Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 37
Found at i:8532217 original size:19 final size:19
Alignment explanation
Indices: 8532191--8532314 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
8532181 CACAAAACTT
*
8532191 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATC
* * *
8532210 AGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAATC
*
8532229 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATC
*
8532248 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATC
8532267 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAATC
* * *
8532281 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATC
*
8532300 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
8532315 TTTTGGTTTC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 73 0.83
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATC
Found at i:8532332 original size:19 final size:18
Alignment explanation
Indices: 8532310--8532368 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
8532300 AAAATCGCAA
8532310 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
8532329 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
8532343 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
8532362 TGCGATT
1 TGCGATT
8532369 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 11 0.34
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.56
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:8532358 original size:33 final size:33
Alignment explanation
Indices: 8532310--8532400 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
8532300 AAAATCGCAA
** *
8532310 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
8532343 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
* *
8532376 TGCAATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTTAA-TTTCGCGTTGCGA
8532401 AAGTAAACTA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 39 0.76
34 12 0.24
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
Found at i:8532564 original size:83 final size:87
Alignment explanation
Indices: 8532448--8532720 Score: 324
Period size: 93 Copynumber: 3.1 Consensus size: 87
8532438 ATGGATTGCA
* **
8532448 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
8532507 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
8532530 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
8532595 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
8532623 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
* *
8532688 TAGCATAATTGGCAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
8532716 TTACT
1 TTACT
8532721 AAGCAATCTA
Statistics
Matches: 173, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 128 0.74
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:8532657 original size:93 final size:93
Alignment explanation
Indices: 8532498--8532720 Score: 428
Period size: 93 Copynumber: 2.4 Consensus size: 93
8532488 TCAGGGTATT
8532498 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
8532563 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
8532591 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
8532656 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
8532684 AGTTTAGCATAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
8532721 AAGCAATCTA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:8534430 original size:20 final size:19
Alignment explanation
Indices: 8534399--8534494 Score: 78
Period size: 20 Copynumber: 5.2 Consensus size: 19
8534389 TTTTGGTTGA
8534399 AATGAAAATCGCAACGAGAG
1 AATG-AAATCGCAACGAGAG
** *
8534419 AATGACTGTCGCAATGAGAG
1 AATGA-AATCGCAACGAGAG
8534439 AAATGAAATCGCAAC--GAG
1 -AATGAAATCGCAACGAGAG
*
8534457 -A-G-AATCGCAACGCGA-
1 AATGAAATCGCAACGAGAG
8534472 AATGAAAATCGCAACGAGAG
1 AATG-AAATCGCAACGAGAG
8534492 AAT
1 AAT
8534495 CGCAACGCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 4 0.07
17 1 0.02
18 3 0.05
19 13 0.22
20 24 0.40
21 5 0.08
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (19 bp):
AATGAAATCGCAACGAGAG
Found at i:8534464 original size:14 final size:14
Alignment explanation
Indices: 8534445--8534501 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8534435 AGAGAAATGA
8534445 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
8534459 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
8534478 AATCGCAACGAGAG
1 AATCGCAACGAGAG
8534492 AATCGCAACG
1 AATCGCAACG
8534502 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:8534483 original size:19 final size:19
Alignment explanation
Indices: 8534459--8534523 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
8534449 GCAACGAGAG
8534459 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
8534478 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
8534492 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
8534511 AATCGCAATGCGA
1 AATCGCAACGCGA
8534524 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:8534485 original size:33 final size:33
Alignment explanation
Indices: 8534438--8534518 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
8534428 CGCAATGAGA
8534438 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8534470 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8534503 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8534519 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 6 0.12
33 42 0.88
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:8534554 original size:14 final size:14
Alignment explanation
Indices: 8534535--8534591 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
8534525 TTTGGTTTCG
8534535 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
