1 AGGCAAGAGCGAGTAGCAATG
41947631 AGGCAAGAGCGAGTAGCAA
1 AGGCAAGAGCGAGTAGCAA
41947650 GGCGACAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.38, T:0.07
Consensus pattern (21 bp):
AGGCAAGAGCGAGTAGCAATG
Found at i:41948324 original size:17 final size:17
Alignment explanation
Indices: 41948302--41948337 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
41948292 ATTAGGGAGG
41948302 CTACTAACTTGGCCACA
1 CTACTAACTTGGCCACA
41948319 CTACTAACTTGGCCACA
1 CTACTAACTTGGCCACA
41948336 CT
1 CT
41948338 GCTGACTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (17 bp):
CTACTAACTTGGCCACA
Found at i:41976618 original size:50 final size:50
Alignment explanation
Indices: 41976543--41976641 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
41976533 ATTTGTCACC
* *
41976543 AAAATAGGGTTACGAAGTATTACCATAAAACCATAACATAAAAACATACT
1 AAAATAGGGTTACAAAGCATTACCATAAAACCATAACATAAAAACATACT
* *
41976593 AAAATAGGGTTATAAAGCATTACCATAAAACCGTAACATAAAAACATAC
1 AAAATAGGGTTACAAAGCATTACCATAAAACCATAACATAAAAACATAC
41976642 ATTTCCAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.21
Consensus pattern (50 bp):
AAAATAGGGTTACAAAGCATTACCATAAAACCATAACATAAAAACATACT
Found at i:41984663 original size:17 final size:17
Alignment explanation
Indices: 41984641--41984683 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
41984631 ATTTCATTTA
**
41984641 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
41984658 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
41984675 AAAT-TCAAT
1 AAATGTCAAT
41984684 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:41986938 original size:15 final size:16
Alignment explanation
Indices: 41986920--41986961 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
41986910 TCTGAGACAG
41986920 AGAAATCCAAGA-TAA
1 AGAAATCCAAGATTAA
*
41986935 AGAAACTCCAAGATTCA
1 AGAAA-TCCAAGATTAA
41986952 A-AAATCCAAG
1 AGAAATCCAAG
41986962 TTACAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 10 0.42
17 3 0.12
ACGTcount: A:0.55, C:0.19, G:0.12, T:0.14
Consensus pattern (16 bp):
AGAAATCCAAGATTAA
Found at i:41995354 original size:11 final size:11
Alignment explanation
Indices: 41995340--41995392 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
41995330 ATATATCATA
41995340 GCATATCATGT
1 GCATATCATGT
*
41995351 GCATATCAT-A
1 GCATATCATGT
*
41995361 ACATATCATGT
1 GCATATCATGT
41995372 GCATATCATGT
1 GCATATCATGT
41995383 -CATATCATGT
1 GCATATCATGT
41995393 ATATCAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:41995356 original size:21 final size:21
Alignment explanation
Indices: 41995332--41995392 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
41995322 TATAGAGAAT
41995332 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
41995353 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
41995374 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
41995393 ATATCAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:41995360 original size:5 final size:5
Alignment explanation
Indices: 41995332--41995390 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
41995322 TATAGAGAAT
* * * * *
41995332 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
41995384 ATATC AT
1 ATATC AT
41995391 GTATATCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:41995402 original size:10 final size:10
Alignment explanation
Indices: 41995332--41995398 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
41995322 TATAGAGAAT
41995332 ATATCATAG-C
1 ATATCAT-GTC
41995342 ATATCATGTGC
1 ATATCATGT-C
**
41995353 ATATCATAAC
1 ATATCATGTC
41995363 ATATCATGTGC
1 ATATCATGT-C
41995374 ATATCATGTC
1 ATATCATGTC
41995384 ATATCATGT-
1 ATATCATGTC
41995393 ATATCA
1 ATATCA
41995399 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:42003210 original size:11 final size:11
Alignment explanation
Indices: 42003196--42003248 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
42003186 ATATATCATA
42003196 GCATATCATGT
1 GCATATCATGT
*
42003207 GCATATCAT-A
1 GCATATCATGT
* *
42003217 ACATTTCATGT
1 GCATATCATGT
42003228 GCATATCATGT
1 GCATATCATGT
42003239 -CATATCATGT
1 GCATATCATGT
42003249 ATATCAATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:42003211 original size:16 final size:15
Alignment explanation
Indices: 42003191--42003242 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
42003181 GGAGAATATA
42003191 TCATAGCATATCATG
1 TCATAGCATATCATG
* * *
42003206 TGCATATCATAACATT
1 T-CATAGCATATCATG
*
42003222 TCATGTGCATATCATG
1 TCAT-AGCATATCATG
42003238 TCATA
1 TCATA
42003243 TCATGTATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (15 bp):
TCATAGCATATCATG
Found at i:42003212 original size:21 final size:21
Alignment explanation
Indices: 42003188--42003248 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
42003178 TATGGAGAAT
42003188 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
42003209 ATATCATAACATTTCATGTGC
1 ATATCATAGCATATCATGTGC
42003230 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
42003249 ATATCAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:42003258 original size:10 final size:10
Alignment explanation
Indices: 42003188--42003254 Score: 66
Period size: 10 Copynumber: 6.6 Consensus size: 10
42003178 TATGGAGAAT
42003188 ATATCATAG-C
1 ATATCAT-GTC
42003198 ATATCATGTGC
1 ATATCATGT-C
**
42003209 ATATCATAAC
1 ATATCATGTC
*
42003219 ATTTCATGTGC
1 ATATCATGT-C
42003230 ATATCATGTC
1 ATATCATGTC
42003240 ATATCATGT-
1 ATATCATGTC
42003249 ATATCA
1 ATATCA
42003255 ATGTTTCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
9 7 0.15
10 24 0.50
11 17 0.35
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:42003313 original size:25 final size:25
Alignment explanation
Indices: 42003285--42003333 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
42003275 ATAATCTAAC
* * *
42003285 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAATAGTCATTTTTA
42003310 CCTAGGGGAAAAATAGTCATTTTT
1 CCTAGGGGAAAAATAGTCATTTTT
42003334 CATGTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (25 bp):
CCTAGGGGAAAAATAGTCATTTTTA
Found at i:42006898 original size:43 final size:42
Alignment explanation
Indices: 42006795--42006899 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
42006785 AGGGTTACTG
* ***
42006795 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATTTG
1 AGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACA
* * *
42006837 AGACTT-CGTGTGACACCATAGCTGGGCTATTGGCATCGATACA
1 AGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATACA
*
42006880 AGATTACATGTAAGACCATA
1 AGATTACGTGTAAGACCATA
42006900 TCGAGGATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
42 24 0.48
43 26 0.52
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACA
Found at i:42010004 original size:25 final size:23
Alignment explanation
Indices: 42009978--42010022 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
42009968 TATACTAAAT
* *
42009978 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
42010001 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
42010023 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:42010019 original size:29 final size:27
Alignment explanation
Indices: 42009986--42010040 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
42009976 ATATATATAT
* *
42009986 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
42010015 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
42010041 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:42010108 original size:39 final size:40
Alignment explanation
Indices: 42010038--42010122 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
42010028 TATAATTAAT
*
42010038 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
* * * * *
42010078 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
42010117 TTTTAA
1 TTTTAA
42010123 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
Found at i:42013230 original size:50 final size:50
Alignment explanation
Indices: 42013175--42013280 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
42013165 ATTGGAACAC
* * * *
42013175 CACATAAATACTTACCTATATGACCGGATATACCAA-GTTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATA-CAAGGTTCAATATATCAT
* *
42013225 TACATAAGTACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
42013275 CACATA
1 CACATA
42013281 TGGCTGATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACAAGGTTCAATATATCAT
Found at i:42013302 original size:36 final size:36
Alignment explanation
Indices: 42013253--42013366 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
42013243 TAAGACCGAA
**
42013253 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
** * *
42013289 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATACAAAATTCAATATATCATCACATATGGCTGAT
42013325 TATAC-AAATTCAATATATCATCACATATGG-TCGAT
1 TATACAAAATTCAATATATCATCACATATGGCT-GAT
42013360 TATACAA
1 TATACAA
42013367 TGTTCATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
35 30 0.45
36 36 0.55
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (36 bp):
TATACAAAATTCAATATATCATCACATATGGCTGAT
Found at i:42013376 original size:35 final size:34
Alignment explanation
Indices: 42013253--42013366 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 34
42013243 TAAGACCGAA
*
42013253 TATACAAGGTTCAATATATCATCACATATGGCTGAT
1 TATACAA-ATTCAATATATCATCACATATGGC-GAT
** *
42013289 TATACAAAATTCAATATATCATCACATATAACCGAA
1 TATAC-AAATTCAATATATCATCACATAT-GGCGAT
42013325 TATACAAATTCAATATATCATCACATATGGTCGAT
1 TATACAAATTCAATATATCATCACATATGG-CGAT
42013360 TATACAA
1 TATACAA
42013367 TGTTCATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
35 33 0.49
36 32 0.47
37 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TATACAAATTCAATATATCATCACATATGGCGAT
Found at i:42018596 original size:51 final size:49
