Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008705.1 Hibiscus syriacus cultivar Beakdansim tig00111745_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1220187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:236721 original size:39 final size:38
Alignment explanation
Indices: 236644--236733 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
236634 GAAACCAAAA
* *
236644 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
236682 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATT
236721 TCGCGTTGCGATT
1 TCGCGTTGCGATT
236734 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
Found at i:236753 original size:33 final size:33
Alignment explanation
Indices: 236716--236800 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
236706 GTTGCGATTT
* *
236716 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
236749 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
236782 TCATTTCCGCGTTGCGATT
1 TCATTT-CGCGTTGCGATT
236801 TTCATTTCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 36 0.75
34 12 0.25
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:238869 original size:42 final size:42
Alignment explanation
Indices: 238809--238931 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
238799 GCCCGACTCG
* * *
238809 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
238851 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
238893 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
238932 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:238889 original size:21 final size:21
Alignment explanation
Indices: 238865--238931 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
238855 TCATTCCTCG
238865 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
238886 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
238907 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
238928 AGAG
1 AGAG
238932 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:240321 original size:13 final size:14
Alignment explanation
Indices: 240290--240324 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
240280 ATTGTTTAAT
240290 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
240304 TGATTTGTAAAA-G
1 TGATTTGTAAAAGG
240317 TGATTTGT
1 TGATTTGT
240325 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:240505 original size:19 final size:19
Alignment explanation
Indices: 240483--240579 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
240473 CGAAATTAAA
*
240483 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
240502 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
* *
240518 CTCG--TTGTGATTTTCAT
1 TTCGCATTGCGATTTTCAT
240535 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
240551 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
240568 TTCGCATTGCGA
1 TTCGCATTGCGA
240580 AGTAATTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
14 11 0.19
16 13 0.22
17 13 0.22
19 22 0.37
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:240530 original size:33 final size:33
Alignment explanation
Indices: 240487--240579 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
240477 ATTAAATTCG
240487 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
240520 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
240553 CGTTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCGA
240580 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:242890 original size:12 final size:12
Alignment explanation
Indices: 242873--242897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
242863 TCTTCGGGGA
242873 CTTTTTCTTCTT
1 CTTTTTCTTCTT
242885 CTTTTTCTTCTT
1 CTTTTTCTTCTT
242897 C
1 C
242898 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:243139 original size:24 final size:24
Alignment explanation
Indices: 243088--243139 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
243078 ATTCGTGTAT
* * *
243088 TGACCAATATCAAAGTCCGGATAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
243112 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
243136 TGAC
1 TGAC
243140 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:244388 original size:14 final size:14
Alignment explanation
Indices: 244369--244405 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
244359 CATCAATTAA
244369 ACAAATCAACATTT
1 ACAAATCAACATTT
*
244383 ACAAATCAACTTTT
1 ACAAATCAACATTT
244397 ACAAATCAA
1 ACAAATCAA
244406 TTAAACAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:246307 original size:20 final size:19
Alignment explanation
Indices: 246272--246338 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
246262 GAAACTTAAA
246272 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
246291 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
246311 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
246330 ATCGCAACG
1 ATCGCAACG
246339 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:246346 original size:14 final size:14
Alignment explanation
Indices: 246327--246384 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
246317 ATGCGAAATG
246327 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
246341 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
246357 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
246373 AAAATCACAACG
1 AAAATCGCAACG
246385 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:246369 original size:32 final size:33
Alignment explanation
Indices: 246311--246389 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
246301 GGAAATGGCT
*
246311 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
246344 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
246376 ATCACAACGCGAAA
1 ATCGCAACGCGAAA
246390 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:246418 original size:19 final size:17
Alignment explanation
Indices: 246396--246491 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
246386 GAAACACAAA
246396 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
246415 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
246431 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
246447 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
246463 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
246480 TCGCATTGCGAT
1 TCGC-TTGCGAT
246492 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:246437 original size:14 final size:14
Alignment explanation
Indices: 246418--246475 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
246408 TTTCATTTCG
246418 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
246432 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
246448 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
246464 CGTTGCGATTTT
1 CGTTGCGATTTT
246476 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:246482 original size:33 final size:33
Alignment explanation
Indices: 246401--246491 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
246391 ACAAATCGCA
246401 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
246434 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
246466 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
246492 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:246510 original size:20 final size:19
Alignment explanation
Indices: 246476--246529 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
246466 TTGCGATTTT
*
246476 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
246495 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
246515 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
246530 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:246528 original size:19 final size:19
Alignment explanation
Indices: 246464--246529 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
246454 GCGATTTTGT
**
246464 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
246483 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
246503 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
246522 TGTTGCGA
1 CGTTGCGA
246530 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:247028 original size:18 final size:18