8534549 CGTTGCGATTTTCATTTT
1 CGTTGCGA--TTC--TCT
*
8534567 GCGTTGCGATTCTCC
1 -CGTTGCGATTCTCT
8534582 CGTTGCGATT
1 CGTTGCGATT
8534592 TTCATTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 3 0.09
17 3 0.09
18 2 0.06
19 8 0.23
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:8534571 original size:33 final size:33
Alignment explanation
Indices: 8534519--8534599 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
8534509 AAAATCGCAA
** * *
8534519 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTTGCGTTGCGATTCTCCCGT
8534552 TGCGATTTTCATTTTGCGTTGCGATTCTCCCGT
1 TGCGATTTTCATTTTGCGTTGCGATTCTCCCGT
8534585 TGCGATTTTCATTTT
1 TGCGATTTTCATTTT
8534600 TCTCGTTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTTGCGTTGCGATTCTCCCGT
Found at i:8534607 original size:21 final size:21
Alignment explanation
Indices: 8534582--8534652 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
8534572 GCGATTCTCC
8534582 CGTTGCGATTTTCATTTTTCT
1 CGTTGCGATTTTCATTTTTCT
** * *
8534603 CGTTGCAGATAGTGA-TTTTCA
1 CGTTGC-GATTTTCATTTTTCT
*
8534624 CGTTGCGATTTTCATTTATCT
1 CGTTGCGATTTTCATTTTTCT
8534645 CGTTGCGA
1 CGTTGCGA
8534653 CTCTTCTGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.13
21 29 0.74
22 5 0.13
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.46
Consensus pattern (21 bp):
CGTTGCGATTTTCATTTTTCT
Found at i:8534774 original size:33 final size:33
Alignment explanation
Indices: 8534732--8534802 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
8534722 AATACTAACT
8534732 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
8534765 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
8534798 TGAAA
1 TGAAA
8534803 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:8535206 original size:20 final size:20
Alignment explanation
Indices: 8535181--8535354 Score: 219
Period size: 20 Copynumber: 8.7 Consensus size: 20
8535171 CTTTAAAAAT
8535181 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
8535201 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
8535221 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
8535242 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
8535262 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
8535282 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
8535302 CACGTTGCGATTTAC-AACTA
1 CGCGTTGCGATTTACGGA-TA
* *
8535322 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
8535342 CGCGTTGCGATTT
1 CGCGTTGCGATTT
8535355 TTCATATTCG
Statistics
Matches: 134, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
19 1 0.01
20 116 0.87
21 17 0.13
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:8535366 original size:21 final size:20
Alignment explanation
Indices: 8535304--8535374 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
8535294 TACGGATACA
* *
8535304 CGTTGCGATTTACA-ACTACG
1 CGTTGCGATTTATATA-TTCG
* *
8535324 CGTTGCGATTTATGTGTTCG
1 CGTTGCGATTTATATATTCG
*
8535344 CGTTGCGATTTTTCATATTCG
1 CGTTGCGATTTAT-ATATTCG
*
8535365 CGTTACGATT
1 CGTTGCGATT
8535375 CTGGAAAATC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTATATATTCG
Found at i:8539502 original size:2 final size:2
Alignment explanation
Indices: 8539493--8539542 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
8539483 CTTTTTTTAC
8539493 TA TA -A 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
8539534 TA TA TA TA T
1 TA TA TA TA T
8539543 CAACTTTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8542936 original size:19 final size:20
Alignment explanation
Indices: 8542907--8542960 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
8542897 TTCAAGGATC
8542907 ATTTT-ATAACAATTTT-AT
1 ATTTTAATAACAATTTTAAT
*
8542925 ATTTTAATAACACTTTTAAAT
1 ATTTTAATAACAATTTT-AAT
*
8542946 AATTTAATAA-AATTT
1 ATTTTAATAACAATTT
8542961 AAAAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 4 0.13
21 11 0.37
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTAATAACAATTTTAAT
Found at i:8552224 original size:20 final size:20
Alignment explanation
Indices: 8552194--8552235 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
8552184 ATTTAGTAAC
8552194 AAAATTTATTT-ATAAATTA
1 AAAATTTATTTGATAAATTA
*
8552213 AAAATATTATTTGATATATTA
1 AAAAT-TTATTTGATAAATTA
8552234 AA
1 AA
8552236 CAATCAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTATTTGATAAATTA
Found at i:8553857 original size:3 final size:3
Alignment explanation
Indices: 8553851--8553882 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
8553841 TTTTTTATCG
8553851 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
8553883 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8553894 original size:13 final size:13
Alignment explanation
Indices: 8553851--8553890 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
8553841 TTTTTTATCG
8553851 TTATTAT-TATTA
1 TTATTATGTATTA
*
8553863 TTATTATTTATTA
1 TTATTATGTATTA
8553876 TTATTATGT-TTA
1 TTATTATGTATTA
8553888 TTA
1 TTA
8553891 ATTACATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTATGTATTA
Found at i:8553894 original size:19 final size:19
Alignment explanation
Indices: 8553853--8553894 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8553843 TTTTATCGTT
*
8553853 ATTATTATTATTATTATTT
1 ATTATTATTATTATTATTA
8553872 ATTATTATTATGT-TTATTA
1 ATTATTATTAT-TATTATTA
8553891 ATTA
1 ATTA
8553895 CATATTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTATTATTATTA
Found at i:8553965 original size:11 final size:11
Alignment explanation
Indices: 8553929--8553988 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
8553919 AAGCCCAATA
8553929 CAACA-AGGCC
1 CAACAGAGGCC