Alignment explanation
Indices: 42018410--42018654 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
42018400 TAGCCAAAGC
* * *
42018410 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
** * * *
42018459 TATCCAGTACACATAGTAGCCTGCACTTAGTACTACATACATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
42018509 CATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * *
42018560 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
42018609 TATAC-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
42018655 TCACAATAGA
Statistics
Matches: 165, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 80 0.48
50 46 0.28
51 39 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:42024504 original size:41 final size:41
Alignment explanation
Indices: 42024447--42024545 Score: 171
Period size: 41 Copynumber: 2.4 Consensus size: 41
42024437 CAGATACCTA
*
42024447 ATAGCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTGACTG
1 ATAGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTG
*
42024488 ATAGCTTGTGTGAGCAGCACTGTGTAGCTACATCTTGACTG
1 ATAGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTG
*
42024529 AAAGCTTGTGTGAGCAG
1 ATAGCTTGTGTGAGCAG
42024546 GCCCGTGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
ATAGCTTGTGTGAGCAGCACTGTGTAGCTACATCCTGACTG
Found at i:42026378 original size:47 final size:47
Alignment explanation
Indices: 42026327--42026662 Score: 501
Period size: 47 Copynumber: 7.1 Consensus size: 47
42026317 TTAGGATTTT
* *
42026327 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
42026374 ATGTGATGAATGTGAACCTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
42026425 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
42026472 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
42026519 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
42026566 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
42026613 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
42026660 ATG
1 ATG
42026663 CGAAATGTGT
Statistics
Matches: 264, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 221 0.84
48 1 0.00
50 1 0.00
51 41 0.16
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:42026772 original size:46 final size:46
Alignment explanation
Indices: 42026636--42026772 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
42026626 GAACATGTAT
* * *
42026636 ATATGTGGTAAGGCTGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
42026682 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
42026728 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
42026773 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:42031313 original size:20 final size:20
Alignment explanation
Indices: 42031290--42031365 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
42031280 AAATTTCAAA
* *
42031290 TTTTTATGATTTTTTATAGG
1 TTTTTATGAATTTTAATAGG
* *
42031310 TTTTTAAGAATTTTAATATG
1 TTTTTATGAATTTTAATAGG
* *
42031330 TTTTTATAAAATTTTAAATATG
1 TTTTTAT-GAATTTT-AATAGG
*
42031352 -TTTTATTAATTTTA
1 TTTTTATGAATTTTA
42031366 TAAAAAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 12 0.26
22 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TTTTTATGAATTTTAATAGG
Found at i:42031369 original size:22 final size:22
Alignment explanation
Indices: 42031309--42031355 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
42031299 TTTTTTATAG
*
42031309 GTTTTTA-AGAATTTT-AATAT
1 GTTTTTATAAAATTTTAAATAT
42031329 GTTTTTATAAAATTTTAAATAT
1 GTTTTTATAAAATTTTAAATAT
42031351 GTTTT
1 GTTTT
42031356 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
GTTTTTATAAAATTTTAAATAT
Found at i:42031789 original size:15 final size:15
Alignment explanation
Indices: 42031739--42031792 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
42031729 CCCTCTCTTT
**
42031739 TTTCCTTTTAATTTC
1 TTTCCTTTTTTTTTC
* *
42031754 CTTCCTTTTTTTCTATT
1 TTTCCTTTTTTT-T-TC
42031771 TTTCCTTTTTTTTTC
1 TTTCCTTTTTTTTTC
42031786 TTTCCTT
1 TTTCCTT
42031793 CCACCATTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 17 0.55
16 2 0.06
17 12 0.39
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCCTTTTTTTTTC
Found at i:42031794 original size:19 final size:19
Alignment explanation
Indices: 42031749--42031794 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
42031739 TTTCCTTTTA
42031749 ATTTCCTTCCTTTTTTTCT
1 ATTTCCTTCCTTTTTTTCT
*
42031768 ATTT--TTCCTTTTTTTTT
1 ATTTCCTTCCTTTTTTTCT
*
42031785 CTTTCCTTCC
1 ATTTCCTTCC
42031795 ACCATTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.65
19 8 0.35
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTCCTTCCTTTTTTTCT
Found at i:42040498 original size:278 final size:279
Alignment explanation
Indices: 42039969--42040594 Score: 832
Period size: 278 Copynumber: 2.2 Consensus size: 279
42039959 ATGGCTCACG
* * * **
42039969 CTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
* * * * *
42040034 TCGCACTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACAATTGAGAGCT
66 TCTCACTAACTATTTTTGACGCTGCGGTATTGAACTTGCGAGCCTTAAGATTACAATTGAGAGCT
* * *
42040099 TGAGCTCTTGTTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGG
131 TGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTACAGCTGG
* * *
42040164 GAGCTTGAGCTCTCACTAACTATTTTGTAGGATGCAGTTTGAATCTGCGAGCCTTAAGATTATAG
196 GAGCTTGAGCTCACACTAACTATTTTGGAGGATGCAGTTTGAACCTGCGAGCCTTAAGATTATAG
*
42040229 CT-GGAGCTTAAGCTCTCG
261 CTAGGAGCTTAAGCTCTCA
* * * **
42040247 TTAACTATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAGCTAGGAGCTTGAG
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTT-AAGATTACAGCTAGGAGCTTGAG
* *
42040311 CTCTCACTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAGTTGGGAG
65 CTCTCACTAACTATTTTTGACGCTGCGGTATTGAA-CTTGCGAGCCTTAAGATTACAATTGAGAG
* * * * * *
42040375 CTTGAGCTCTTGCTAATTGTTTTGGAGGTTGTAGTATTGAACCTTGGAA-CCTTAAGATTACAGT
129 CTTGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACC-TGCAAGCCTTAAGATTACAGC
* * * * *
42040439 TGGGAGCTTGAGTTCACGCTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTTAAGAT
193 TGGGAGCTTGAGCTCACACTAACTATTTTGGAGGATGC-AGTTTGAACCTGCGA-GCCTTAAGAT
*
42040502 TATAGCTAGGAGCTTGAGCTCTCA
256 TATAGCTAGGAGCTTAAGCTCTCA
*
42040526 CTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
1 CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
42040591 TCTC
66 TCTC
42040595 GTTAATTGTT
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
277 12 0.04
278 203 0.68
279 84 0.28
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (279 bp):
CTAACTATTTTGGAGGTTGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCTTGAGC
TCTCACTAACTATTTTTGACGCTGCGGTATTGAACTTGCGAGCCTTAAGATTACAATTGAGAGCT
TGAGCTCTTGCTAACTATTTTGGAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTACAGCTGG
GAGCTTGAGCTCACACTAACTATTTTGGAGGATGCAGTTTGAACCTGCGAGCCTTAAGATTATAG
CTAGGAGCTTAAGCTCTCA
Found at i:42040534 original size:209 final size:207
Alignment explanation
Indices: 42039977--42040612 Score: 586
Period size: 209 Copynumber: 3.0 Consensus size: 207
42039967 CGCTAACTAC
* * * * * ** * * *
42039977 TTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAGCTTGAGCTCGCACTA
1 TTTGGAGGATGCAGT-TTGAACCTGCGAACCTTAAGATTACAGCT-GGAGCTTAAGCTCACGCTA
* * * * * * * * *
42040042 ACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTT-AAGATTACA-ATTGAGAGCTTGAGCT
64 ACTATTTTGGAGGCTGCGATATTGAACCTACGAGCCTTGAA-ATTACAGCTAG-GAGCTTGAGCT
*** * * *
42040105 CTTGTTAACTA-TTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAGCT
127 CTCACTAACTATTTTTG-A-GATGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTGGGAGCT
* * *
42040169 TGAGCTCTCACTAACTAT
190 TGAGCTCTCGCTAATTGT
* * * * * *
42040187 TTTGTAGGATGCAGTTTGAATCTGCGAGCCTTAAGATTATAGCTGGAGCTTAAGCTCTCGTTAAC
1 TTTGGAGGATGCAGTTTGAACCTGCGAACCTTAAGATTACAGCTGGAGCTTAAGCTCACGCTAAC
* * *
42040252 TATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTCA
66 TATTTTGGAGGCTGCGATATTGAACCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTCA
* *
42040317 CTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAGTTGGGAGCTTGAG
131 CTAACTATTTTTGA-GATGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTGGGAGCTTGAG
*
42040381 CTCTTGCTAATTGT
194 CTCTCGCTAATTGT
* * * * *
42040395 TTTGGAGGTTGTAGTATTGAACCTTG-GAACCTTAAGATTACAGTTGGGAGCTTGAGTTCACGCT
1 TTTGGAGGATGCAGT-TTGAACC-TGCGAACCTTAAGATTACAGCT-GGAGCTTAAGCTCACGCT
* * * *
42040459 AACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTT-AAGATTATAGCTAGGAGCTTGAGC
63 AACTATTTTGGAGGCTGCGATATTGAACCTACGA-GCCTTGAA-ATTACAGCTAGGAGCTTGAGC
* * * * *
42040521 TCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAGCT
126 TCTCACTAACTATTTTTGAGAT-GCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTGGGAGCT
*
42040586 TGAGCTCTCGTTAATTGT
190 TGAGCTCTCGCTAATTGT
42040604 TTTGAGAGG
1 TTTG-GAGG
42040613 CATCATATAA
Statistics
Matches: 355, Mismatches: 59, Indels: 24
0.81 0.13 0.05
Matches are distributed among these distances:
208 141 0.40
209 178 0.50
210 36 0.10
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (207 bp):
TTTGGAGGATGCAGTTTGAACCTGCGAACCTTAAGATTACAGCTGGAGCTTAAGCTCACGCTAAC
TATTTTGGAGGCTGCGATATTGAACCTACGAGCCTTGAAATTACAGCTAGGAGCTTGAGCTCTCA
CTAACTATTTTTGAGATGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTGGGAGCTTGAGCT
CTCGCTAATTGT
Found at i:42040551 original size:139 final size:137
Alignment explanation
Indices: 42039962--42040594 Score: 599
Period size: 139 Copynumber: 4.5 Consensus size: 137
42039952 TGGGAACATG
* * * * * **
42039962 GCTCACGCTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCAGTATTGAACCTG-GAACCTTAAGATTACAGCTAGGAG
* * * * * * * * * **
42040027 CTTGAGCTCGCACTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACAATT
65 CTTGAGCTCTCACTAACTATTTTGGAGGCTGCGATTTTGAACCTGC-AGCCTTAAGATTATAGCT
42040092 GAGAGCTTGA
129 G-GAGCTTGA
* * * * * * *
42040102 GCTCTTGTTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCAGTATTGAACCTGGAA-CCTTAAGATTACAGCTAGGAG
* * * *
42040167 CTTGAGCTCTCACTAACTATTTTGTAGGATGC-AGTTTGAATCTGCGAGCCTTAAGATTATAGCT
65 CTTGAGCTCTCACTAACTATTTTGGAGGCTGCGATTTTGAACCTGC-AGCCTTAAGATTATAGCT
*
42040231 GGAGCTTAA
129 GGAGCTTGA
* * * * *
42040240 GCTCTCGTTAACTATTTTGGAGGTTG-TGATATTGAATCTACGAGCCTTGAA-ATTACAGCTAGG
1 GCTCTCGCTAACTATTTTGGAGGTTGCAG-TATTGAACCT-GGAACCTT-AAGATTACAGCTAGG
* * * * * *
42040303 AGCTTGAGCTCTCACTAACTATTTTTGACGCTGCGGTATTGAACCTTGGAGCCTTAAGATTACAG
63 AGCTTGAGCTCTCACTAACTATTTTGGAGGCTGCGATTTTGAACC-TGCAGCCTTAAGATTATAG
*
42040368 TTGGGAGCTTGA
127 CT-GGAGCTTGA
* * * * * *
42040380 GCTCTTGCTAATTGTTTTGGAGGTTGTAGTATTGAACCTTGGAACCTTAAGATTACAGTTGGGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCAGTATTGAACC-TGGAACCTTAAGATTACAGCTAGGAG
* * * *
42040445 CTTGAGTTCACGCTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGCATGCCTTAAGATTATAGCT
65 CTTGAGCTCTCACTAACTATTTTGGAGGCTGCGATTTTGAACCTGCA-GCCTTAAGATTATAGCT
42040509 AGGAGCTTGA
129 -GGAGCTTGA
* * * * *
42040519 GCTCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCAGTATTGAACCTG-GAACCTTAAGATTACAGCTAGGAG
42040584 CTTGAGCTCTC
65 CTTGAGCTCTC
42040595 GTTAATTGTT
Statistics
Matches: 395, Mismatches: 86, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
137 1 0.00
138 88 0.22
139 155 0.39
140 149 0.38
141 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (137 bp):
GCTCTCGCTAACTATTTTGGAGGTTGCAGTATTGAACCTGGAACCTTAAGATTACAGCTAGGAGC
TTGAGCTCTCACTAACTATTTTGGAGGCTGCGATTTTGAACCTGCAGCCTTAAGATTATAGCTGG
AGCTTGA
Found at i:42040607 original size:70 final size:70
Alignment explanation
Indices: 42039962--42040595 Score: 636
Period size: 70 Copynumber: 9.1 Consensus size: 70
42039952 TGGGAACATG
* * * * **
42039962 GCTCACGCTAACTACTTTGGAGGTTGCGGTATTGAACCTGTGAGCCTTAAGATTACAACTAAAAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAG
42040027 CTTGA
66 CTTGA
* * * * * * * *
42040032 GCTCGCACTAACTATTTTTGAGGTTGTGGTATTGAACTTGCGAGTCTTAAGATTACA-ATTGAGA
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAG-GA
42040096 GCTTGA
65 GCTTGA
* * * * * * * *
42040102 GCTCTTGTTAACTATTTTGTAGGATGCAGTATTGAACCTGCAAGCCTTAAGATTATAGCTGGGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAG
42040167 CTTGA
66 CTTGA
* * * * * *
42040172 GCTCTCACTAACTATTTTGTAGGATGCAGT-TTGAATCTGCGAGCCTTAAGATTATAGCT-GGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAG
*
42040235 CTTAA
66 CTTGA
* * * * *
42040240 GCTCTCGTTAACTATTTTGGAGGTTGTGATATTGAATCTACGAGCCTTGAA-ATTACAGCTAGGA
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTT-AAGATTACAGCTAGGA
42040304 GCTTGA
65 GCTTGA
* * * * * *
42040310 GCTCTCACTAACTATTTTTGACGCTGCGGTATTGAACCTTG-GAGCCTTAAGATTACAGTTGGGA
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGA
42040374 GCTTGA
65 GCTTGA
* * * ** * * *
42040380 GCTCTTGCTAATTGTTTTGGAGGTTGTAGTATTGAACCTTG-GAACCTTAAGATTACAGTTGGGA
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACC-TGCGAGCCTTAAGATTACAGCTAGGA
42040444 GCTTGA
65 GCTTGA
* * * * * * *
42040450 GTTCACGCTAACT-TTTTGGAGGCTGCGATTTTGAGCCTGC-ATGCCTTAAGATTATAGCTAGGA
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGA-GCCTTAAGATTACAGCTAGGA
42040513 GCTTGA
65 GCTTGA
* * * *
42040519 GCTCTCACTAACTATTTTGGAGGTCGCGGTATTGAATCTGTGAGCCTTAAGATTACAGCTAGGAG
1 GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAG
42040584 CTTGA
66 CTTGA
42040589 GCTCTCG
1 GCTCTCG
42040596 TTAATTGTTT
Statistics
Matches: 463, Mismatches: 90, Indels: 22
0.81 0.16 0.04
Matches are distributed among these distances:
68 34 0.07
69 105 0.23
70 320 0.69
71 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (70 bp):
GCTCTCGCTAACTATTTTGGAGGTTGCGGTATTGAACCTGCGAGCCTTAAGATTACAGCTAGGAG
CTTGA
Found at i:42042218 original size:46 final size:46
Alignment explanation
Indices: 42042151--42042326 Score: 142
Period size: 46 Copynumber: 3.8 Consensus size: 46
42042141 TATTTGGGTA
* * *
42042151 TCCGAGCTCATTGAGTCGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
42042197 TCCGAGCTCGTTGAGTTGAGTCCGAGCTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
42042244 TCCGAGCTCGTTGAGTTGCGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
42042290 CCCAAGCTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
42042327 GCAGGTTACA
Statistics
Matches: 100, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.57
47 27 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42042269 original size:20 final size:20
Alignment explanation
Indices: 42042196--42042269 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
42042186 GGATGCAAAT
*
42042196 GTCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCGTTGAGTTGC
*
42042216 GTCCGAGCTCGTGAGATGTAACTAGGC
1 GTCCGAGCTCGT-TGA-GT---T--GC
*
42042243 ATCCGAGCTCGTTGAGTTGC
1 GTCCGAGCTCGTTGAGTTGC
42042263 GTCCGAG
1 GTCCGAG
42042270 TTCACTTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
20 20 0.48
21 2 0.05
22 3 0.07
25 3 0.07
26 2 0.05
27 12 0.29
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.26
Consensus pattern (20 bp):
GTCCGAGCTCGTTGAGTTGC
Found at i:42043107 original size:21 final size:22
Alignment explanation
Indices: 42043081--42043122 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
42043071 TGACCTTTCC
*
42043081 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
42043102 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
42043123 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:42043108 original size:11 final size:10
Alignment explanation
Indices: 42043081--42043122 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
42043071 TGACCTTTCC
42043081 AAGGTATGGG
1 AAGGTATGGG
*
42043091 TAGGTATGGG
1 AAGGTATGGG
42043101 AAAGGTATGGG
1 -AAGGTATGGG
42043112 CAAGGTATGGG
1 -AAGGTATGGG
42043123 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:42047188 original size:18 final size:18
Alignment explanation
Indices: 42047165--42047239 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
42047155 CAATCCCAAC
*
42047165 TACTGTATACGTAAACAG
1 TACTGTATACGTAAATAG
42047183 TACTGTATACGTAAATAG
1 TACTGTATACGTAAATAG
* * *
42047201 TGCCGTATACGTGAATAG
1 TACTGTATACGTAAATAG
* *
42047219 TGCTGTATACGTGAATAG
1 TACTGTATACGTAAATAG
42047237 TAC
1 TAC
42047240 CGTAAACGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (18 bp):
TACTGTATACGTAAATAG
Found at i:42047801 original size:11 final size:11
Alignment explanation
Indices: 42047774--42047815 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
42047764 TGACCTTTCC
42047774 AAGGTATGGG-
1 AAGGTATGGGA
*
42047784 TAGGTATGGGA
1 AAGGTATGGGA
42047795 AAGGTATGGGCA
1 AAGGTATGGG-A
42047807 AA-GTATGGG
1 AAGGTATGGG
42047816 GTATATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.45, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:42050882 original size:14 final size:14
Alignment explanation
Indices: 42050863--42050889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42050853 TCAGAGAAGT
42050863 AGAATTTGGTATTA
1 AGAATTTGGTATTA
42050877 AGAATTTGGTATT
1 AGAATTTGGTATT
42050890 GAGCTGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
AGAATTTGGTATTA
Found at i:42054231 original size:46 final size:46
Alignment explanation
Indices: 42054179--42054354 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
42054169 TATTTGGGCA
* *
42054179 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
42054225 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
42054272 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
42054318 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42054355 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42054334 original size:93 final size:93
Alignment explanation
Indices: 42054175--42054347 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
42054165 AGGATATTTG
* * * *
42054175 GGCATCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
42054240 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
42054268 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
42054333 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
42054348 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTCGAGTCCAAGTTCACTTATGGATGCAAACGCCCAAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42062016 original size:3 final size:3
Alignment explanation
Indices: 42062010--42062050 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
42062000 ATCCAAAAAA
*
42062010 AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
42062051 CTTATAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:42067804 original size:33 final size:33
Alignment explanation
Indices: 42067759--42067852 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
42067749 AACACAGTGT
* *
42067759 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
42067792 CAGTACAGTCTGGGCCTTAGCCC--TT-A--AA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
42067820 CAGTAGCAGTATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAGTCTGGGCCTAAGCCCT-ATTCAGT
42067853 CTCGACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 16 0.33
30 1 0.02
31 2 0.04
32 2 0.04
33 21 0.43
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
Found at i:42067852 original size:29 final size:28
Alignment explanation
Indices: 42067790--42067844 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
42067780 CCTATTCAGT
* *
42067790 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
42067818 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
42067845 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:42067900 original size:31 final size:31
Alignment explanation