Alignment explanation
Indices: 247002--247046 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
246992 GTCGATCAGA
*
247002 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
247020 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
247038 TGATGGCTC
1 TGATGGCTC
247047 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:248408 original size:20 final size:20
Alignment explanation
Indices: 248365--248402 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
248355 AATAGTTTCT
248365 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
248385 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
248403 GAGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:248677 original size:22 final size:22
Alignment explanation
Indices: 248652--248695 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
248642 GATTTAGATA
248652 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
248674 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
248696 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:248976 original size:20 final size:20
Alignment explanation
Indices: 248882--248976 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
248872 GATTATGTAT
*
248882 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
248902 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
248922 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-TAGTCAG
*
248943 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
248963 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
248977 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 48 0.79
21 13 0.21
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:248994 original size:21 final size:21
Alignment explanation
Indices: 248965--249040 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
248955 ATAGTCAGTA
248965 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
248986 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
249006 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
249027 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
249041 ACTTATTCGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:248995 original size:41 final size:41
Alignment explanation
Indices: 248904--249038 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
248894 AAAGTCAGTA
* * * ** *
248904 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
248944 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
248986 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
249027 TCGCGTTGCGAT
1 TCGCGTTGCGAT
249039 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:249009 original size:20 final size:20
Alignment explanation
Indices: 248984--249050 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
248974 GATTTTCCCA
248984 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
* * **
249004 ATTCGCATTGCGAATTTCCCA
1 ATTCGCGTTGCG-ATTTACTT
249025 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
249045 ATTCGC
1 ATTCGC
249051 ACTGCGAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACTT
Found at i:249039 original size:41 final size:41
Alignment explanation
Indices: 248965--249060 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
248955 ATAGTCAGTA
*
248965 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
249006 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
*
249047 TCGCACTGCGAATT
1 TCGCATTGCGAATT
249061 GGGAAAATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:249056 original size:20 final size:20
Alignment explanation
Indices: 248965--249057 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
248955 ATAGTCAGTA
* **
248965 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
248986 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
249006 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
249027 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
*
249047 TCGCACTGCGA
1 TCGCATTGCGA
249058 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.54
21 26 0.46
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:260091 original size:20 final size:20
Alignment explanation
Indices: 260055--260092 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
260045 ATTCTATTCT
*
260055 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTCATTCCCA
260075 CTGGTAAT-TTTACATTCC
1 CTGGTAATCTTT-CATTCC
260093 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:260158 original size:17 final size:18
Alignment explanation
Indices: 260136--260175 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
260126 TAATAAAAAT
260136 AAATAAATAAA-ATATAA
1 AAATAAATAAATATATAA
*
260153 AAATAATTAAATTATATAA
1 AAATAAATAAA-TATATAA
260172 AAAT
1 AAAT
260176 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAATAAATATATAA
Found at i:260171 original size:19 final size:19
Alignment explanation
Indices: 260124--260175 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
260114 GGATAACATC
260124 ATTA-ATAAAAATAAATAA
1 ATTATATAAAAATAAATAA
* *
260142 ATAAAATATAAAAATAATTAA
1 AT--TATATAAAAATAAATAA
260163 ATTATATAAAAAT
1 ATTATATAAAAAT
260176 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 1 0.04
21 15 0.54
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTATATAAAAATAAATAA
Found at i:266722 original size:42 final size:42
Alignment explanation
Indices: 266669--266785 Score: 189
Period size: 42 Copynumber: 2.8 Consensus size: 42
266659 TTTCCGAAAT
* * *
266669 CCGTGTTTGTTTCATGTAATTCATTTTTCGGAAAATGTTTTC
1 CCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTTTC
* *
266711 CCGTATTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTC
1 CCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTTTC
266753 CCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
1 CCGTGTTTGTTTCACGTAATTCATTTTCCGGAA
266786 CGCAATTCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (42 bp):
CCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATATTTTC
Found at i:267015 original size:23 final size:23
Alignment explanation
Indices: 266972--267073 Score: 77
Period size: 23 Copynumber: 4.3 Consensus size: 23
266962 TAATTATTAA
* *
266972 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
266993 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
*
267016 ATATTTTTAGTTTAATAATATAATCAATT
1 A-ATATTTA---TAATAATATAAT--ATT
*
267045 -ATA-TTATAATAATATAAGATAT
1 AATATTTATAATAATATAATAT-T
267067 AATATTT
1 AATATTT
267074 TTTATTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
21 13 0.20
22 5 0.08
23 19 0.29
24 8 0.12
26 3 0.05
27 14 0.22
29 3 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:267085 original size:30 final size:30
Alignment explanation
Indices: 267043--267149 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
267033 ATATAATCAA
*
267043 TTATATTATAATAATATA-AGATATAATATTT
1 TTATATTTTAATAATATATA-ATA-AATATTT
*
267074 TT-TATTTTAATAATATATAATAAATTTTT
1 TTATATTTTAATAATATATAATAAATATTT
*
267103 TTATATATTTAATAATGA-ATAAT-ATTATTT
1 TTATAT-TTTAATAAT-ATATAATAAATATTT
* *
267133 ATATATTTAAATAATAT
1 TTATATTTTAATAATAT
267150 TTTAGTAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
28 1 0.02
29 16 0.25
30 30 0.46
31 17 0.26
32 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATATTTTAATAATATATAATAAATATTT
Found at i:267115 original size:28 final size:28
Alignment explanation
Indices: 267065--267147 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 28
267055 AATATAAGAT
267065 ATAATATT-TTT-TAT-TTTAATAAT-A
1 ATAATATTATTTATATATTTAATAATGA
*
267089 TATAATAAATTTTTTTATATATTTAATAATGA
1 -ATAAT--A-TTATTTATATATTTAATAATGA
267121 ATAATATTATTTATATATTTAAATAAT
1 ATAATATTATTTATATATTT-AATAAT
267148 ATTTTAGTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
25 5 0.10
27 1 0.02
28 15 0.31
29 10 0.20
30 3 0.06
31 14 0.29
32 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
ATAATATTATTTATATATTTAATAATGA
Found at i:267523 original size:14 final size:15
Alignment explanation
Indices: 267502--267572 Score: 74
Period size: 15 Copynumber: 4.8 Consensus size: 15
267492 TTCCAAAAAT
267502 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