8553939 CAACCA-AGGCC
1 CAA-CAGAGGCC
8553950 CAACAGAGGCC
1 CAACAGAGGCC
*
8553961 CAACAACCCGAAGCC
1 CAAC-A---GAGGCC
8553976 CAACAGAGGCC
1 CAACAGAGGCC
8553987 CA
1 CA
8553989 GCAACCCGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.12
11 26 0.62
12 1 0.02
14 1 0.02
15 9 0.21
ACGTcount: A:0.38, C:0.42, G:0.20, T:0.00
Consensus pattern (11 bp):
CAACAGAGGCC
Found at i:8553976 original size:26 final size:26
Alignment explanation
Indices: 8553947--8554004 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
8553937 CCCAACCAAG
8553947 GCCCAACAGAGGCCCAACAACCCGAA
1 GCCCAACAGAGGCCCAACAACCCGAA
*
8553973 GCCCAACAGAGGCCCAGCAACCCGAA
1 GCCCAACAGAGGCCCAACAACCCGAA
8553999 GCCCAA
1 GCCCAA
8554005 TTGGCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.43, G:0.21, T:0.00
Consensus pattern (26 bp):
GCCCAACAGAGGCCCAACAACCCGAA
Found at i:8554068 original size:25 final size:25
Alignment explanation
Indices: 8554039--8554132 Score: 161
Period size: 25 Copynumber: 3.8 Consensus size: 25
8554029 ACCCATCAGT
8554039 TTAGGGTTTCAAACCCTAAATCGGA
1 TTAGGGTTTCAAACCCTAAATCGGA
8554064 TTAGGGTTTCAAACCCTAAATCGGA
1 TTAGGGTTTCAAACCCTAAATCGGA
* **
8554089 TTAGGGTTTCAAACCCTAAAACAAA
1 TTAGGGTTTCAAACCCTAAATCGGA
8554114 TTAGGGTTTCAAACCCTAA
1 TTAGGGTTTCAAACCCTAA
8554133 TCCCCTATCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (25 bp):
TTAGGGTTTCAAACCCTAAATCGGA
Found at i:8556106 original size:63 final size:63
Alignment explanation
Indices: 8556038--8556167 Score: 154
Period size: 63 Copynumber: 2.1 Consensus size: 63
8556028 AATGTGTGTT
* * * * *
8556038 TTTTTAAATAGT-AATTTATTTTATTTTATGTAAATGTCAATTTGCATTTGTATTCAATTCACA
1 TTTTTAAATAATCAATTTATTTTATTGTATGCAAACGTCAATTT-CATTTATATTCAATTCACA
** * * *
8556101 TTTTTAGTTAATCAATTTATTTTGTTGTATGCAAACGTCAATTTTATTTATATTCGATTCACA
1 TTTTTAAATAATCAATTTATTTTATTGTATGCAAACGTCAATTTCATTTATATTCAATTCACA
8556164 TTTT
1 TTTT
8556168 ATCAAGAGGG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 29 0.52
64 27 0.48
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (63 bp):
TTTTTAAATAATCAATTTATTTTATTGTATGCAAACGTCAATTTCATTTATATTCAATTCACA
Found at i:8557605 original size:31 final size:32
Alignment explanation
Indices: 8557570--8557631 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
8557560 ATTTTACATG
8557570 TACTAACTTATGT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATGTCTTCTCTTTTGTTTGTGTA
*
8557601 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATGTCTTCTCTTTTGTTTGTGT
8557632 CATTTTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.60
Consensus pattern (32 bp):
TACTAACTTATGTCTTCTCTTTTGTTTGTGTA
Found at i:8559776 original size:26 final size:25
Alignment explanation
Indices: 8559747--8559824 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
8559737 AATTTTTGAC
8559747 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
8559773 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
8559793 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
8559819 ATTCTT
1 ATTCTT
8559825 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:8559785 original size:20 final size:20
Alignment explanation
Indices: 8559762--8559836 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
8559752 ATCTCTTTGA
8559762 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
8559782 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
8559808 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
8559827 CACCTTGAAA
1 GACCTTGAAA
8559837 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:8560467 original size:42 final size:41
Alignment explanation
Indices: 8560420--8560501 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
8560410 AAGATCAAAC
* *
8560420 CAAAGAAAAACAAAGAGCAAAGAGAA-AAATCAAAGCAAAAAT
1 CAAAGAAAAACAAAGAG-AAAGA-AACAAAACAAAGAAAAAAT
*
8560462 CAAAGAAAAGCAAAGAGAAAGAAACAAAACAAAGAAAAAA
1 CAAAGAAAAACAAAGAGAAAGAAACAAAACAAAGAAAAAA
8560502 GAAGAGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 2 0.06
41 18 0.50
42 16 0.44
ACGTcount: A:0.72, C:0.11, G:0.15, T:0.02
Consensus pattern (41 bp):
CAAAGAAAAACAAAGAGAAAGAAACAAAACAAAGAAAAAAT
Found at i:8561687 original size:4 final size:4
Alignment explanation
Indices: 8561678--8561711 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
8561668 AAAAGTATAC
8561678 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8561712 GATACATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:8561702 original size:22 final size:21
Alignment explanation
Indices: 8561674--8561719 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
8561664 CGAGAAAAGT
8561674 ATACACATACATACATACATAC
1 ATACACATACATACAT-CATAC
*
8561696 ATACACATACATACATGATAC
1 ATACACATACATACATCATAC
8561717 ATA
1 ATA
8561720 AAATTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
ATACACATACATACATCATAC
Found at i:8562430 original size:102 final size:102
Alignment explanation
Indices: 8562186--8562520 Score: 469
Period size: 102 Copynumber: 3.3 Consensus size: 102
8562176 TGAGAATTCT
** * * * * ** *
8562186 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTGTGAGATACAAATTTTAAATTTGATTCAC-
1 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
* * * *
8562250 TAAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 T-TAAACAAAGTTGATCTCA-CTTGAGATCG-T-TTTC--TCA
8562291 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
8562356 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
8562393 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
8562458 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
*
8562495 AAAACAAACTTTGTCTCGCTTGAGAC
1 AAAACAAATTTTGTCTCGCTTGAGAC
8562521 AATTTCTCTA