Indices: 42067858--42067940 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
42067848 TCAGTCTCGA
42067858 CATA-TACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
42067888 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCATAAAT
*
42067919 CATATCACT-GGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
42067941 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCATAAAT
Found at i:42068188 original size:25 final size:24
Alignment explanation
Indices: 42068147--42068229 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
42068137 CTGGAGGCCT
*
42068147 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
42068171 AGCCCATTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* *
42068196 AGCCCTTTTTGGTAAACTGGGGCAT
1 AGCCC-TTTTGATAAACTGGGGCAA
42068221 AGCCCTTTT
1 AGCCCTTTT
42068230 AGCATTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 38 0.72
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:42069097 original size:27 final size:27
Alignment explanation
Indices: 42069035--42069122 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
42069025 GGGCATATTC
*
42069035 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACA
* *
42069062 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
42069089 GTCTTTTTACC-TATTAGGGGTATTTTA
1 GTCATTTTACCATA-CAGGGGTATTACA
42069116 GTCATTT
1 GTCATTT
42069123 CATCCTACAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.06
27 45 0.92
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:42069183 original size:27 final size:27
Alignment explanation
Indices: 42069130--42069373 Score: 179
Period size: 27 Copynumber: 9.0 Consensus size: 27
42069120 TTTCATCCTA
* * * **
42069130 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
**
42069157 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
42069184 CAATGGTATTTCT-ATAATTTT-TAGAAAGT
1 CAAGGGTATTT-TGGTAATTTTGT--AAA-C
* * *
42069213 TAAGGGTATTTTTGTAATTTTGTAAAA
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* ** *
42069240 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * ***
42069267 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* **
42069293 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
*
42069321 TAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
42069348 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTGGTAATTTTGTAAA
42069374 TCGAGGATAA
Statistics
Matches: 174, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 145 0.83
28 9 0.05
29 16 0.09
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:42069392 original size:27 final size:27
Alignment explanation
Indices: 42069361--42069517 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
42069351 GGGTATTTTA
* *
42069361 GTAATTTTGTAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
42069388 ATAATTCTTTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
42069415 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42069442 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42069469 ATAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
42069496 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
42069518 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:42069525 original size:81 final size:81
Alignment explanation
Indices: 42069333--42069542 Score: 267
Period size: 81 Copynumber: 2.6 Consensus size: 81
42069323 AGGGTATTTT
* * * * * * *
42069333 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGATAAAACGATAATTCTTT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGT
* *
42069398 AAATCGAGGGTAAAAT
66 AAATCAAGGGTAAAAC
* * ** *
42069414 GGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACGATAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGT
42069479 AAATCAAGGGTAAAAC
66 AAATCAAGGGTAAAAC
* * *
42069495 GGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGA
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGA
42069543 CATTTTAGTA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGATAAAACGATAATTCTGT
AAATCAAGGGTAAAAC
Found at i:42088453 original size:54 final size:56
Alignment explanation
Indices: 42088266--42088669 Score: 300
Period size: 55 Copynumber: 7.6 Consensus size: 56
42088256 AACTTACCAT
* * * * *
42088266 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-G-AACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
* * *
42088319 TTCCATGCCTTGGCATGGTCTTAAATGAGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
* * * * *
42088374 TGCCATGTCTTTGACATGGTCTTACATGATTTCCTTT-CCTTATAG-AACTTATTAA
1 TGCCATG-CCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
* *
42088429 TGCCATGCGTTGGCATGGTTTTACATGATATCCTTAT--C---T--T-AC-CA--AA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT-TGCCTTATAGTAACTCATCAA
*** * * *
42088475 TGCCATGTTCC-AAACATGCTCTTACAT-AGTATCC-TTGTCTTAT-G-AACTCACCAA
1 TGCCATG--CCTTGGCATGGTCTTACATGA-TATCCTTTGCCTTATAGTAACTCATCAA
**
42088529 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
* * * * * * *
42088584 TGTCATGTCTTGACATGGTCTTACATGATTTCC-TTACCTTGTAG-AACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
**
42088638 TGCTGTGCCTTGGCATGGTCTTACATGATATC
1 TGCCATGCCTTGGCATGGTCTTACATGATATC
42088670 ATTATCTTAG
Statistics
Matches: 275, Mismatches: 50, Indels: 51
0.73 0.13 0.14
Matches are distributed among these distances:
45 1 0.00
46 11 0.04
47 17 0.06
48 2 0.01
49 2 0.01
50 1 0.00
51 3 0.01
52 8 0.03
53 53 0.19
54 71 0.26
55 73 0.27
56 28 0.10
57 5 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (56 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTTGCCTTATAGTAACTCATCAA
Found at i:42088664 original size:209 final size:210
Alignment explanation
Indices: 42088278--42088678 Score: 651
Period size: 210 Copynumber: 1.9 Consensus size: 210
42088268 CCATGTCTTG
* * * *
42088278 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATTCCATGCCTTGGCATGGTCTTAA
1 ACATGCTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
42088343 ATGAGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
66 ATGAGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
* * * * *
42088408 TTTCCTTATAGAACTTATTAATGCCATGCGTTGGCATGGTTTTACATGATATCCTTATCTTACCA
131 TTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCATTATCTTACCA
42088473 AATGCCATGTTCCAA
196 AATGCCATGTTCCAA
* *
42088488 ACATGCTCTTACATAGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGCTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
* *
42088553 ATGGGACCTTTGCCTTATAGTAACTCATCAATGTCATGTC-TTGACATGGTCTTACATGATTTCC
66 ATGAGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
* **
42088617 TTACCTTGTAGAACTTATCAATGCTGTGCCTTGGCATGGTCTTACATGATATCATTATCTTA
131 TTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCATTATCTTA
42088679 GTGCTAATGC
Statistics
Matches: 175, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
209 78 0.45
210 97 0.55
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (210 bp):
ACATGCTCTTACATAGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAA
ATGAGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTTGACATGGTCTTACATGATTTCC
TTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCATTATCTTACCA
AATGCCATGTTCCAA
Found at i:42093865 original size:25 final size:26
Alignment explanation
Indices: 42093791--42093865 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 26
42093781 AAACTGTGAT
*
42093791 CACGTGTGTAGTACTAAGTGCAGGCCA
1 CACGTGTGCAGTACTAAGTGCAGG-CA
* *
42093818 CTACGTGTAGCAG-A-T-GGT-TAGGC-
1 C-ACGTGT-GCAGTACTAAGTGCAGGCA
42093841 CACGTGTGCAGTACTAAGTGCAGGC
1 CACGTGTGCAGTACTAAGTGCAGGC
42093866 TATTACGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
21 4 0.11
22 7 0.19
23 2 0.05
24 3 0.08
25 7 0.19
26 2 0.05
27 2 0.05
28 7 0.19
29 3 0.08
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (26 bp):
CACGTGTGCAGTACTAAGTGCAGGCA
Found at i:42093913 original size:49 final size:49
Alignment explanation
Indices: 42093744--42093968 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
42093734 TGAGGTCGTA
* * * * *
42093744 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * ** *
42093795 TGTGTAGTACTAAGTGCAGGCCACTACGTGTAGCAGATGGTTAGGCCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
* *
42093845 TGTGCAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
42093894 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
42093943 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
42093969 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 77 0.51
50 41 0.27
51 32 0.21
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:42093922 original size:99 final size:101
Alignment explanation
Indices: 42093744--42093976 Score: 283
Period size: 99 Copynumber: 2.3 Consensus size: 101
42093734 TGAGGTCGTA
* *
42093744 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
42093809 TGCAGGCCACTACGTGTAGCAGATGGTTAGGCCACG
66 TGCAGGCCACTACGTGTAGCAGATGGTTAGGCCACG
* * * * *
42093845 TGTGCAGTACTAAGTGCAGGCTATTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
* * * ** * * *
42093908 TGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
66 TGCAGGCCACTACGTGTAGCAGATGGTTAGGCCACG
* * *
42093943 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACC
42093977 AGATAGCTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
98 33 0.29
99 44 0.39
100 1 0.01
101 34 0.30
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (101 bp):
TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCCACTACGTGTAGCAGATGGTTAGGCCACG
Found at i:42105948 original size:46 final size:48
Alignment explanation
Indices: 42105897--42106119 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 48
42105887 ATGGTTGAGC
42105897 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * *
42105944 -TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