267517 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
267531 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
* *
267546 ATAATTCAAATTT-CA
1 GTAATTC-ATTTTCCA
*
267561 GTAATTTATTTT
1 GTAATTCATTTT
267573 TCGAAAAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
14 16 0.36
15 25 0.56
16 4 0.09
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:267528 original size:20 final size:20
Alignment explanation
Indices: 267470--267519 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
267460 TTTCCAGATG
267470 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
267490 TTTTCCAAAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
267510 TTTTCCAGAA
1 TTTTCCAGAA
267520 TTCAAATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:267535 original size:29 final size:30
Alignment explanation
Indices: 267502--267572 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
267492 TTCCAAAAAT
267502 GTAATTCATTTTCC-AGAATTCAAATTCCA
1 GTAATTCATTTTCCAAGAATTCAAATTCCA
* *
267531 GTAATTCATTTTCCAATAATTCAAATTTCA
1 GTAATTCATTTTCCAAGAATTCAAATTCCA
*
267561 GTAATTTATTTT
1 GTAATTCATTTT
267573 TCGAAAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 14 0.37
30 24 0.63
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (30 bp):
GTAATTCATTTTCCAAGAATTCAAATTCCA
Found at i:267751 original size:18 final size:17
Alignment explanation
Indices: 267728--267766 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
267718 TATAATATTT
267728 TTAAAAATTTAAAATATA
1 TTAAAAATTT-AAATATA
267746 TT-AAAATTTAAATATA
1 TTAAAAATTTAAATATA
*
267762 ATAAA
1 TTAAA
267767 TAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 8 0.42
17 9 0.47
18 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATTTAAATATA
Found at i:267760 original size:16 final size:17
Alignment explanation
Indices: 267731--267766 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
267721 AATATTTTTA
*
267731 AAAATTTAAAATATATT
1 AAAATTTAAAATATAAT
267748 AAAATTT-AAATATAAT
1 AAAATTTAAAATATAAT
267764 AAA
1 AAA
267767 TAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTTAAAATATAAT
Found at i:267774 original size:33 final size:34
Alignment explanation
Indices: 267737--267818 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 34
267727 TTTAAAAATT
*
267737 TAAAATATATTAAAAT-TTAAATA-TAATAAATAA
1 TAAAATATATTAAAATATTAAAAATTAATAAA-AA
* * *
267770 TAAAATA-ATTATAATATTAAAAATTACTAGAAA
1 TAAAATATATTAAAATATTAAAAATTAATAAAAA
267803 TAAAATATTATTAAAA
1 TAAAATA-TATTAAAA
267819 CGAAATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
32 7 0.17
33 22 0.55
34 5 0.12
35 6 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (34 bp):
TAAAATATATTAAAATATTAAAAATTAATAAAAA
Found at i:267793 original size:26 final size:23
Alignment explanation
Indices: 267732--267793 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
267722 ATATTTTTAA
*
267732 AAAT-TTAAAATATATTAAAATTT
1 AAATATTAAAA-ATAATAAAATTT
267755 AAATA-TAATAAATAATAAAATAATT
1 AAATATTAA-AAATAATAAAAT--TT
267780 ATAATATTAAAAAT
1 A-AATATTAAAAAT
267794 TACTAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
23 16 0.50
24 2 0.06
25 3 0.09
26 8 0.25
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATTAAAAATAATAAAATTT
Found at i:272694 original size:13 final size:13
Alignment explanation
Indices: 272667--272701 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
272657 GTGATCACTG
272667 TTAAAAA-ATTAT
1 TTAAAAATATTAT
*
272679 TTAAAAATATTTT
1 TTAAAAATATTAT
272692 TTAAAAATAT
1 TTAAAAATAT
272702 ATACGTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAAAATATTAT
Found at i:272751 original size:69 final size:70
Alignment explanation
Indices: 272668--272799 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 70
272658 TGATCACTGT
* *
272668 TAAAAAATTATTTAAAAATATTTTTTAAAAATATATACGTGATACGTGCCACTTAAC-GGTTTAA
1 TAAAAAATTATTTAAAAATATTTTTAAAAAACATATACGTGATACGTGCCACTTAACAGGTTTAA
272732 AAAAA
66 AAAAA
* *
272737 TAAAATATTATTTAAAAATATTTTTAAAAAACATATACGTGATACGTGTCACTTAACAGGTTT
1 TAAAAAATTATTTAAAAATATTTTTAAAAAACATATACGTGATACGTGCCACTTAACAGGTTT
272800 TTTTTACGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 53 0.91
70 5 0.09
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (70 bp):
TAAAAAATTATTTAAAAATATTTTTAAAAAACATATACGTGATACGTGCCACTTAACAGGTTTAA
AAAAA
Found at i:272767 original size:13 final size:13
Alignment explanation
Indices: 272738--272766 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
272728 TTAAAAAAAT
272738 AAAATATTATTTA
1 AAAATATTATTTA
272751 AAAATATT-TTTA
1 AAAATATTATTTA
272763 AAAA
1 AAAA
272767 ACATATACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:274282 original size:26 final size:26
Alignment explanation
Indices: 274206--274285 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
274196 TTAATAATTT
* * *
274206 TCAAATAAATTTTGATTCAATTAACGG
1 TCAAAT-AATTTCGATTCGATTAATGG
*
274233 TCAAATAATTTCGATTTGATTAATGG
1 TCAAATAATTTCGATTCGATTAATGG
*
274259 TCAAATAATTTCGGTTCGATTAATGG
1 TCAAATAATTTCGATTCGATTAATGG
274285 T
1 T
274286 TAAAGAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 41 0.87
27 6 0.13
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (26 bp):
TCAAATAATTTCGATTCGATTAATGG
Found at i:274399 original size:66 final size:68
Alignment explanation
Indices: 274259--274419 Score: 220
Period size: 66 Copynumber: 2.4 Consensus size: 68
274249 TGATTAATGG
* ** *
274259 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAA
274323 TTT
66 TTT
* * *
274326 TCAAATAAATTTCGGTTCGATTAACGGTT-AAGGAAAAAAT-AATTTATTTTATTCGGTTAATAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAA
274389 TTT
66 TTT
* *
274392 TCAAATAAATTTTGATTCGATTAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
274420 CAAATAATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 47 0.56
67 16 0.19
68 21 0.25
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (68 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAA
TTT
Found at i:274443 original size:160 final size:166
Alignment explanation
Indices: 274233--274632 Score: 589
Period size: 160 Copynumber: 2.4 Consensus size: 166
274223 CAATTAACGG
* *
274233 TCAAAT-AATTTCGATTTGATTAATGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAA
1 TCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAA
* * *
274297 ATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTT-AAGGAA
66 ATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAAGAAA
274361 AA-AA-TAAT-TTATT-TT-ATTCGGTTAATAATTT
131 AATAATTAATCTTATTGTTAATTCGGTTAATAATTT
* ** *
274392 TCAAATAAATTTTGATTCGATTAACGGTCAAATAATTTCAATTCAATTAATGGTTAAAGAAAAAA
1 TCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAA
* *
274457 ATCGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCAATTAACGGTTAAAGAAA
66 ATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAAGAAA
*
274522 AATAATTTATCTTATTCGGTTAATTCGGTTAATAATTT
131 AATAATTAATCTTATT--GTTAATTCGGTTAATAATTT
* * *
274560 TAAAATAAATTTGGATTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAA
1 TCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAA
274625 ATTCGGTT
66 A-TCGGTT
274633 AATAATTTTA
Statistics
Matches: 212, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
159 6 0.03
160 106 0.50
161 7 0.03
162 2 0.01
163 3 0.01
164 5 0.02
167 2 0.01
168 76 0.36
169 5 0.02
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (166 bp):
TCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAA
ATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAAGAAA
AATAATTAATCTTATTGTTAATTCGGTTAATAATTT
Found at i:274620 original size:168 final size:160
Alignment explanation
Indices: 274235--274839 Score: 570
Period size: 160 Copynumber: 3.9 Consensus size: 160
274225 ATTAACGGTC
* *
274235 AAAT-AATTTCGATTTGATTAATGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
1 AAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
* * * *
274299 CGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAGGAAAAA
66 CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAGAAAAAA
*
274364 ATAATTTATTTTATTCGGTTAATAATTTTC