Statistics
Matches: 213, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
101 2 0.01
102 127 0.60
103 4 0.02
104 4 0.02
105 75 0.35
106 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
Found at i:8562517 original size:36 final size:36
Alignment explanation
Indices: 8562472--8562591 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
8562462 ACAAAGTTGA
**
8562472 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
8562508 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
8562544 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
8562578 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
8562592 TTATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:8562872 original size:29 final size:29
Alignment explanation
Indices: 8562839--8562936 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
8562829 TTTCTCTTAA
*
8562839 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTCGTTCCTTTTGAAT
* *
8562868 AAAAATCTTGGAGTTGGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTCGTTCCTTTTGAAT
* *
8562897 AAATATCTTTGAG-TCGTTTCTTTTGAA-
1 AAAAATCTTTGAGTTCGTTCCTTTTGAAT
8562924 AAAAA-CTTTGAGT
1 AAAAATCTTTGAGT
8562937 CTATTTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 7 0.11
27 4 0.07
28 12 0.20
29 38 0.62
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (29 bp):
AAAAATCTTTGAGTTCGTTCCTTTTGAAT
Found at i:8563025 original size:52 final size:53
Alignment explanation
Indices: 8562947--8563050 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
8562937 CTATTTATTT
*
8562947 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
8562999 TGAAACAAAGTTTTGTATCTCTTGAGACAATTTTGTGAAAAAATCTTTGAGT
1 TGAAACAAAGTTTTGTATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGT
8563051 TTGTTTCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 35 0.71
53 14 0.29
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTATCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:8563244 original size:66 final size:67
Alignment explanation
Indices: 8563120--8563250 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 67
8563110 AAAAAAAAAA
* * * * * *
8563120 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAATCTGTTTCTCTTGAAACAAAATTTTGTATCTCTTAAGACAATTTCTCTTGAA
8563185 AC
66 AC
*** * **
8563187 AAAAATCTTTGAATCTGTTTCTCTT-AAATTGAATTTTGTATCTCTTGAGACCGTTTCTCTTGAA
1 AAAAATCTTTGAATCTGTTTCTCTTGAAACAAAATTTTGTATCTCTTAAGACAATTTCTCTTGAA
8563251 GTAAATCTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
66 30 0.58
67 22 0.42
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (67 bp):
AAAAATCTTTGAATCTGTTTCTCTTGAAACAAAATTTTGTATCTCTTAAGACAATTTCTCTTGAA
AC
Found at i:8563730 original size:15 final size:15
Alignment explanation
Indices: 8563707--8563750 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
8563697 TTTTGAGTCG
*
8563707 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
8563722 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
8563737 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
8563751 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:8564391 original size:40 final size:40
Alignment explanation
Indices: 8564336--8564705 Score: 210
Period size: 40 Copynumber: 8.8 Consensus size: 40
8564326 CTTTAGATGG
* * * *
8564336 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCCCAGA
* * *
8564376 CCAGATCTCCTCATCACGTAGGAGCCATGTCA-ACCATAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCC-CAG---A
* * * * *
8564419 CCAG-CCGTCCTCGTCACGTAGGAACCGTGTTATTACCTTTAGA
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCATT-CC--CAGA
* * * *
8564462 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
1 ---CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCCCAGA
* * *
8564505 CCAGATCTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCCCAGA
* * *
8564545 CCAGATCTCCTCATCACGTAGGAGCCATGTCA-ACCATAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCC-CAG---A
* * *
8564588 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTA-TCACCTTTAGA
1 CCAGATC-TCCTCATCACGTAGGAGCCGTGTCATTC-CC---AGA
* * * *
8564631 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
1 ---CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCCCAGA
* * *
8564674 CCAGATGTCCTCATCACGTAGGAACCATGTCA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
8564706 CCCTTAGACG
Statistics
Matches: 257, Mismatches: 47, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
39 4 0.02
40 124 0.48
42 2 0.01
43 60 0.23
44 1 0.00
45 4 0.02
46 58 0.23
47 4 0.02
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
CCAGATCTCCTCATCACGTAGGAGCCGTGTCATTCCCAGA
Found at i:8564519 original size:129 final size:129
Alignment explanation
Indices: 8564284--8564536 Score: 461
Period size: 129 Copynumber: 2.0 Consensus size: 129
8564274 ATTATCCTAG
8564284 AGATAACCAGCCGTCCCCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCCCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
8564349 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCATGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCATGTCAACCAT
* *
8564413 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATTACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCCCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
* * *
8564478 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCA
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCATGTCA
8564537 TTCCCCGACC
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (129 bp):
AGATAACCAGCCGTCCCCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCATGTCAACCAT
Found at i:8564628 original size:169 final size:169