42105989 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * * *
42106037 -TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
42106082 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
42106120 TGCAAATTAT
Statistics
Matches: 140, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.03
43 10 0.07
45 6 0.04
46 54 0.39
47 54 0.39
48 5 0.04
50 5 0.04
51 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:42106010 original size:47 final size:47
Alignment explanation
Indices: 42105946--42106112 Score: 200
Period size: 47 Copynumber: 3.6 Consensus size: 47
42105936 TGCGAATGTC
*
42105946 CGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
* * * *
42105993 CGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGT
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GCAT-T
* *
42106038 CTGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATC
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
42106086 CGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
42106113 ACTTATGTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 28 0.28
47 54 0.55
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
Found at i:42106064 original size:93 final size:93
Alignment explanation
Indices: 42105895--42106119 Score: 416
Period size: 93 Copynumber: 2.4 Consensus size: 93
42105885 GGATGGTTGA
42105895 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
42105960 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTTCGAGTTCGTGAGATGTAACTAG
* *
42105988 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
42106053 TGAG-TCTGAGTTCGTGAGATGTAACTAG
66 TGAGTTC-GAGTTCGTGAGATGTAACTAG
42106081 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
42106120 TGCAAATTAT
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 2 0.02
93 126 0.98
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAGATGTAACTAG
Found at i:42110098 original size:16 final size:17
Alignment explanation
Indices: 42110065--42110098 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
42110055 GTATAAGGAA
*
42110065 ATTTTGTGTAATTTGGG
1 ATTTTGTGTAATTAGGG
42110082 ATTTTGT-TAATTAGGG
1 ATTTTGTGTAATTAGGG
42110098 A
1 A
42110099 CTAAAATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
ATTTTGTGTAATTAGGG
Found at i:42110611 original size:43 final size:44
Alignment explanation
Indices: 42110460--42110632 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 44
42110450 ACATAGGATT
* *
42110460 TCGATATGTGA-TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGACTTACGTGTAAGACCACGTCTGGGACAG-TGGCA
* * * * **
42110503 TCGAT-TTGAGATTTACGTGTAAGACCATGTTTGGGACA-TCGAAA
1 TCGATATT-TGACTTACGTGTAAGACCACGTCTGGGACAGT-GGCA
*
42110547 TCG-TATTTGACTT-CGTGTAAGACC-CTGTTTGGGACAGTGGCA
1 TCGATATTTGACTTACGTGTAAGACCAC-GTCTGGGACAGTGGCA
* *
42110589 TCGATATTTGA-TTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGACTTACGTGTAAGACCACGTCTGGGACAGTGGCA
42110632 T
1 T
42110633 TTTACAAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 29 0.28
43 46 0.44
44 30 0.29
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
TCGATATTTGACTTACGTGTAAGACCACGTCTGGGACAGTGGCA
Found at i:42123748 original size:43 final size:43
Alignment explanation
Indices: 42123687--42123896 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
42123677 ACATATCATT
* *
42123687 TCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
42123730 TCACCGGCACGAAGCCTGCTAGGTACGAAGGCCCAAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
42123773 TCACCGGCACTAAG-CTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* **
42123815 TCATCGGCACTAAGCCTGCTAGGCACGAAGGCCTAAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
42123858 TCACCGGCACTAGGCCTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
42123897 ATACCAGCAC
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
42 39 0.26
43 113 0.74
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:42123831 original size:85 final size:86
Alignment explanation
Indices: 42123687--42123896 Score: 350
Period size: 85 Copynumber: 2.5 Consensus size: 86
42123677 ACATATCATT
*
42123687 TCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
42123752 GTACGAAGGCCCAAATACACA
66 GCACGAAGGCCCAAATACACA
* * *
42123773 TCACCGGCACTAAG-CTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACTAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
42123837 GCACGAAGGCCTAAATACACA
66 GCACGAAGGCCCAAATACACA
*
42123858 TCACCGGCACTAGGCCTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCATGAAGGCCCGAATA
42123897 ATACCAGCAC
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 79 0.69
86 36 0.31
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.13
Consensus pattern (86 bp):
TCACCGGCACTAAGCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCACGAAGGCCCAAATACACA
Found at i:42130473 original size:142 final size:142
Alignment explanation
Indices: 42130211--42130475 Score: 331
Period size: 142 Copynumber: 1.9 Consensus size: 142
42130201 ATGTGTCTGC
* **
42130211 TAGTGTAAGACCTGTCTGGGACATAGCGTCGGAACCGATAGATGAGAACCAGTGTAAGACCTGTC
1 TAGTGTAAGACCTGTCTGGGACATAGCATCGGAACAAATAGATGAGAACCAGTGTAAGACCTGTC
* * * *
42130276 TGGGGCACGACATTGACCTCAAGATGTGCAAGCTAGTGTAAGACCTATCTTGGACATGGCATCGG
66 TGGGACACGACATCGACCTCAAGATGTGCAAGCTAATGTAAGACCTATCTAGGACATGGCATCGG
42130341 CTTGAGGTGTGT
131 CTTGAGGTGTGT
* *
42130353 TAGTGTAAGACCTGTCTGGGACATGGCATC-GACACAAATA-AGTGAGAGCCAGTGTAAGACCTG
1 TAGTGTAAGACCTGTCTGGGACATAGCATCGGA-ACAAATAGA-TGAGAACCAGTGTAAGACCTG
* * * * * *
42130416 TCTGGGACATGGCATCGACCTTGATG-TGTGGAAG-TCAATGTAAGACCTGTCTAGGACATG
64 TCTGGGACACGACATCGACC-TCAAGATGTGCAAGCT-AATGTAAGACCTATCTAGGACATG
42130476 ACATTGACTG
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
141 4 0.04
142 97 0.93
143 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (142 bp):
TAGTGTAAGACCTGTCTGGGACATAGCATCGGAACAAATAGATGAGAACCAGTGTAAGACCTGTC
TGGGACACGACATCGACCTCAAGATGTGCAAGCTAATGTAAGACCTATCTAGGACATGGCATCGG
CTTGAGGTGTGT
Found at i:42132275 original size:6 final size:6
Alignment explanation
Indices: 42132264--42132351 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
42132254 TATCAAAACT
* *
42132264 AGAATC AGAATC AGAATC AGAATT A-AGTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
42132313 AGTATC AGGTAA-C AGAATC AAAATC AAAATC AGTATC AG
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AG
42132352 GTAACAGAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 4 0.06
6 56 0.84
7 4 0.06
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:42132300 original size:31 final size:31
Alignment explanation
Indices: 42132264--42132361 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
42132254 TATCAAAACT
* *
42132264 AGAATCAGAATCAGAATCAGAATTAAGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
* *
42132295 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
* * * *
42132326 AGAATCAAAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
42132357 AGAAT
1 AGAAT
42132362 AAAAAATCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAAC
Found at i:42132366 original size:25 final size:26
Alignment explanation
Indices: 42132309--42132371 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 26
42132299 TCAGAATCAG
42132309 AATCAGTATCAGGTAACAGAATCAAAATCAA
1 AATCAGTATCAGGTAACAGAAT---AA--AA
42132340 AATCAGTATCAGGTAACAGAATAAAA
1 AATCAGTATCAGGTAACAGAATAAAA
42132366 AATCAG
1 AATCAG
42132372 AATGTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.25
28 2 0.06
31 22 0.69
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (26 bp):
AATCAGTATCAGGTAACAGAATAAAA
Found at i:42132812 original size:27 final size:27
Alignment explanation
Indices: 42132782--42133058 Score: 360
Period size: 27 Copynumber: 10.3 Consensus size: 27
42132772 GGGGCAAAAT
* * *
42132782 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42132809 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
42132836 AGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42132863 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42132890 GGTAATTTTACCCTA-TAGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
42132917 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42132944 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42132971 AGTAATTCTACCCTAC-AGGTGTATCTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
42132998 AGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42133025 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42133052 GGTAATT
1 GGTAATT
42133059 TCACAAATCA
Statistics
Matches: 220, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.02
27 211 0.96
28 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:42133074 original size:27 final size:27
Alignment explanation
Indices: 42133040--42133275 Score: 121
Period size: 27 Copynumber: 8.7 Consensus size: 27
42133030 TTCTACCCTA
* *
42133040 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
42133067 CAATGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * *** *
42133094 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * ***
42133121 CGAGGGTATTTTGGTGATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
** *
42133148 CAAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
** ** * **
42133175 TGAGGGTATTTCAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * * * * *
42133202 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * * **
42133229 CGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
42133256 CGAGGGAATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
42133276 GGTAAACTAA
Statistics
Matches: 167, Mismatches: 42, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTCACAAAC
Found at i:42133101 original size:54 final size:54
Alignment explanation
Indices: 42133043--42133253 Score: 201