131 ATAATTTATTTTATTCGGTTAATAATTTTA
* ** *
274394 AAATAAATTTTGATTCGATTAACGGTCAAATAATTTCAATTCAATTAATGGTTAAAGAAAAAAAT
1 AAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
*
274459 CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTTAGTTCAATTAACGGTTAAAGAAAAA
66 CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTT-AAGAAAAA
*
274524 TAATTTATCTTATTCGGTTAATTCGGTTAATAATTTTA
130 -AA-TAAT-TTATT---TT-ATTCGGTTAATAATTTTA
* *
274562 AAATAAATTTGGATTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAG--AAAAA-
1 AAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
* ** ** *
274624 --A---A-----TTCGGTTAATAATTTTAAAATAAATTTGGGTTTGATTAACGGTCAA-ACAATT
66 CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAGA-AA--
**** * * * *
274678 TCGGTTCGATTAATTTGT-TTTGGTTAAT-ATTTTC
128 -AAAAT-AATTTATTT-TATTCGGTTAATAATTTTA
* *
274712 AAATAAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTTAAAG--AAAAA-
1 AAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
*
274773 --A---A-----TTCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTTAAAGAAAAA
66 CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTT-AAGAAAAA
274828 AATAATTTATTT
130 AATAATTTATTT
274840 AAACAAATAA
Statistics
Matches: 382, Mismatches: 47, Indels: 47
0.80 0.10 0.10
Matches are distributed among these distances:
146 7 0.02
147 1 0.00
149 53 0.14
150 54 0.14
151 10 0.03
152 1 0.00
153 2 0.01
154 4 0.01
155 43 0.11
156 2 0.01
159 4 0.01
160 107 0.28
161 7 0.02
162 2 0.01
163 4 0.01
164 5 0.01
166 5 0.01
167 2 0.01
168 69 0.18
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (160 bp):
AAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAT
CGATTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCAGTTCAATTAACGGTTAAGAAAAAA
ATAATTTATTTTATTCGGTTAATAATTTTA
Found at i:274678 original size:81 final size:80
Alignment explanation
Indices: 274543--274817 Score: 358
Period size: 81 Copynumber: 3.6 Consensus size: 80
274533 TTATTCGGTT
*
274543 AATTCGGTTAATAATTTTAAAATAAATTT-GGATTCGATTAACGGTCAAATAATTTTGGTTCGAT
1 AATTCGGTTAATAATTTTAAAATAAATTTCGG-TTCGATTAACGGTCAAATAATTTCGGTTCGAT
274607 TAATGGTTAAAGAAAAA
65 TAAT-GTTAAAGAAAAA
* * *
274624 AATTCGGTTAATAATTTTAAAATAAATTTGGGTTTGATTAACGGTCAAACAATTTCGGTTCGATT
1 AATTCGGTTAATAATTTTAAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
274689 AAT-TT---G-----
66 AATGTTAAAGAAAAA
* * * *
274695 -TTTTGGTTAAT-ATTTTCAAATAAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATT
1 AATTCGGTTAATAATTTTAAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
274758 AATGTTAAAGAAAAA
66 AATGTTAAAGAAAAA
* *
274773 AATTCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGT
1 AATTCGGTTAATAATTTTAAAATAAATTTCGGTTCGATTAACGGT
274818 TAAAGAAAAA
Statistics
Matches: 170, Mismatches: 12, Indels: 25
0.82 0.06 0.12
Matches are distributed among these distances:
69 52 0.31
70 11 0.06
73 1 0.01
76 1 0.01
79 11 0.06
80 30 0.18
81 62 0.36
82 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (80 bp):
AATTCGGTTAATAATTTTAAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
AATGTTAAAGAAAAA
Found at i:274741 original size:69 final size:70
Alignment explanation
Indices: 274629--274760 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 70
274619 AAAAAAATTC
*
274629 GGTTAATAATTTTAAAATAAATTTGGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTT
1 GGTTAATAATTTTAAAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTT
274694 GTTTT
66 GTTTT
* *
274699 GGTTAAT-ATTTTCAAATAAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAAT
1 GGTTAATAATTTTAAAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAAT
274761 GTTAAAGAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
69 52 0.88
70 7 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (70 bp):
GGTTAATAATTTTAAAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTT
GTTTT
Found at i:274747 original size:150 final size:150
Alignment explanation
Indices: 274548--274817 Score: 445
Period size: 149 Copynumber: 1.8 Consensus size: 150
274538 CGGTTAATTC
*
274548 GGTTAATAATTTTAAAATAAATTTGGATTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGG
1 GGTTAATAATTTTAAAATAAATTTGGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT-G
** *
274613 TTAAAGAAAAAAATTCGGTTAATAATTTTAAAATAAATTTGGGTTTGATTAACGGTCAAACAATT
65 TTAAAGAAAAAAATTCGGTTAATAATTTTAAAATAAATTTCAGTTCGATTAACGGTCAAACAATT
274678 TCGGTTCGATTAATTTGTTTT
130 TCGGTTCGATTAATTTGTTTT
* *
274699 GGTTAAT-ATTTTCAAATAAATTTCGG-TTTGATTAACGGTCAAATAATTTCGGTTCGATTAATG
1 GGTTAATAATTTTAAAATAAATTT-GGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATG
*
274762 TTAAAGAAAAAAATTCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGT
65 TTAAAGAAAAAAATTCGGTTAATAATTTTAAAATAAATTTCAGTTCGATTAACGGT
274818 TAAAGAAAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
149 53 0.48
150 49 0.44
151 9 0.08
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (150 bp):
GGTTAATAATTTTAAAATAAATTTGGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGT
TAAAGAAAAAAATTCGGTTAATAATTTTAAAATAAATTTCAGTTCGATTAACGGTCAAACAATTT
CGGTTCGATTAATTTGTTTT
Found at i:274786 original size:69 final size:67
Alignment explanation
Indices: 274636--274776 Score: 167
Period size: 69 Copynumber: 2.1 Consensus size: 67
274626 TTCGGTTAAT
* ** *
274636 AATTTTAAAATAAATTTGGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTTGTTTTGG
1 AATTTT-AAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAA-TTGTTAAGA
**
274701 TTAA
64 AAAA
* *
274705 TATTTTCAAATAAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAA-TGTTAAAGA
1 AATTTT-AAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTGTT-AAGA
274769 AAAA
64 AAAA
274773 AATT
1 AATT
274777 CGGTTAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
67 4 0.07
68 6 0.10
69 51 0.84
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (67 bp):
AATTTTAAATAAATTTCGGTTTGATTAACGGTCAAACAATTTCGGTTCGATTAATTGTTAAGAAA
AA
Found at i:275530 original size:3 final size:3
Alignment explanation
Indices: 275502--275568 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
275492 AATATGGAAT
* * *
275502 TCA TCA TTA TCA TTA TCA TTA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
275550 TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA T
275569 TATTATTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:292886 original size:26 final size:25
Alignment explanation
Indices: 292837--292895 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
292827 TATTTAAGGG
*
292837 GGTTTTGTGAGAAATTAGCGATTTT
1 GGTTTTCTGAGAAATTAGCGATTTT
292862 AGGTTTTCTGAGAAATTAG-GAATTTT
1 -GGTTTTCTGAGAAATTAGCG-ATTTT
292888 GGATTTTC
1 GG-TTTTC
292896 AAATAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.44
Consensus pattern (25 bp):
GGTTTTCTGAGAAATTAGCGATTTT
Found at i:295179 original size:2 final size:2
Alignment explanation
Indices: 295172--295213 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
295162 AATTGAAAAC
295172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
295214 CCCGTAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:297528 original size:15 final size:16
Alignment explanation
Indices: 297499--297528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
297489 TAAATTAGTA
297499 AATTTTTTAATGAAAT
1 AATTTTTTAATGAAAT
297515 AATTTTTTAA-GAAA
1 AATTTTTTAATGAAA
297529 CTAGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AATTTTTTAATGAAAT
Found at i:298850 original size:14 final size:14
Alignment explanation
Indices: 298831--298897 Score: 62
Period size: 14 Copynumber: 4.4 Consensus size: 14
298821 CGCTGGGCAT
*
298831 CCGAGGTCATCCGA
1 CCGAGGCCATCCGA
298845 CCGAGGCCATCCGAGAGCA
1 CCGAGGCCATCC----G-A
298864 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
298879 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
298893 ACGAG
1 CCGAG
298898 CTATACGAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 29 0.64
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.27
ACGTcount: A:0.24, C:0.37, G:0.30, T:0.09
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:298870 original size:34 final size:36