Alignment explanation
Indices: 8564336--8564693 Score: 671
Period size: 169 Copynumber: 2.1 Consensus size: 169
8564326 CTTTAGATGG
*
8564336 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGC
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGC
* *
8564401 CATGTCAACCATAGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATTACCTTTAGATGGC
66 CATGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGC
8564466 CAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
131 CAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
8564505 CCAGATCTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGC
1 CCAGATCTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGC
8564570 CATGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGC
66 CATGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGC
8564635 CAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
131 CAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
* *
8564674 CCAGATGTCCTCATCACGTA
1 CCAGATCTCTTCATCACGTA
8564694 GGAACCATGT
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 184 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.25
Consensus pattern (169 bp):
CCAGATCTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGC
CATGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGC
CAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
Found at i:8564911 original size:3 final size:3
Alignment explanation
Indices: 8564905--8564936 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
8564895 TTTTTTATCG
8564905 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
8564937 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8564948 original size:13 final size:13
Alignment explanation
Indices: 8564905--8564944 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
8564895 TTTTTTATCG
8564905 TTATTAT-TATTA
1 TTATTATGTATTA
*
8564917 TTATTATTTATTA
1 TTATTATGTATTA
8564930 TTATTATGT-TTA
1 TTATTATGTATTA
8564942 TTA
1 TTA
8564945 ATTACATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTATGTATTA
Found at i:8564948 original size:19 final size:19
Alignment explanation
Indices: 8564907--8564948 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8564897 TTTTATCGTT
*
8564907 ATTATTATTATTATTATTT
1 ATTATTATTATTATTATTA
8564926 ATTATTATTATGT-TTATTA
1 ATTATTATTAT-TATTATTA
8564945 ATTA
1 ATTA
8564949 CATATTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTATTATTATTA
Found at i:8565019 original size:11 final size:11
Alignment explanation
Indices: 8564983--8565042 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
8564973 AAGCCCAATA
8564983 CAACA-AGGCC
1 CAACAGAGGCC
8564993 CAACCA-AGGCC
1 CAA-CAGAGGCC
8565004 CAACAGAGGCC
1 CAACAGAGGCC
*
8565015 CAACAACCCGAAGCC
1 CAAC-A---GAGGCC
8565030 CAACAGAGGCC
1 CAACAGAGGCC
8565041 CA
1 CA
8565043 GCAACCCGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.12
11 26 0.62
12 1 0.02
14 1 0.02
15 9 0.21
ACGTcount: A:0.38, C:0.42, G:0.20, T:0.00
Consensus pattern (11 bp):
CAACAGAGGCC
Found at i:8565030 original size:26 final size:26
Alignment explanation
Indices: 8565001--8565058 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
8564991 CCCAACCAAG
8565001 GCCCAACAGAGGCCCAACAACCCGAA
1 GCCCAACAGAGGCCCAACAACCCGAA
*
8565027 GCCCAACAGAGGCCCAGCAACCCGAA
1 GCCCAACAGAGGCCCAACAACCCGAA
8565053 GCCCAA
1 GCCCAA
8565059 TTGGCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.43, G:0.21, T:0.00
Consensus pattern (26 bp):
GCCCAACAGAGGCCCAACAACCCGAA
Found at i:8565122 original size:25 final size:25
Alignment explanation
Indices: 8565093--8565186 Score: 161
Period size: 25 Copynumber: 3.8 Consensus size: 25
8565083 ACCCATCAGT
8565093 TTAGGGTTTCAAACCCTAAATCGGA
1 TTAGGGTTTCAAACCCTAAATCGGA
8565118 TTAGGGTTTCAAACCCTAAATCGGA
1 TTAGGGTTTCAAACCCTAAATCGGA
* **
8565143 TTAGGGTTTCAAACCCTAAAACAAA
1 TTAGGGTTTCAAACCCTAAATCGGA
8565168 TTAGGGTTTCAAACCCTAA
1 TTAGGGTTTCAAACCCTAA
8565187 TCCCCTATCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (25 bp):
TTAGGGTTTCAAACCCTAAATCGGA
Found at i:8567197 original size:63 final size:62
Alignment explanation
Indices: 8567107--8567224 Score: 164
Period size: 63 Copynumber: 1.9 Consensus size: 62
8567097 TTTTAATAGT
* * * *
8567107 AATTTATTTTATTTTATGTAAATGTCAATTTGCATTTGTATTCAATTCACATTTTAGTTAATC
1 AATTTATTTTATTGTATGCAAACGTCAATTT-CATTTATATTCAATTCACATTTTAGTTAATC
* * *
8567170 AATTTATTTTGTTGTATGCAAACGTCAATTTTATTTATATTCGATTCACATTTTA
1 AATTTATTTTATTGTATGCAAACGTCAATTTCATTTATATTCAATTCACATTTTA
8567225 TCAAGAGGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
62 21 0.44
63 27 0.56
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (62 bp):
AATTTATTTTATTGTATGCAAACGTCAATTTCATTTATATTCAATTCACATTTTAGTTAATC
Found at i:8569987 original size:112 final size:111
Alignment explanation
Indices: 8569806--8570009 Score: 279
Period size: 112 Copynumber: 1.8 Consensus size: 111
8569796 TATTCATGTA
* * * *
8569806 ATAATTTTTTTTAAAAATTTCACACTTTAAAGTTATTATTGATATAGTCATGGATAATGATTAAG
1 ATAATTTTTTTAAAAAATTTCACACTTTAAAGTTATTATCGATATAGTCATGGATAATAACTAAG
** *
8569871 AATCTATTGAAGTTGATCAAAAAATTTCGATAAATATATATATATG
66 AATCTATCAAAGTTGATAAAAAAATTTCGATAAATATATATATATG
*
8569917 ATAATTTTTTTAAAAAAAATTT-ACACTTT-ATGATTATTATCGATATAGTCATGGATAATAACT
1 ATAATTTTTTT--AAAAAATTTCACACTTTAAAG-TTATTATCGATATAGTCATGGATAATAACT
8569980 -AGAAATCTATCAAAGTTGATAAAAAAATTT
63 AAG-AATCTATCAAAGTTGATAAAAAAATTT
8570010 GACAGTGAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
111 15 0.19
112 58 0.72
113 8 0.10
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (111 bp):
ATAATTTTTTTAAAAAATTTCACACTTTAAAGTTATTATCGATATAGTCATGGATAATAACTAAG