Period size: 54 Copynumber: 3.9 Consensus size: 54
42133033 TACCCTACAA
* * *
42133043 GGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
* *** * ** *
42133097 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTGATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
* ** **
42133151 GGGTATTTCAGTAATTTTACAAA-CTGAGGGTATTTCAGTAATTTTACAAGTC-G
1 GGGTATTTCGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAACCAG
* * * * *
42133204 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAA
1 -GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAA
42133254 GTCGAGGGAA
Statistics
Matches: 122, Mismatches: 32, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:42133127 original size:81 final size:80
Alignment explanation
Indices: 42133042--42133275 Score: 236
Period size: 81 Copynumber: 2.9 Consensus size: 80
42133032 CTACCCTACA
* * * *
42133042 AGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGA-GGGTATTTTG
**
42133107 GTAATTTTA-TTGATCG
65 GTAATTTTACAAG-TCG
* * * * ** **
42133123 AGGGTATTTTGGTGATTTTGTAAACCAAGGGTATTTCAGTAATTTTACAAACTGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAAC-GAGGGTATTTTG
42133188 GTAATTTTACAAGTCG
65 GTAATTTTACAAGTCG
* * ** * * *
42133204 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGAATTTTG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAA-ACGAGGGTATTTTG
42133269 GTAATTT
65 GTAATTT
42133276 GGTAAACTAA
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
81 119 0.98
82 3 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGTATTTTGG
TAATTTTACAAGTCG
Found at i:42135264 original size:31 final size:32
Alignment explanation
Indices: 42135226--42135328 Score: 131
Period size: 31 Copynumber: 3.3 Consensus size: 32
42135216 TATCAGAACT
* * *
42135226 AGAATCAAAATTAGAATTGA-AATTAGGTGAC
1 AGAATCAAAATTAGAATTCAGAATCAGGTAAC
* *
42135257 AGAATCAAAATCAGAA-TCAGTATCAGGTAAC
1 AGAATCAAAATTAGAATTCAGAATCAGGTAAC
*
42135288 AGAATCAAAATTAGAA-TCAGTATCAGGTAAC
1 AGAATCAAAATTAGAATTCAGAATCAGGTAAC
42135319 AGAATCAAAA
1 AGAATCAAAA
42135329 ATCAGAATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.03
31 63 0.97
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (32 bp):
AGAATCAAAATTAGAATTCAGAATCAGGTAAC
Found at i:42135773 original size:27 final size:27
Alignment explanation
Indices: 42135743--42135965 Score: 302
Period size: 27 Copynumber: 8.3 Consensus size: 27
42135733 GGGGCAAAAT
* * * *
42135743 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42135770 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42135797 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42135824 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42135851 GGTATTTCTACCCTATAGGGGTATGTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
42135878 AATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42135905 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42135932 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
42135959 GGTAATT
1 GGTAATT
42135966 TTGTAAACCA
Statistics
Matches: 170, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42135981 original size:54 final size:54
Alignment explanation
Indices: 42135758--42136100 Score: 208
Period size: 54 Copynumber: 6.4 Consensus size: 54
42135748 TTTTACCCCA
* * * **
42135758 CAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTT-TACCC
1 CAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTCTAAAC
* * *
42135810 TACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT-A-TTTCT-ACC
1 --CAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTCTAAAC
* * * * *
42135863 CTATAGGGGTATGTCAATAATTCTACCATACAGGGGTATTTCGGTAA--TTCT-ACC
1 C-A-A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTCTAAAC
* *
42135917 CTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGGTAATTTTGTAAAC
1 C-A-A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTCTAAAC
** * * * *
42135974 CAAGGGTATTTTGGTAATT-T-CAC-AAATCAGGGATATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTCAGTAATTCTACCCTACA--AGGG-TATTTCGGTAATTTTCTAAAC
* ** * * * * *
42136028 CAGGGGTATTTTTGTAATTTTA--TTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTCTACCCT-A-CAAGGGTATTTCGGTAATTTTCTAAAC
*
42136082 CAAGGGTATTTTAGTAATT
1 CAAGGGTATTTCAGTAATT
42136101 TTGCAAACTG
Statistics
Matches: 246, Mismatches: 27, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
51 3 0.01
52 3 0.01
53 11 0.04
54 214 0.87
55 7 0.03
56 5 0.02
57 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTCTAAAC
Found at i:42135981 original size:81 final size:80
Alignment explanation
Indices: 42135743--42135992 Score: 272
Period size: 81 Copynumber: 3.1 Consensus size: 80
42135733 GGGGCAAAAT
* * * *
42135743 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTTTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTTA
**
42135807 CCCTACAAGGGTATTTC
66 AAC--CAAGGGTATTTC
* * * ** *
42135824 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAGGGGTATGTCAATAA-TTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTTA
*
42135888 CCATA-CAGGGGTATTTC
66 --A-ACCAAGGGTATTTC
* * *
42135905 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGGTAATTTTGT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTT-T
*
42135970 AAACCAAGGGTATTTT
65 AAACCAAGGGTATTTC
42135986 GGTAATT
1 GGTAATT
42135993 TCACAAATCA
Statistics
Matches: 138, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
80 1 0.01
81 132 0.96
82 3 0.02
83 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTTA
AACCAAGGGTATTTC
Found at i:42136196 original size:27 final size:27
Alignment explanation
Indices: 42135949--42136209 Score: 231
Period size: 27 Copynumber: 9.7 Consensus size: 27
42135939 CTACCCTACA
** * *
42135949 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
*
42135976 AGGGTATTTTGGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
42136002 AGGGATATTTTGGTAATTTTATAAA-CC
1 AGGG-TATTTTGGTAATTTTACAAATCG
* ***
42136029 AGGGGTATTTTTGTAATTTTATTGATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
** * *
42136057 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
42136084 AGGGTATTTTAGTAATTTTGCAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAATC-G
* *
42136111 AGGGTATTTCGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
42136138 AGGATATTTGGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
42136165 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**
42136192 AGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTT
42136210 GGTAAACTAA
Statistics
Matches: 191, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 6 0.03
27 179 0.94
28 6 0.03
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:42140793 original size:10 final size:10
Alignment explanation
Indices: 42140776--42140807 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
42140766 TTATAGGATT
42140776 TTAT-TTTAA
1 TTATCTTTAA
42140785 TTATCTTTAA
1 TTATCTTTAA
42140795 TTATCTTTAA
1 TTATCTTTAA
42140805 TTA
1 TTA
42140808 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:42143317 original size:46 final size:48
Alignment explanation
Indices: 42143213--42143332 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
42143203 TGTCTTCGAC
** * *
42143213 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
42143261 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
42143307 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
42143333 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:42150824 original size:15 final size:15
Alignment explanation
Indices: 42150804--42150833 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42150794 CATTTTATTT
*
42150804 ATATTAGGATAATTA
1 ATATTAAGATAATTA
42150819 ATATTAAGATAATTA
1 ATATTAAGATAATTA
42150834 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:42152142 original size:30 final size:30
Alignment explanation
Indices: 42152049--42152135 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
42152039 AGACAAGGGT
* * *
42152049 GTGTCTCATGGCCGTGTATGTCACACGGGC
1 GTGTCTCTTGGCTGTGTGTGTCACACGGGC
* *
42152079 ATGTCTCTTGGCTGTGTGCGTCACACGGGC
1 GTGTCTCTTGGCTGTGTGTGTCACACGGGC
42152109 GTGTCTCTTGGCTGTGTGTGTCACACG
1 GTGTCTCTTGGCTGTGTGTGTCACACG
42152136 ACCGTGTGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.31
Consensus pattern (30 bp):
GTGTCTCTTGGCTGTGTGTGTCACACGGGC
Found at i:42152150 original size:32 final size:30
Alignment explanation
Indices: 42152080--42152142 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
42152070 CACACGGGCA
**
42152080 TGTCTCTTGGCTGTGTGCGTCACACGGGCG
1 TGTCTCTTGGCTGTGTGCGTCACACGACCG
*
42152110 TGTCTCTTGGCTGTGTGTGTCACACGACCG
1 TGTCTCTTGGCTGTGTGCGTCACACGACCG
42152140 TGT
1 TGT
42152143 GACTCTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.08, C:0.25, G:0.33, T:0.33
Consensus pattern (30 bp):
TGTCTCTTGGCTGTGTGCGTCACACGACCG
Found at i:42154892 original size:176 final size:177
Alignment explanation
Indices: 42154587--42154937 Score: 641
Period size: 176 Copynumber: 2.0 Consensus size: 177
42154577 AACATAGACT
*
42154587 AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATTTCAACAATAA
1 AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATATCAACAATAA
*
42154652 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGTGATTTACTA
66 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGGGATTTACTA
42154717 GGGGTTAATCGTGGAGGTAGGCTTTTCATGGAATGAGTGGGTTAAGC
131 GGGGTTAATCGTGGAGGTAGGCTTTTCATGGAATGAGTGGGTTAAGC
* *
42154764 AACTATTTCAATTCAAATCTTGACAAAAATTGGGATCAAATTAATTTAGGGGATATCAACAAT-A
1 AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATATCAACAATAA
*
42154828 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGGGGTTTACTA
66 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGGGATTTACTA
*
42154893 GGGGTTAATCGTGGAGGTAGGCTTTTCATGGCATGAGTGGGTTAA
131 GGGGTTAATCGTGGAGGTAGGCTTTTCATGGAATGAGTGGGTTAA
42154938 TCTTAAGTTC
Statistics
Matches: 168, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
176 108 0.64
177 60 0.36
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (177 bp):
AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATATCAACAATAA
TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGGGATTTACTA
GGGGTTAATCGTGGAGGTAGGCTTTTCATGGAATGAGTGGGTTAAGC
Found at i:42162440 original size:9 final size:10
Alignment explanation
Indices: 42162415--42162441 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42162405 TAAGTATGGG
42162415 GTAAAAATAT
1 GTAAAAATAT
42162425 GTAAAAATAT
1 GTAAAAATAT
42162435 GTAAAAA
1 GTAAAAA
42162442 AAAATTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (10 bp):
GTAAAAATAT
Found at i:42179962 original size:43 final size:42
Alignment explanation
Indices: 42179909--42180018 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 42
42179899 CCGATATTTC
* * *
42179909 GCCTGTTAGGCTTGAAGACCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCCTGAAG-CCGATATCATCTCACCGGCATTATA
** *
42179952 GCCTGCTAGGCCCCAAGCCTGATATTATCTCACCGGCATTATA
1 GCCTGCTAGGCCTGAAGCC-GATATCATCTCACCGGCATTATA
42179995 GCCTGCTAGGCCTGAAGCCCGATA
1 GCCTGCTAGGCCTGAAG-CCGATA
42180019 ATATTATTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 53 0.93
44 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (42 bp):
GCCTGCTAGGCCTGAAGCCGATATCATCTCACCGGCATTATA
Found at i:42181955 original size:14 final size:15
Alignment explanation
Indices: 42181926--42181955 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42181916 CAAAATTTAG
42181926 ACATGATACTTTCAC
1 ACATGATACTTTCAC
42181941 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
42181955 A
1 A
42181956 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:42182920 original size:53 final size:54
Alignment explanation
Indices: 42182855--42183055 Score: 181
Period size: 53 Copynumber: 3.7 Consensus size: 54
42182845 CTTTTTAAAA
* *
42182855 TTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTAT-GAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
* * ** * * * * **
42182908 TCACCATTGCCATGCCTTGGGATGGTCTTACACGGGATCTTTGCCTTATAGTAGT
1 TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAG-AAC
* * * * * * *
42182963 TTATCAATGCCATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTGTAAAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
* *
42183017 TTTCCAATGCCATGCCTTGGCATGGTCTTACT-TGGTATC
1 TTACCAATGCCATGCCTTGACATGGTCTTA-TATGGTATC
42183056 GTTAAACCCT
Statistics
Matches: 112, Mismatches: 33, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 41 0.37
54 33 0.29
55 38 0.34
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
Found at i:42187891 original size:41 final size:44
Alignment explanation
Indices: 42187791--42187939 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 44
42187781 CAATGCTAAC
* * *
42187791 GTCCCAGACGTGGTCTTACATGC-T-ACCTCA-TATCGATGCCACT
1 GTCCCAGACATGGTCTTACA--CATAACCACACTATCGATGCCAAT
* * * *
42187834 ATCCCAGACAGGGTCTTACACA-AATCTA-A-TA-CGATTCCAAT
1 GTCCCAGACATGGTCTTACACATAA-CCACACTATCGATGCCAAT
*
42187875 GTCCCAGACATAGTCTTACACATAACCACATCTATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACATAACCACA-CTATCGATGCCAAT
42187920 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
42187940 TGAAAACATA
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
41 30 0.35
42 7 0.08
43 18 0.21
44 2 0.02
45 28 0.33
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACATAACCACACTATCGATGCCAAT
Found at i:42189099 original size:14 final size:15
Alignment explanation
Indices: 42189082--42189110 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42189072 TCACAAAAAT
42189082 TTCACACAT-ATAAA
1 TTCACACATAATAAA
42189096 TTCACACATAATAAA
1 TTCACACATAATAAA
42189111 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:42190736 original size:20 final size:21
Alignment explanation
Indices: 42190711--42190755 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
42190701 AATAAAAAAT
42190711 AAAAAGAAAAGAAAATC-GAG
1 AAAAAGAAAAGAAAATCTGAG
*
42190731 AAAAAGAAAGGAAAATCTGAG
1 AAAAAGAAAAGAAAATCTGAG
42190752 AAAA
1 AAAA
42190756 GTGAGGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.69, C:0.04, G:0.20, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAGAAAATCTGAG
Found at i:42190917 original size:14 final size:14
Alignment explanation
Indices: 42190898--42190928 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42190888 AGAATGTCTT
*
42190898 TTTGAAACTAATGA
1 TTTGAAACTAACGA
42190912 TTTGAAACTAACGA
1 TTTGAAACTAACGA
42190926 TTT
1 TTT
42190929 CGACCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (14 bp):
TTTGAAACTAACGA
Found at i:42194251 original size:42 final size:43
Alignment explanation
Indices: 42194143--42194300 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
42194133 AGCTCGTACA
* * ***
42194143 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* * * *
42194186 ATGCCACTGTCCCAAACAGGGTCTTACACAAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* *
42194228 ATGTCAATGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AAATC-AAATATCG
* ** * *
42194272 ATTCCAACATCCCAAACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
42194301 GATAACACAT
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 26 0.29
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATATCG
Found at i:42195796 original size:19 final size:19
Alignment explanation
Indices: 42195757--42195793 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42195747 TAATACAACC
*
42195757 ATTTAATTTGTCTTGAGTT
1 ATTTAATCTGTCTTGAGTT
42195776 ATTTAATCTGTCTT-AGTT
1 ATTTAATCTGTCTTGAGTT
42195794 TATACAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAATCTGTCTTGAGTT
Found at i:42196999 original size:16 final size:17
Alignment explanation
Indices: 42196967--42196999 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42196957 AATATCATAG
*
42196967 ATTAAATTGTGATGTTA
1 ATTAAATTGTAATGTTA
42196984 ATTAAATTG-AATGTTA
1 ATTAAATTGTAATGTTA
42197000 TAGTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTAAATTGTAATGTTA
Found at i:42212728 original size:15 final size:17
Alignment explanation
Indices: 42212698--42212729 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
42212688 TTGATACTTG
42212698 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
42212715 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
42212730 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:42222402 original size:18 final size:19
Alignment explanation
Indices: 42222375--42222413 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
42222365 AATAAATCCT
*
42222375 AACTACAAAAGAAAACTAA
1 AACTACAAAACAAAACTAA
42222394 AACTA-AAAACAAAACTAA
1 AACTACAAAACAAAACTAA
42222412 AA
1 AA
42222414 GGAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.72, C:0.15, G:0.03, T:0.10
Consensus pattern (19 bp):
AACTACAAAACAAAACTAA
Found at i:42222419 original size:18 final size:18
Alignment explanation
Indices: 42222381--42222419 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42222371 TCCTAACTAC
* *
42222381 AAAAGAAAACTAAAACTA
1 AAAACAAAACTAAAACGA
*
42222399 AAAACAAAACTAAAAGGA
1 AAAACAAAACTAAAACGA
42222417 AAA
1 AAA
42222420 TTCTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.10, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAACAAAACTAAAACGA
Found at i:42225027 original size:78 final size:79
Alignment explanation
Indices: 42224919--42225087 Score: 234
Period size: 78 Copynumber: 2.1 Consensus size: 79
42224909 TCCTCGTTCA
* * * *
42224919 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA
42224984 TTAGTAACTCGCAC
66 TTAGTAACTCGCAC
* *
42224998 AATGCC-TCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACATAACCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
42225061 ATTAGTATCTCGCAC
65 ATTAGTAACTCGCAC
*
42225076 AAAGGCCTTCGG
1 -AATGCCTTCGG
42225088 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
77 1 0.01
78 63 0.80
79 11 0.14
80 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA
TTAGTAACTCGCAC
Found at i:42225100 original size:40 final size:40
Alignment explanation
Indices: 42224917--42225087 Score: 240
Period size: 40 Copynumber: 4.3 Consensus size: 40
42224907 GCTCCTCGTT
* * *
42224917 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
* *
42224957 CAAATGCCTTCGGGTCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
42224997 C-AATGCC-TCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
42225035 CAAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
42225075 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
42225088 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
38 29 0.24
39 12 0.10
40 78 0.64
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:42225137 original size:118 final size:118
Alignment explanation
Indices: 42224917--42225138 Score: 268
Period size: 118 Copynumber: 1.9 Consensus size: 118
42224907 GCTCCTCGTT
* * * *
42224917 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCGG
* * * *
42224982 ATTTAGTAACTCGCACAATGCCTCGGGACTTAACCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAAGCCTCCGGACTTAACCCGGAATTAGTATCTCGCA
* * **
42225035 CAAATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAAGGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAACCCGGATA-TAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCG
* * * *
42225099 GATATGGTCACTTAGCACAAAGCTTCCGGAC-TAGCCCGGA
65 GATATAGTAAC-TAGCACAAAGCCTCCGGACTTAACCCGGA
42225139 CATCATTCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
117 1 0.01
118 70 0.81
119 15 0.17