Alignment explanation
Indices: 298827--298915 Score: 128
Period size: 34 Copynumber: 2.5 Consensus size: 36
298817 AACACGCTGG
*
298827 GCATCCGAGGTCATCCGACCGAGGCCATCCG-A-GA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
298861 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
* *
298897 GCTATACGAGGGCATCCGA
1 GC-ATCCGAGGCCATCCGA
298916 GGGCAACCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.61
35 1 0.02
36 4 0.08
37 14 0.29
ACGTcount: A:0.25, C:0.35, G:0.29, T:0.11
Consensus pattern (36 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
Found at i:298892 original size:10 final size:10
Alignment explanation
Indices: 298845--298878 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
298835 GGTCATCCGA
298845 CCGAGGCCAT
1 CCGAGGCCAT
298855 CCGAGAG-CAT
1 CCGAG-GCCAT
298865 CCGAGGCCAT
1 CCGAGGCCAT
298875 CCGA
1 CCGA
298879 CCGAGGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:298931 original size:33 final size:33
Alignment explanation
Indices: 298879--298963 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
298869 GGCCATCCGA
* * * *
298879 CCGAGGCCATCCGAACGAGCTATACGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATACGAGGGAAT
*
298912 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATACGAGGGAAT
298945 CCGAGGG-AAGCCGAGCGAG
1 CCGAGGGCAA-CCGAGCGAG
298964 GGTAGGTCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.04
33 44 0.96
ACGTcount: A:0.27, C:0.27, G:0.38, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATACGAGGGAAT
Found at i:299094 original size:29 final size:29
Alignment explanation
Indices: 299052--299108 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
299042 GAGCAAGGGT
299052 AGGTCACCCAGAGTGCATGGCGACCTACA
1 AGGTCACCCAGAGTGCATGGCGACCTACA
* * *
299081 AGGTCGCCCGGAGTGTATGGCGACCTAC
1 AGGTCACCCAGAGTGCATGGCGACCTAC
299109 GGCCAACACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCACCCAGAGTGCATGGCGACCTACA
Found at i:300591 original size:29 final size:29
Alignment explanation
Indices: 300533--300591 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
300523 GAGGGCTGGA
* **
300533 AACCGGTTTGACCGATTTCGACCGGTCCG
1 AACCGGTTTGACCGATCTCGACCGACCCG
*
300562 AACCGGTTTGACCGGTCT-GACCCGACCCG
1 AACCGGTTTGACCGATCTCGA-CCGACCCG
300591 A
1 A
300592 CTGACCCGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (29 bp):
AACCGGTTTGACCGATCTCGACCGACCCG
Found at i:310003 original size:2 final size:2
Alignment explanation
Indices: 309996--310030 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
309986 TACTTTTGAA
309996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
310031 AAGTTTGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:312278 original size:2 final size:2
Alignment explanation
Indices: 312271--312295 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
312261 AAAAATTTAG
312271 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
312296 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:312300 original size:2 final size:2
Alignment explanation
Indices: 312295--312330 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
312285 ACACACACAC
312295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
312331 GGACAAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:319574 original size:15 final size:15
Alignment explanation
Indices: 319554--319583 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
319544 GTTTGGGAAT
319554 AATTAAAATAAATTA
1 AATTAAAATAAATTA
*
319569 AATTAAAATAGATTA
1 AATTAAAATAAATTA
319584 TTATATTCGA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATTAAAATAAATTA
Found at i:325606 original size:26 final size:26
Alignment explanation
Indices: 325575--325626 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
325565 TTTTTCGTCC
*
325575 CCTAAAATTTTACTAGTTGAACCCCT
1 CCTAAAATTTTACAAGTTGAACCCCT
325601 CCTAAAATTTTACAAGTTGAACCCCT
1 CCTAAAATTTTACAAGTTGAACCCCT
325627 AACATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (26 bp):
CCTAAAATTTTACAAGTTGAACCCCT
Found at i:332442 original size:16 final size:17
Alignment explanation
Indices: 332404--332448 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
332394 TGTTTATGAG
*
332404 GGAATTGGAATCTGTGAA
1 GGAATTGGAATATGT-AA
332422 GGAATTGGAATATGT-A
1 GGAATTGGAATATGTAA
332438 GGAATTGGAAT
1 GGAATTGGAAT
332449 CCAATTCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.33, T:0.29
Consensus pattern (17 bp):
GGAATTGGAATATGTAA
Found at i:333307 original size:37 final size:37
Alignment explanation
Indices: 333229--333311 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 37
333219 TTCACACTAA
333229 ACCCGAACCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCG-ACCGACCCGAATATCACACTTAAAAAAACCCG
333267 ACCCGACTCGACCCGAATATCACACTT-AAAAAACCCG
1 ACCCGAC-CGACCCGAATATCACACTTAAAAAAACCCG
333304 ACCCGACC
1 ACCCGACC
333312 CGAACAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 1 0.02
37 19 0.43
38 24 0.55
ACGTcount: A:0.39, C:0.40, G:0.11, T:0.11
Consensus pattern (37 bp):
ACCCGACCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:333463 original size:253 final size:249
Alignment explanation
Indices: 333011--333774 Score: 1125
Period size: 253 Copynumber: 3.0 Consensus size: 249
333001 TTTTCACCAT
*
333011 AAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAACTTGACCCGACCCGAACAAAATAA
1 AAACCCG-ACCCGACTCGACCCGAATATCACACTTAAAAAAC--GACCCGACCCGAACAAAATAA
* * * * *
333076 AGTTT---CATCCGACCCGAATATATAAATTAGAAATCTGACCTGACCCAACCCGAAATAATAAT
63 AGTTTCACCAACCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCAGAAATAATAA-
* *
333138 AAAA-TATTTTTATTTAATAAAAATAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTT
127 AAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTC
* *
333202 GAGTCGGTCCAGTTTTTTTCACACTAAACCCGAA-CCGACCCGAATATCACACTTAAAA
192 GGGTCGGTCC-GTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAA
333260 AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAAA
1 AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAA--CGACCCGACCCGAACAAAATAAA
333325 GTTTCAACCAACCTGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCAGAAATAATAA
64 GTTTC-ACCAACC-GACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCAGAAATAATAA
*
333390 AAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCCGAATTATATATATTTTC
127 AAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTC
333455 GGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCTGAATATCACACTTAAAA
192 GGGTCGGTCCG-TTTTTTTCACCCTAAACCCGAACCCGA--C--CC-GAATATCACACTTAAAA
*
333519 AAACCCGA-CCGACTCGACCTGAATATCACACTT-AAAAA--ACCCGACCCGAACAAAATAAAGT
1 AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACGACCCGACCCGAACAAAATAAAGT
* **
333580 TTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCA-AAATAATAAA
66 TTCA-CC-AACCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGA-CCAGAAATAATAAA
* *
333644 AAATTATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCTGAATTATATATATTTTCG
128 AAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCG
*
333709 GGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCTAATATCACACTTAAAA
193 GGTCGGTCC-GTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAA
333767 AAACCCGA
1 AAACCCGA
333775 TCTGATCCGA
Statistics
Matches: 477, Mismatches: 19, Indels: 39
0.89 0.04 0.07
Matches are distributed among these distances:
248 82 0.17
249 9 0.02
250 1 0.00
251 1 0.00
252 10 0.02
253 306 0.64
254 11 0.02
256 1 0.00
257 5 0.01
258 26 0.05
259 25 0.05
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.23
Consensus pattern (249 bp):
AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACGACCCGACCCGAACAAAATAAAGT
TTCACCAACCGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACCAGAAATAATAAAAAA
TTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGT
CGGTCCGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAA
Found at i:333563 original size:36 final size:37
Alignment explanation
Indices: 333480--333564 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
333470 TTTTCACCCT
333480 AAACCCGAACCCGACCCGACCTGAATATCACACTTAAAA