AATCTATCAAAGTTGATAAAAAAATTTCGATAAATATATATATATG
Found at i:8575030 original size:233 final size:234
Alignment explanation
Indices: 8574602--8575044 Score: 678
Period size: 233 Copynumber: 1.9 Consensus size: 234
8574592 CTCAGTCTTC
* * * * *
8574602 AAATGTATGGTTGCAGAGTGATTCAGTAGGTGCATGGACTGTAATTCCCCTTCTTTTTCTTAAAG
1 AAATATATGGCTGCAGAGTGATTCAGAAGATGCATGGACTGTAATTCCCCATCTTTTTCTTAAAG
* *
8574667 AAAAAAATGTCATGCTTTAATGTAGTTAATTTTTTTAGTCTTGAGAACCGTAGCCTCCATCTTAC
66 AAAAAAATGTCATGCTTTAATGGAGTTAATTTTGTTAGTCTTGAGAACCGTAGCCTCCATCTTAC
* * *
8574732 GTTGAAGTCATTTTAGCTTACATTCCCTGGCTTAGTATACTGTACATGCTGCATAGAACCATTTT
131 GCTGAAGTCATTTTAGCTTACATTCCCTGGCTTAGCATACTGGACATGCTGCATAGAACCATTTT
*
8574797 AATGATTCGAGTTACTGGTCACGTATTGGCTCTGCCTTT
196 AATGATTCGAATTACTGGTCACGTATTGGCTCTGCCTTT
8574836 AAATATATGGCTGCAGAGTGATTCAGAAGATGCATGGACTGTAATTCCCCATCTTTTT-TTAAA-
1 AAATATATGGCTGCAGAGTGATTCAGAAGATGCATGGACTGTAATTCCCCATCTTTTTCTTAAAG
* * *
8574899 AGAAAAAATGTCATGCTTTAATGGAGTTAA-TTTGTTAGTGTTGATAGCCGTAGCCTCCATCTTA
66 A-AAAAAATGTCATGCTTTAATGGAGTTAATTTTGTTAGTCTTGAGAACCGTAGCCTCCATCTTA
* * *
8574963 TGCTGAAGTCATTTTAGAC-TACATTCCCTGGCTTTAGCATATTGGACATGCTGCATGGAACCAT
130 CGCTGAAGTCATTTTAG-CTTACATTCCCTGGC-TTAGCATACTGGACATGCTGCATAGAACCAT
8575027 TTTAATGATTCGAATTAC
193 TTTAATGATTCGAATTAC
8575045 AATAGATATG
Statistics
Matches: 189, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
232 59 0.31
233 77 0.41
234 53 0.28
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (234 bp):
AAATATATGGCTGCAGAGTGATTCAGAAGATGCATGGACTGTAATTCCCCATCTTTTTCTTAAAG
AAAAAAATGTCATGCTTTAATGGAGTTAATTTTGTTAGTCTTGAGAACCGTAGCCTCCATCTTAC
GCTGAAGTCATTTTAGCTTACATTCCCTGGCTTAGCATACTGGACATGCTGCATAGAACCATTTT
AATGATTCGAATTACTGGTCACGTATTGGCTCTGCCTTT
Found at i:8576535 original size:178 final size:178
Alignment explanation
Indices: 8576236--8576592 Score: 714
Period size: 178 Copynumber: 2.0 Consensus size: 178
8576226 TTCTTGAGCA
8576236 CGGTAAGCCACACGAGAGATCTGCTATTATCAGCAAGCTTGCTGGACAAATTGTGAAGATGAGTC
1 CGGTAAGCCACACGAGAGATCTGCTATTATCAGCAAGCTTGCTGGACAAATTGTGAAGATGAGTC
8576301 TGCAAAAATTTGCCTCTAATGTTGTTGAGAAGTGCTTGACTTTTGGTGGGCCTGAGGAACGTCAA
66 TGCAAAAATTTGCCTCTAATGTTGTTGAGAAGTGCTTGACTTTTGGTGGGCCTGAGGAACGTCAA
8576366 ATTTTGGTCAACGAGATGCTTGGTTCTACCGATGAAAATGAGCCGTTG
131 ATTTTGGTCAACGAGATGCTTGGTTCTACCGATGAAAATGAGCCGTTG
8576414 CGGTAAGCCACACGAGAGATCTGCTATTATCAGCAAGCTTGCTGGACAAATTGTGAAGATGAGTC
1 CGGTAAGCCACACGAGAGATCTGCTATTATCAGCAAGCTTGCTGGACAAATTGTGAAGATGAGTC
8576479 TGCAAAAATTTGCCTCTAATGTTGTTGAGAAGTGCTTGACTTTTGGTGGGCCTGAGGAACGTCAA
66 TGCAAAAATTTGCCTCTAATGTTGTTGAGAAGTGCTTGACTTTTGGTGGGCCTGAGGAACGTCAA
8576544 ATTTTGGTCAACGAGATGCTTGGTTCTACCGATGAAAATGAGCCGTTG
131 ATTTTGGTCAACGAGATGCTTGGTTCTACCGATGAAAATGAGCCGTTG
8576592 C
1 C
8576593 AGGTGTGTCA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (178 bp):
CGGTAAGCCACACGAGAGATCTGCTATTATCAGCAAGCTTGCTGGACAAATTGTGAAGATGAGTC
TGCAAAAATTTGCCTCTAATGTTGTTGAGAAGTGCTTGACTTTTGGTGGGCCTGAGGAACGTCAA
ATTTTGGTCAACGAGATGCTTGGTTCTACCGATGAAAATGAGCCGTTG
Found at i:8577382 original size:16 final size:16
Alignment explanation
Indices: 8577350--8577393 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8577340 AAATTAACCG
8577350 AAAACCGAT--CC-AA
1 AAAACCGATAACCGAA
8577363 AAAACCGATAACCGAA
1 AAAACCGATAACCGAA
8577379 AAAACCCGA-AACCGA
1 AAAA-CCGATAACCGA
8577394 TTTAGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
15 2 0.07
16 12 0.44
17 4 0.15
ACGTcount: A:0.55, C:0.30, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAACCGATAACCGAA
Found at i:8581109 original size:27 final size:27
Alignment explanation
Indices: 8581063--8581122 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
8581053 TTAAAATGTA
* *
8581063 AATAAAATAAATACATATTTATACTAG
1 AATAAAATAAACACACATTTATACTAG
*
8581090 AATAAAATAAACACACATTTATACTGG
1 AATAAAATAAACACACATTTATACTAG
8581117 AATAAA
1 AATAAA
8581123 TATGTACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (27 bp):
AATAAAATAAACACACATTTATACTAG
Found at i:8581513 original size:27 final size:26
Alignment explanation
Indices: 8581449--8581515 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 26
8581439 TGAAATCCCT
**
8581449 GATGGAATTTAATTCCATCAAATGAGG
1 GATGGAA-TTAATTCCATCAAAAAAGG
* *
8581476 GA--AAATTAATTCCATCAAAAAATG
1 GATGGAATTAATTCCATCAAAAAAGG
8581500 GATGGAATTCAATTCC
1 GATGGAATT-AATTCC
8581516 CTTGTTGGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 18 0.56
25 2 0.06
26 4 0.12
27 8 0.25
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (26 bp):
GATGGAATTAATTCCATCAAAAAAGG
Found at i:8581916 original size:33 final size:33
Alignment explanation
Indices: 8581875--8581941 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
8581865 TCGGGTCGGA
8581875 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGT
* *
8581908 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGT
8581941 T
1 T
8581942 CGGGTTTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (33 bp):
TTTTTTAAGTGTGATATTCGGGTCGAGTCAGGT
Found at i:8582090 original size:89 final size:91
Alignment explanation
Indices: 8581982--8582177 Score: 315
Period size: 89 Copynumber: 2.1 Consensus size: 91
8581972 CCGAAAATAT
* *
8581982 ATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTA-T
1 ATAT-ATTCGGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTGTATTATT
8582046 T-TCGGGTCGGGTCAGATTTCTAATTC
65 TGTCGGGTCGGGTCAGATTTCTAATTC
8582072 ATATATTCGGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTGTATTATTT
1 ATATATTCGGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTGTATTATTT
8582137 AGGGTCGGGTCGGGTCAGATTTCTAATTC