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAAGGCCTTCGGATCTTAACCCGG
ATATAGTAACTAGCACAAAGCCTCCGGACTTAACCCGGAATTAGTATCTCGCA
Found at i:42225199 original size:33 final size:35
Alignment explanation
Indices: 42225130--42225199 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
42225120 GCTTCCGGAC
42225130 TAGCCCGGACATCATTCAAATAACCAGTGCACATT
1 TAGCCCGGACATCATTCAAATAACCAGTGCACATT
42225165 TAGCCCGGACATCATTC-AATAACCA-TGCACATT
1 TAGCCCGGACATCATTCAAATAACCAGTGCACATT
42225198 TA
1 TA
42225200 ACAATAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 10 0.29
34 8 0.23
35 17 0.49
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (35 bp):
TAGCCCGGACATCATTCAAATAACCAGTGCACATT
Found at i:42225509 original size:175 final size:175
Alignment explanation
Indices: 42225218--42225568 Score: 666
Period size: 175 Copynumber: 2.0 Consensus size: 175
42225208 TCATGGCACA
* *
42225218 TTCGTATTTCATTTTCGTTAGCAAAACTCAATCACAAGACACTTATCATTCTTGCAATTTCGGCT
1 TTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGACACTTATCATTCTTGCAATTTCAGCT
42225283 CAATAGCCACACACAAAGAGCATGATTTTGATTTGCTTAAAACATGATCTAATCTAATATTAATT
66 CAATAGCCACACACAAAGAGCATGATTTTGATTTGCTTAAAACATGATCTAATCTAATATTAATT
*
42225348 TAAGCTCTTTTACTCAAGAACTTACCTCGGATGTTGTCGAACGAT
131 TAAGCTCTTTTACTCAAGAACTTACCTCAGATGTTGTCGAACGAT
42225393 TTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGACACTTATCATTCTTGCAATTTCAGCT
1 TTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGACACTTATCATTCTTGCAATTTCAGCT
*
42225458 CAATAGCCACACACAAAGAGCATGATTTTGATTTGCTTAAAACATGATCTAATCTAATCTTAATT
66 CAATAGCCACACACAAAGAGCATGATTTTGATTTGCTTAAAACATGATCTAATCTAATATTAATT
42225523 TAAGCTCTTTTACTCAAGAACTTACCTCAGATGTTGTCGAACGAT
131 TAAGCTCTTTTACTCAAGAACTTACCTCAGATGTTGTCGAACGAT
42225568 T
1 T
42225569 CCGATGGCTA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 172 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (175 bp):
TTCGTATTTCATTTTCGTTAGCAAAACTCAAACACAAGACACTTATCATTCTTGCAATTTCAGCT
CAATAGCCACACACAAAGAGCATGATTTTGATTTGCTTAAAACATGATCTAATCTAATATTAATT
TAAGCTCTTTTACTCAAGAACTTACCTCAGATGTTGTCGAACGAT
Found at i:42373029 original size:39 final size:39
Alignment explanation
Indices: 42372977--42373146 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
42372967 GGACTAAGAT
*
42372977 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAA-ATCCGGGTTAAGTC
*
42373016 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
42373056 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * *
42373096 CCGAAGGCA-TTGTGTGAGTTACTAAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
42373134 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42373147 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
38 19 0.17
39 49 0.43
40 47 0.41
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:42373060 original size:79 final size:78
Alignment explanation
Indices: 42372924--42373146 Score: 220
Period size: 79 Copynumber: 2.8 Consensus size: 78
42372914 ATGAATGCTG
* * * * * *
42372924 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTA-AACCGGGCTAAG-TCCCGAAGGCAT
*
42372987 TTGTGCGAGATA-CAAGT
62 TTGTGCGAGATATCAA-A
* * *
42373004 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA-CCGGGCTAAGTCCCGAAGGCATTT
* *
42373068 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * *
42373083 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAACCGGGCTAAGTCCCGAAGGCATTTG
42373147 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
78 24 0.20
79 66 0.55
80 30 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:42373135 original size:38 final size:39
Alignment explanation
Indices: 42372924--42373144 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
42372914 ATGAATGCTG
* * * * * *
42372924 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
42372964 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* *
42373004 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
42373043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
42373083 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
42373122 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42373145 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
38 21 0.14
39 48 0.31
40 78 0.51
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42373164 original size:78 final size:80
Alignment explanation
Indices: 42373004--42373180 Score: 200
Period size: 78 Copynumber: 2.2 Consensus size: 80
42372994 AGATACAAGT
* *
42373004 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
** * *
42373068 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
42373083 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
42373146 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
* *
42373161 TCCGGTTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42373181 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.01
78 47 0.57
79 27 0.33
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42381064 original size:39 final size:39
Alignment explanation
Indices: 42380860--42381082 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
42380850 TTGAATGCTG
* * * * * *
42380860 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
42380900 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
42380940 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
42380980 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
42381020 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
42381059 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42381083 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42381102 original size:79 final size:80
Alignment explanation
Indices: 42380940--42381117 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
42380930 AGATACAAGT
* * * *
42380940 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
42381005 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
42381020 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42381084 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
42381099 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42381118 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42385700 original size:21 final size:20
Alignment explanation
Indices: 42385666--42385704 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42385656 GAGTATTTTG
*
42385666 ATGTTTAATTATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
42385687 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
42385705 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:42388028 original size:42 final size:43
Alignment explanation
Indices: 42387981--42388135 Score: 142
Period size: 42 Copynumber: 3.7 Consensus size: 43
42387971 TGTGATTTCC
42387981 TGTAAGACCACGTCTAGGACGTTGGCATC-AATTTGATTTATG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGAATTTGATTTATG
* * * * **
42388023 TGTAAGACTATGTCTGGGACATTGGCATCGTTTTTGATTT-TG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGAATTTGATTTATG
* **
42388065 TGTAAGATCC-TGTCT-GCGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGA-CCACGTCTAG-GAC-GTTGGCATCGA-ATTTGATTTATG
*
42388108 TGTAAGACCACATCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
42388136 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 55 0.61
43 33 0.37
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGAATTTGATTTATG
Found at i:42399249 original size:25 final size:25
Alignment explanation
Indices: 42399221--42399268 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
42399211 ACGAGTAGTA
42399221 AATCGATAAGCTC-TCACAAGCTGAG
1 AATCGATAAGCTCAT-ACAAGCTGAG
*
42399246 AATCGGTAAGCTCATACAAGCTG
1 AATCGATAAGCTCATACAAGCTG
42399269 TGGTGTGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (25 bp):
AATCGATAAGCTCATACAAGCTGAG
Found at i:42404525 original size:48 final size:48
Alignment explanation
Indices: 42404454--42404674 Score: 250
Period size: 48 Copynumber: 4.6 Consensus size: 48
42404444 TATGTGTGCC
*
42404454 AGTGTAAGACCATGTCTAGGACATGGCATTAGCCACATTATAAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATAAGAGCT
* * *
42404502 AGTGTAAGACCATGTCT-GAGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAG-GACATGGCATCAGCCACATTATAAGAGCT
* ***** ** *
42404550 AGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGCTATGTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATAAGAGCT
* * *
42404598 AGTGTAAGACCGTGTCT-GGACATGACATCAGCGACATTATAAGAGCCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATAAGAG-CT
*
42404646 -GTGTAAGACCACGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
42404675 GGCCTCGACA
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
47 34 0.24
48 109 0.76
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATAAGAGCT
Found at i:42404615 original size:96 final size:95
Alignment explanation
Indices: 42404451--42404678 Score: 294
Period size: 96 Copynumber: 2.4 Consensus size: 95
42404441 TGATATGTGT
** *
42404451 GCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCCACATTATAAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACACTATAAGAGCTAGTGTAAGACCATG
* * *
42404516 TCTGAGACATGGCATCGGCCACATTATGAGA
66 TCTG-GACATGACATCAGCCACATTATAAGA
**** ** * *
42404547 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGCTATGTGTGCTAGTGTAAGACCGTG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACACTATAAGAGCTAGTGTAAGACCATG
*
42404612 TCTGGACATGACATCAGCGACATTATAAGA
66 TCTGGACATGACATCAGCCACATTATAAGA
* *
42404642 GCCTGTGTAAGACCACGTCTAGGACATGGCATCGGCC
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCC
42404679 TCGACAAGTG
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
95 56 0.49
96 58 0.51
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACACTATAAGAGCTAGTGTAAGACCATG
TCTGGACATGACATCAGCCACATTATAAGA
Done.