1 AAACCCG-A-CCGACCCGACCTGAATATCACACTTAAAA
*
333519 AAACCCGACCGACTCGACCTGAATATCACACTT-AAA
1 AAACCCGACCGACCCGACCTGAATATCACACTTAAAA
333555 AAACCCGACC
1 AAACCCGACC
333565 CGAACAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 13 0.29
37 24 0.53
38 1 0.02
39 7 0.16
ACGTcount: A:0.40, C:0.36, G:0.11, T:0.13
Consensus pattern (37 bp):
AAACCCGACCGACCCGACCTGAATATCACACTTAAAA
Found at i:334936 original size:18 final size:19
Alignment explanation
Indices: 334913--334954 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
334903 CAGTAATCAT
334913 ATTCT-CTGGTAATCTTAC
1 ATTCTACTGGTAATCTTAC
*
334931 ATTCTCACTGGTAATCTTTC
1 ATTCT-ACTGGTAATCTTAC
334951 ATTC
1 ATTC
334955 CGTAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (19 bp):
ATTCTACTGGTAATCTTAC
Found at i:336731 original size:4 final size:4
Alignment explanation
Indices: 336722--336756 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
336712 ATTGATTTAC
* *
336722 TATT TATT TATT TATA TATA TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
336757 AATTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:336747 original size:16 final size:15
Alignment explanation
Indices: 336704--336752 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
336694 AAGAACAATG
*
336704 TATATATTATTGATT
1 TATATATTATTTATT
336719 TACTAT-TTATTTATT
1 TA-TATATTATTTATT
336734 TATATATATATTTATT
1 TATATAT-TATTTATT
336750 TAT
1 TAT
336753 TTATAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 14 0.47
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATATATTATTTATT
Found at i:338188 original size:99 final size:99
Alignment explanation
Indices: 338015--338195 Score: 303
Period size: 99 Copynumber: 1.8 Consensus size: 99
338005 CAACTTTCTG
* *
338015 TTTTTTTAAATGCATGTGAATTTTGGTTTTTTTTATTAAATGCATGTCATTGCATGCATGTTTTG
1 TTTTTTTAAATGCATATGAATTTTGGTTTTTTTTATTAAATGCATGTCATTGCATGCATGCTTTG
*
338080 GGGAACATTCACGTGGGTGGGGGCAGCAGCTTTT
66 AGGAACATTCACGTGGGTGGGGGCAGCAGCTTTT
338114 TTTTTATTAAATGCATATGAATTTT-GTTTTTTTTATTAAATGCATGTCATTGCATGCATGCTTT
1 TTTTT-TTAAATGCATATGAATTTTGGTTTTTTTTATTAAATGCATGTCATTGCATGCATGCTTT
338178 -AGGAAGCATTCACGTGGG
65 GAGGAA-CATTCACGTGGG
338196 GGAACAATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
98 4 0.05
99 55 0.71
100 18 0.23
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (99 bp):
TTTTTTTAAATGCATATGAATTTTGGTTTTTTTTATTAAATGCATGTCATTGCATGCATGCTTTG
AGGAACATTCACGTGGGTGGGGGCAGCAGCTTTT
Found at i:341063 original size:2 final size:2
Alignment explanation
Indices: 341056--341110 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
341046 CTACATATGA
341056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
341098 AT AT AT AC AT AT A
1 AT AT AT AT AT AT A
341111 AAACCAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:341382 original size:39 final size:37
Alignment explanation
Indices: 341335--341476 Score: 167
Period size: 39 Copynumber: 3.6 Consensus size: 37
341325 GTAAAATATT
341335 ACTCAACAATATCATTTAACAAAAATTATATGTAAATGA
1 ACTCAACAATATCATTTAACAAAAA-TATATGTAAAT-A
* *
341374 ACTCAACAATATCGTTTAACAGAACAATATTAGGTAAAATA
1 ACTCAACAATATCATTTAACA-AA-AATA-TATGT-AAATA
*
341415 TTACTCAATAATATCATTTAACAAAAAATATATGTAAATAA
1 --ACTCAACAATATCATTTAAC-AAAAATATATGTAAAT-A
341456 ACTCAACAATATCATTTAACA
1 ACTCAACAATATCATTTAACA
341477 GAACGATACG
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
38 1 0.01
39 39 0.44
40 8 0.09
41 12 0.13
42 8 0.09
43 20 0.22
44 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (37 bp):
ACTCAACAATATCATTTAACAAAAATATATGTAAATA
Found at i:341414 original size:82 final size:82
Alignment explanation
Indices: 341304--341497 Score: 325
Period size: 82 Copynumber: 2.4 Consensus size: 82
341294 CTGATATACA
*
341304 CATTTAACAGAACAATACGAGGTAAAATATTACTCAACAATATCATTTAACAAAAATTATATGTA
1 CATTTAACAGAACAATACGAGGTAAAATATTACTCAACAATATCATTTAACAAAAAATATATGTA
*
341369 AATGAACTCAACAATAT
66 AATAAACTCAACAATAT
* ** *
341386 CGTTTAACAGAACAATATTAGGTAAAATATTACTCAATAATATCATTTAACAAAAAATATATGTA
1 CATTTAACAGAACAATACGAGGTAAAATATTACTCAACAATATCATTTAACAAAAAATATATGTA
341451 AATAAACTCAACAATAT
66 AATAAACTCAACAATAT
*
341468 CATTTAACAGAACGATACGAGGTAAAATAT
1 CATTTAACAGAACAATACGAGGTAAAATAT
341498 AACATACTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.28
Consensus pattern (82 bp):
CATTTAACAGAACAATACGAGGTAAAATATTACTCAACAATATCATTTAACAAAAAATATATGTA
AATAAACTCAACAATAT
Found at i:356391 original size:18 final size:18
Alignment explanation
Indices: 356354--356388 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
356344 TTAGTGACTT
*
356354 TTTTTAATTTTATCTTAA
1 TTTTTAATTATATCTTAA
356372 TTTTTAATTATAT-TTAA
1 TTTTTAATTATATCTTAA
356389 ATTCTATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATTATATCTTAA
Found at i:359191 original size:34 final size:34
Alignment explanation
Indices: 359148--359215 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
359138 GCATGTTCAA
359148 ATCATCACTGATACGGTAAGAACCACATGCACAT
1 ATCATCACTGATACGGTAAGAACCACATGCACAT
359182 ATCATCACTGATACGGTAAGAACCACATGCACAT
1 ATCATCACTGATACGGTAAGAACCACATGCACAT
359216 TACCCACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (34 bp):
ATCATCACTGATACGGTAAGAACCACATGCACAT
Found at i:363585 original size:13 final size:14
Alignment explanation
Indices: 363559--363593 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
363549 TTTTTTAAAT
363559 ATATAAATATTTTA
1 ATATAAATATTTTA
363573 ATATAAA-ATTTTA
1 ATATAAATATTTTA
363586 AT-TAAATA
1 ATATAAATA
363594 ATATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 9 0.45
14 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATAAATATTTTA
Found at i:364721 original size:20 final size:20
Alignment explanation
Indices: 364698--364736 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
364688 ACTATTAGTT
364698 CATCTGATATCGATACCAAC
1 CATCTGATATCGATACCAAC
*
364718 CATCTGATATTGATACCAA
1 CATCTGATATCGATACCAA
364737 GCCTCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (20 bp):
CATCTGATATCGATACCAAC
Found at i:364751 original size:20 final size:20
Alignment explanation
Indices: 364709--364753 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
364699 ATCTGATATC
* *
364709 GATACCAACCATCTGATATT
1 GATACCAACCATCTAATAAT
364729 GATACCAAGCC-TCTAATAAT
1 GATACCAA-CCATCTAATAAT
364749 GATAC
1 GATAC
364754 AACAATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (20 bp):
GATACCAACCATCTAATAAT
Found at i:371187 original size:27 final size:27
Alignment explanation
Indices: 371130--371187 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
371120 GATGGTTGAT
* *
371130 GATA-TAATTATTTGAATAATTATTAT
1 GATATTAATGATTTGAATAATTATTAA
* * *
371156 TATATTAATGATTTGATTAATTGTTAA
1 GATATTAATGATTTGAATAATTATTAA
371183 GATAT
1 GATAT
371188 CACATTGATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
GATATTAATGATTTGAATAATTATTAA
Found at i:378419 original size:6 final size:6
Alignment explanation
Indices: 378408--378460 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
378398 TAAAATAAAT
* *
378408 AAATAA AAATAA AAATAA AAAT-A AAAT-A AAATAA ATAGTAA TAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA AAATAA
378454 AAATAA A
1 AAATAA A
378461 TAAAACAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 14 0.35
6 22 0.55
7 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:378438 original size:23 final size:25
Alignment explanation
Indices: 378401--378460 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
378391 TAACCAGTAA
378401 AATAAAT-AAATAAAAATAAA-AAT
1 AATAAATAAAATAAAAATAAATAAT
*
378424 AA-AAATAAAAT-AAAATAAATAGT
1 AATAAATAAAATAAAAATAAATAAT
378447 AATAAA-AAAATAAA
1 AATAAATAAAATAAA
378461 TAAAACAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 12 0.38
23 15 0.47
24 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (25 bp):
AATAAATAAAATAAAAATAAATAAT
Found at i:378451 original size:32 final size:31
Alignment explanation
Indices: 378398--378465 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
378388 TTATAACCAG
378398 TAAAATAAATAAATAAAAATAAAAATAA-AAA
1 TAAAATAAATAAATAAAAATAAAAA-AATAAA