66 ---GTCGGGTCGGGTCAGATTTCTAATTC
*
8582166 ATATATTTGGGT
1 ATATATTCGGGT
8582178 TGGGTAGGGT
Statistics
Matches: 98, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
89 56 0.57
90 6 0.06
94 36 0.37
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (91 bp):
ATATATTCGGGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTGTATTATTT
GTCGGGTCGGGTCAGATTTCTAATTC
Found at i:8582399 original size:247 final size:241
Alignment explanation
Indices: 8581665--8582403 Score: 841
Period size: 247 Copynumber: 3.0 Consensus size: 241
8581655 CGGGTTTTTT
* * * *
8581665 TAAGTGTGATATTCAGGTCGGGTCGGGTTCGGGTATAGGGTGAAAAAAATGGACCGACCCGAAAA
1 TAAGTATGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACGGACCGACCCGAAAA
*
8581730 TATATATAATTCAGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATT
66 TATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATT
* * * *
8581795 ATTTCGGGTCGGGTCGGGTTGGATTTCTAATTCATATATTCGGGTCGGGTTGGGTGAAACTTTAT
131 ATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTAT
* *
8581860 TTTTTTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGAGTCAGGTTTTTT
196 TTTTTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTC-AG--A----TTTC
* *
8581913 TAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAATCAGACCGACCCGAAA
1 TAAGTATGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAA-CGGACCGACCCGAAA
8581978 ATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTAT
65 ATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTAT
* * *
8582043 TA--TT---TCGGGTCGGGTCAGATTTCTAATTCATATATTCGGGTCAGGTCGGATTAAGTCACT
130 TATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAA---ACT
***** *** * **
8582103 GTT-TTTATTAAATAAAAAT-AATTTTGTATTATTTAGGGTCG--GGTCGGGTCAGATTTC
192 -TTATTT-TT---TTCGGGTCGGGTTT-T-TTA---AGTGT-GATATTCGGGTCAGATTTC
* * * * *
8582160 TAATTCAT-ATATTTGGGTTGGGTAGGGTTCGGGTTTAGGGTGAAAAAAACCGGATCGACCCGAA
1 TAAGT-ATGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAA-CGGACCGACCCGAA
* *
8582224 AATATATATAATTCGGGTCGGGTCGGATTAAGTCACTATTTTTATTAAATAAAAATACTTTTTTA
64 AATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTA
8582289 TTATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTT
129 TTATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTT
8582354 ATTTTGTTTGGGCCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGAT
194 ATTTT-TTT----CGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGAT
8582404 CGGGTCGGGT
Statistics
Matches: 413, Mismatches: 48, Indels: 61
0.79 0.09 0.12
Matches are distributed among these distances:
244 44 0.11
245 1 0.00
246 5 0.01
247 141 0.34
248 55 0.13
249 91 0.22
250 5 0.01
251 7 0.02
252 50 0.12
253 2 0.00
254 7 0.02
255 4 0.01
256 1 0.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.37
Consensus pattern (241 bp):
TAAGTATGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACGGACCGACCCGAAAA
TATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATT
ATTTTGGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTAT
TTTTTTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAGATTTC
Found at i:8595774 original size:15 final size:18
Alignment explanation
Indices: 8595736--8595811 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
8595726 AAAATAGGTT
8595736 TTTATTAATGATTACTTTA
1 TTTATTAATGATTA-TTTA
*
8595755 TTTATTAATGATTTTATTA
1 TTTATTAATGATTAT-TTA
* * *
8595774 TTT-TTATTAATTATTTT
1 TTTATTAATGATTATTTA
* *
8595791 TTTATTAATTATTAATTA
1 TTTATTAATGATTATTTA
8595809 TTT
1 TTT
8595812 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
17 5 0.11
18 22 0.48
19 19 0.41
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTATTAATGATTATTTA
Found at i:8595795 original size:40 final size:42
Alignment explanation
Indices: 8595734--8595821 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 42
8595724 AAAAAATAGG
8595734 TTTTTATTAATGATTACTTTA-T-TTATTAATGATTTTATTA
1 TTTTTATTAATGATTACTTTATTATTATTAATGATTTTATTA
* ** * *
8595774 TTTTTATTAATTATTTTTTTATTAATTATTAATTATTTTTTTA
1 TTTTTATTAATGATTACTTTATT-ATTATTAATGATTTTATTA
8595817 TTTTT
1 TTTTT
8595822 TTATTACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 18 0.45
41 1 0.03
43 21 0.52
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (42 bp):
TTTTTATTAATGATTACTTTATTATTATTAATGATTTTATTA
Found at i:8595802 original size:22 final size:21
Alignment explanation
Indices: 8595756--8595818 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 21
8595746 ATTACTTTAT
* * *
8595756 TTATTAATGATTTTATTATTT
1 TTATTAATTATTTTTTTATTA
8595777 TTATTAATTATTTTTTTATTAA
1 TTATTAATTATTTTTTTATT-A
8595799 TTATTAATTATTTTTTTATT
1 TTATTAATTATTTTTTTATT
8595819 TTTTTATTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTAATTATTTTTTTATTA
Found at i:8595812 original size:19 final size:18
Alignment explanation
Indices: 8595734--8595812 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 18
8595724 AAAAAATAGG
*
8595734 TTTTTATTAATGATTACT
1 TTTTTATTAATGATTAAT
*
8595752 TTATTTATTAATGATTTTAT
1 TT-TTTATTAATGA-TTAAT
* * * *
8595772 TATTT-TTATTAATTATT
1 TTTTTATTAATGATTAAT
*
8595789 TTTTTATTAATTATTAAT
1 TTTTTATTAATGATTAAT
8595807 TATTTT
1 T-TTTT
8595813 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
17 7 0.15
18 17 0.37
19 18 0.39
20 4 0.09
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTATTAATGATTAAT
Found at i:8595818 original size:15 final size:16
Alignment explanation
Indices: 8595768--8595804 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
8595758 ATTAATGATT
8595768 TTATTATTTTTATTAA
1 TTATTATTTTTATTAA
8595784 TTATT-TTTTTATTAA
1 TTATTATTTTTATTAA
8595799 TTATTA
1 TTATTA