**
378429 TAAAATAAAATAAATAGTAATAAAAAAATAAA
1 TAAAAT-AAATAAATAAAAATAAAAAAATAAA
378461 TAAAA
1 TAAAA
378466 CAGGGACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (31 bp):
TAAAATAAATAAATAAAAATAAAAAAATAAA
Found at i:381002 original size:3 final size:3
Alignment explanation
Indices: 380994--381048 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
380984 GTGTTAAAAC
380994 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
381042 ATA ATA A
1 ATA ATA A
381049 ACCAGCTAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:382194 original size:20 final size:19
Alignment explanation
Indices: 382171--382216 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
382161 CGATATACCA
382171 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
382191 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
382211 GGTAAA
1 GGTAAA
382217 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:382361 original size:20 final size:19
Alignment explanation
Indices: 382338--382384 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
382328 CGATATAACA
382338 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
382358 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
382378 GGTAAAA
1 GGTAAAA
382385 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:382386 original size:17 final size:19
Alignment explanation
Indices: 382347--382389 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
382337 AGGTAAAAAT
382347 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
382367 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
382384 ATGATA
1 ATGATA
382390 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:384738 original size:33 final size:33
Alignment explanation
Indices: 384696--384761 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
384686 AAATAGATGG
*
384696 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
384729 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
384762 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:385448 original size:25 final size:25
Alignment explanation
Indices: 385414--385478 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
385404 TTATCATTAA
385414 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
385439 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
385464 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
385479 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:385797 original size:23 final size:23
Alignment explanation
Indices: 385766--385829 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
385756 ATAGGTAGAC
*
385766 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
385789 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
385812 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
385830 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:385836 original size:23 final size:23
Alignment explanation
Indices: 385766--385838 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
385756 ATAGGTAGAC
* **
385766 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
385789 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
385812 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
385835 ATAT
1 ATAT
385839 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:385866 original size:21 final size:21
Alignment explanation
Indices: 385842--385901 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
385832 GTTATATTGT
385842 AAAGTGTCTATCCTTTTTATA
1 AAAGTGTCTATCCTTTTTATA
*
385863 AAAGTGTCTATCCTTTTAATA
1 AAAGTGTCTATCCTTTTTATA
* *
385884 AAAGTGTCCATACTTTTT
1 AAAGTGTCTATCCTTTTT
385902 TTACGTTACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (21 bp):
AAAGTGTCTATCCTTTTTATA
Found at i:386073 original size:25 final size:25
Alignment explanation
Indices: 386039--386089 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
386029 ACAACAAATC
* *
386039 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGAGTACATT
*
386064 AATTGAACATTGTTATGAGTACATT
1 AATTAAACATTGTTATGAGTACATT
386089 A
1 A
386090 TTTGGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGAGTACATT
Found at i:386359 original size:18 final size:18
Alignment explanation
Indices: 386338--386374 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
386328 GTAATTGGAG
386338 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
386356 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
386374 T
1 T
386375 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:386382 original size:24 final size:24
Alignment explanation
Indices: 386330--386376 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
386320 TTTCATATGT
* *
386330 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
386354 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
386377 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:386675 original size:38 final size:39
Alignment explanation
Indices: 386633--386718 Score: 147
Period size: 38 Copynumber: 2.2 Consensus size: 39
386623 TCCGATGCTC
*
386633 ATCAAAATCCAAAGCTCATATGGTGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
386671 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
386710 ATCAAAATC
1 ATCAAAATC
386719 TACAACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 29 0.64
39 16 0.36
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:387151 original size:23 final size:23
Alignment explanation
Indices: 387120--387183 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
387110 ATAGGTAAAC
* *
387120 ATATGATGTAATATGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
387143 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
387166 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
387184 TGGTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:387190 original size:23 final size:23
Alignment explanation
Indices: 387141--387192 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
387131 TATGTAGCCC
*
387141 TTATATAATGTAATAGGTATCGT
1 TTATATAATGTAATAGGTATCGG
387164 TTATATAATGTAATAGGTAGT-GG
1 TTATATAATGTAATAGGTA-TCGG
387187 TTATAT
1 TTATAT
387193 TGTAAAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:387778 original size:3 final size:3
Alignment explanation
Indices: 387770--387796 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
387760 GGGACACTGA
387770 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
387797 GACTCTGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:389481 original size:22 final size:22
Alignment explanation
Indices: 389439--389481 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
389429 AGTAAAAAAT
*
389439 TACCTAAAACATTATTATTTTC
1 TACCTAAAACATTAATATTTTC
*
389461 TACCTAAAACATTAATGTTTT
1 TACCTAAAACATTAATATTTT
389482 TTAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
TACCTAAAACATTAATATTTTC
Found at i:389941 original size:101 final size:101
Alignment explanation
Indices: 389766--389954 Score: 335
Period size: 101 Copynumber: 1.9 Consensus size: 101
389756 ACTGGAGCCT
*
389766 TCTTATCTCTTAAAAATTTAAAGAGTTTTGTGGTGGGTCGTGTCCTACTATAATTTTTTATTTCT
1 TCTTATCTCTTAAAAATTTAAAGAGTTTTGTGGTGGGTCGTGTCCCACTATAATTTTTTATTTCT
389831 TTATATAATTTTTAAAATATAATTTTCAAAGAGTTA
66 TTATATAATTTTTAAAATATAATTTTCAAAGAGTTA
* *
389867 TCTTATCTCTTAAAAGTTTAAAGAGTTTTGTAGGT-GGTCGTGTCCCACTCTAATTTTTTATTTC
1 TCTTATCTCTTAAAAATTTAAAGAGTTTTGT-GGTGGGTCGTGTCCCACTATAATTTTTTATTTC
389931 TTTATATAATTTTTAAAATATAAT
65 TTTATATAATTTTTAAAATATAAT
389955 GTTAAAGGGA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
101 81 0.96
102 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.49
Consensus pattern (101 bp):
TCTTATCTCTTAAAAATTTAAAGAGTTTTGTGGTGGGTCGTGTCCCACTATAATTTTTTATTTCT
TTATATAATTTTTAAAATATAATTTTCAAAGAGTTA
Found at i:390176 original size:29 final size:30
Alignment explanation
Indices: 390076--390174 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 30
390066 AATTTCTTAA
* *
390076 ATTTAAATTTTACACTTATATTTTAATTAT
1 ATTTAAATTTTACTCTTTTATTTTAATTAT
* *
390106 ATTT-AA-TTTAGTCATTTTGTGTTCTTTAAATT-T
1 ATTTAAATTTTACTC--TTT-T-AT-TTT-AATTAT
390139 ATTTAAATTTTACTCTTTTATTTTAATTAT
1 ATTTAAATTTTACTCTTTTATTTTAATTAT
390169 ATTTAA
1 ATTTAA
390175 TTGTGGCTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
28 5 0.09
29 6 0.11
30 16 0.30
31 2 0.04
32 2 0.04
33 11 0.20
34 6 0.11
35 6 0.11
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTAAATTTTACTCTTTTATTTTAATTAT
Found at i:390825 original size:12 final size:12
Alignment explanation
Indices: 390808--390832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
390798 GTCAAATAAT
390808 TTAGGCACCAAA
1 TTAGGCACCAAA
390820 TTAGGCACCAAA
1 TTAGGCACCAAA
390832 T
1 T
390833 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:396461 original size:69 final size:67
Alignment explanation
Indices: 396349--396541 Score: 248
Period size: 69 Copynumber: 3.0 Consensus size: 67
396339 TTAACAATGT
*
396349 TCAAATAATATATATATATATATATATCAATTTTCATATCCAAATCATATTGTATCATTACTTGG
1 TCAAAT-ATATATATATATATATATATCAATTTTCATGTCCAAATCATATTGTATCATTACTTGG
396414 TTG
65 TTG
*
396417 TCCAAATCATATTTATATATATATATATCAATTTTCATGTCCAAATCATATTG-AT-A-TA----
1 T-CAAAT-ATATATATATATATATATATCAATTTTCATGTCCAAATCATATTGTATCATTACTTG
396475 ----
64 GTTG
*
396475 T-ATATATATATATATATATATATATCAATTTTCATGTCCAAATCATATTGTATCATTACTTGGT
1 TCAAATATATATATATATATATATATCAATTTTCATGTCCAAATCATATTGTATCATTACTTGGT
396539 TG
66 TG
396541 T
1 T
396542 GGACTCTTGA
Statistics
Matches: 108, Mismatches: 5, Indels: 26
0.78 0.04 0.19
Matches are distributed among these distances:
55 44 0.41
56 5 0.05
57 1 0.01
58 3 0.03
66 3 0.03
67 1 0.01
68 3 0.03
69 48 0.44
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (67 bp):
TCAAATATATATATATATATATATATCAATTTTCATGTCCAAATCATATTGTATCATTACTTGGT
TG
Found at i:396477 original size:2 final size:2
Alignment explanation
Indices: 396470--396499 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
396460 AATCATATTG
396470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
396500 CAATTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:397409 original size:21 final size:21
Alignment explanation
Indices: 397383--397467 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
397373 TTCAACAAAT
*
397383 CTCTTCATCAAATGGTCTTAA
1 CTCTTCATCAAAAGGTCTTAA
* *
397404 CTCTTCATCAAATGATCTTAA
1 CTCTTCATCAAAAGGTCTTAA
397425 CTCTTCATCAAAAGGTCTTAA
1 CTCTTCATCAAAAGGTCTTAA
* *
397446 ATCTTCATCAAAAGGTCATAA
1 CTCTTCATCAAAAGGTCTTAA
397467 C
1 C
397468 CTTTTGATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (21 bp):
CTCTTCATCAAAAGGTCTTAA
Found at i:401535 original size:2 final size:2
Alignment explanation
Indices: 401528--401590 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
401518 TACCATTTAC
401528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
401570 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
401591 ATTCGATCAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:403199 original size:2 final size:2
Alignment explanation
Indices: 403192--403223 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
403182 ACCAATTCTG
403192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
403224 CTTACTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:409713 original size:39 final size:39
Alignment explanation
Indices: 409635--409718 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
409625 TTTTCACCCT
*
409635 AAACCCGAACCTGACCCGACCCAAATATCACACTTAAAA
1 AAACCCGAACCCGACCCGACCCAAATATCACACTTAAAA
* *
409674 AAACCCG-ACCCGACTCGACCCGAATATCACACTT-AAA
1 AAACCCGAACCCGACCCGACCCAAATATCACACTTAAAA
409711 AAACCCGA
1 AAACCCGA
409719 CTCGAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
37 10 0.24
38 24 0.59
39 7 0.17
ACGTcount: A:0.42, C:0.37, G:0.10, T:0.12
Consensus pattern (39 bp):
AAACCCGAACCCGACCCGACCCAAATATCACACTTAAAA
Found at i:416264 original size:27 final size:27
Alignment explanation
Indices: 416232--416285 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
416222 TTCAACTTGA
416232 AGGTTGTTTTTAATAGACGTATTAAAT
1 AGGTTGTTTTTAATAGACGTATTAAAT
*
416259 AGGTTGTTTTTAATAGACGTGTTAAAT
1 AGGTTGTTTTTAATAGACGTATTAAAT
416286 TAAACTCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (27 bp):
AGGTTGTTTTTAATAGACGTATTAAAT
Found at i:417000 original size:6 final size:6
Alignment explanation
Indices: 416533--416997 Score: 872
Period size: 6 Copynumber: 78.7 Consensus size: 6
416523 TTGGCTCCTA
416533 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416581 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416629 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416677 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTA--T GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416723 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416771 GTA--T GTAT-T GTATGT GTATGT GTATGT GTATGT G--TGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416814 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416862 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
416910 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT
*
416958 GTATGT GTATGT GTATGT GTATGT GTATGT GTATAT GTAT
1 GTATGT GTATGT GTATGT GTATGT GTATGT GTATGT GTAT
416998 ATGAGTTAGG
Statistics
Matches: 452, Mismatches: 1, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
4 12 0.03
5 5 0.01
6 435 0.96
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTATGT
Found at i:417203 original size:29 final size:29
Alignment explanation
Indices: 417161--417295 Score: 252
Period size: 29 Copynumber: 4.7 Consensus size: 29
417151 CTTCCCAGCA
*
417161 TAGGTCGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
417190 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
417219 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
*
417248 TAGGTCGCCATGCACTCCTGGTGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
417277 TAGGTCGCCATGCACTCCT
1 TAGGTCGCCATGCACTCCT
417296 CCTGCTCCTC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 104 1.00
ACGTcount: A:0.14, C:0.34, G:0.27, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:418104 original size:2 final size:2
Alignment explanation
Indices: 418099--418143 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
418089 TCTCTCTCTC
418099 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
418141 TA T
1 TA T
418144 TAAATCTAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:424282 original size:24 final size:24
Alignment explanation
Indices: 424255--424337 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
424245 AAACGGAGAT
424255 ATCAAAAATCAAAACAGAATTCAG
1 ATCAAAAATCAAAACAGAATTCAG
* *
424279 ATCAGATATCAAAACAGAA-TCTAG
1 ATCAAAAATCAAAACAGAATTC-AG
* * * * *
424303 ACCAGAAATCAGAACAAAATTCAA
1 ATCAAAAATCAAAACAGAATTCAG
*
424327 ATCGAAAATCA
1 ATCAAAAATCA
424338 GATAAAACAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.55, C:0.18, G:0.10, T:0.17
Consensus pattern (24 bp):
ATCAAAAATCAAAACAGAATTCAG
Found at i:426743 original size:18 final size:18
Alignment explanation
Indices: 426717--426776 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
426707 AGTCAATGGA
*
426717 TCAATGGGTC-GGATCGGG
1 TCAACGGGTCAGG-TCGGG
426735 TCAACGGGTCAGGTCGGG
1 TCAACGGGTCAGGTCGGG
426753 TCAACGGGTCAGGTCGGG
1 TCAACGGGTCAGGTCGGG
426771 TCAACG
1 TCAACG
426777 AGTTGGTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 38 0.95
19 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.42, T:0.18
Consensus pattern (18 bp):
TCAACGGGTCAGGTCGGG
Found at i:428307 original size:24 final size:24
Alignment explanation
Indices: 428280--428382 Score: 120
Period size: 24 Copynumber: 4.3 Consensus size: 24
428270 AAATGGATAT
* * *
428280 ATCAAAAATCAAAACAAAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
428304 ATCAGATATCAGAACAGAA-TCTAG
1 ATCAGAAATCAGAACAGAATTC-AG
*
428328 ATCAGAAATCAGAACAGAATTAAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
428352 ATCAGAAATCATAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAG
428376 ATC-GAAA
1 ATCAGAAA
428383 ACCAGATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
23 6 0.09
24 61 0.90
25 1 0.01
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Done.