8595805 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTTTTATTAA
Found at i:8598435 original size:21 final size:22
Alignment explanation
Indices: 8598410--8598451 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8598400 TATATTATCA
*
8598410 ATAAAATATAT-AAATAAATAC
1 ATAAAATATATGAAAAAAATAC
*
8598431 ATAAATTATATGAAAAAAATA
1 ATAAAATATATGAAAAAAATA
8598452 AAATTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAAATATATGAAAAAAATAC
Found at i:8599142 original size:2 final size:2
Alignment explanation
Indices: 8599135--8599166 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8599125 AAAGCTCACT
8599135 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
8599167 AACGTTGATC
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):
TA
Found at i:8601403 original size:22 final size:22
Alignment explanation
Indices: 8601376--8601417 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8601366 TTAGTATTTA
8601376 AAATGCTAATTCTGAAGAAGGT
1 AAATGCTAATTCTGAAGAAGGT
*
8601398 AAATGCTATTTCTGAAGAAG
1 AAATGCTAATTCTGAAGAAG
8601418 ATAGGATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (22 bp):
AAATGCTAATTCTGAAGAAGGT
Found at i:8604114 original size:21 final size:21
Alignment explanation
Indices: 8604088--8604155 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
8604078 GACATTTCGC
8604088 TGAAAATACTTAACCTTTTGA
1 TGAAAATACTTAACCTTTTGA
* * * **
8604109 TTAAAAGACATGTCCTTTTGA
1 TGAAAATACTTAACCTTTTGA
*
8604130 TGAAAAGT-CTTAACCTTTTCA
1 TGAAAA-TACTTAACCTTTTGA
8604151 TGAAA
1 TGAAA
8604156 TGATTTAATC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACTTAACCTTTTGA
Found at i:8604163 original size:21 final size:21
Alignment explanation
Indices: 8604122--8604175 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
8604112 AAAGACATGT
*
8604122 CCTTTTGATGAAAAGTCTTAA
1 CCTTTTCATGAAAAGTCTTAA
*
8604143 CCTTTTCATGAAATGAT-TTAA
1 CCTTTTCATGAAAAG-TCTTAA
*
8604164 TCTTTTCATGAA
1 CCTTTTCATGAA
8604176 GAGAATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
CCTTTTCATGAAAAGTCTTAA
Found at i:8614318 original size:21 final size:23
Alignment explanation
Indices: 8614292--8614338 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8614282 TTGTTTCAAG
*
8614292 TGTTTTAGT-TT-TATTTTTCTC
1 TGTTTTAGTGTTATATTTTTCCC
*
8614313 TGTTTTGGTGTTATATTTTTCCC
1 TGTTTTAGTGTTATATTTTTCCC
8614336 TGT
1 TGT
8614339 AGTATTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 2 0.09
23 12 0.55
ACGTcount: A:0.09, C:0.11, G:0.15, T:0.66
Consensus pattern (23 bp):
TGTTTTAGTGTTATATTTTTCCC
Found at i:8617523 original size:17 final size:18
Alignment explanation
Indices: 8617501--8617540 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8617491 TAGAATTAGG
8617501 ATTTAGA-TTTTTTAGAA
1 ATTTAGATTTTTTTAGAA
*
8617518 ATTTAGATTTTTTTATAA
1 ATTTAGATTTTTTTAGAA
8617536 ATTTA
1 ATTTA
8617541 ATAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTTAGATTTTTTTAGAA
Found at i:8619215 original size:14 final size:14
Alignment explanation
Indices: 8619196--8619225 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8619186 ATGATATGCA
8619196 TATATTATATAGAG
1 TATATTATATAGAG
8619210 TATATTATATAGAG
1 TATATTATATAGAG
8619224 TA
1 TA
8619226 AAAAGAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TATATTATATAGAG
Found at i:8623444 original size:27 final size:27
Alignment explanation
Indices: 8623414--8623470 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
8623404 AAAAATAATA
8623414 CCAGATGCAACTAAGATCCCACTTTCT
1 CCAGATGCAACTAAGATCCCACTTTCT
8623441 CCAGATGCAACTAAGATCCCACTTTCT
1 CCAGATGCAACTAAGATCCCACTTTCT
8623468 CCA
1 CCA
8623471 ACACTGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.25
Consensus pattern (27 bp):
CCAGATGCAACTAAGATCCCACTTTCT
Found at i:8626292 original size:48 final size:48
Alignment explanation
Indices: 8626236--8626327 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
8626226 AAACGGAGAT
8626236 ATCAGAAATCAAAACAAAATCCAGAACAGGTATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATCCAGAACAGGTATCAGAACAGAATCCAG
* * * ** * *
8626284 ATCAGAAATCACAACAGAATTCAGGTCATGTATCATAACAGAAT
1 ATCAGAAATCAAAACAAAATCCAGAACAGGTATCAGAACAGAAT
8626328 TCAAGTCGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATCCAGAACAGGTATCAGAACAGAATCCAG
Found at i:8626294 original size:24 final size:24
Alignment explanation
Indices: 8626236--8626303 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
8626226 AAACGGAGAT
*
8626236 ATCAGAAATCAAAACAAAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
* ** *
8626260 AACAGGTATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
*
8626284 ATCAGAAATCACAACAGAAT
1 ATCAGAAATCAAAACAGAAT
8626304 TCAGGTCATG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATCCAG
Found at i:8626318 original size:24 final size:23
Alignment explanation
Indices: 8626265--8626330 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
8626255 TCCAGAACAG
* *
8626265 GTATCAGAACAGAATCCAGATCA
1 GTATCACAACAGAATTCAGATCA
* *
8626288 GAAATCACAACAGAATTCAGGTCA
1 G-TATCACAACAGAATTCAGATCA
*
8626312 TGTATCATAACAGAATTCA
1 -GTATCACAACAGAATTCA
8626331 AGTCGGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 1 0.03
24 33 0.94
25 1 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (23 bp):
GTATCACAACAGAATTCAGATCA
Found at i:8626342 original size:24 final size:25
Alignment explanation
Indices: 8626267--8626342 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 25
8626257 CAGAACAGGT
* *
8626267 ATCAGAACAGAA-TCCAGATCA-GAA
1 ATCACAACAGAATTCAAG-TCAGGAA
* * *
8626291 ATCACAACAGAATTCAGGTCATG-T
1 ATCACAACAGAATTCAAGTCAGGAA
*
8626315 ATCATAACAGAATTCAAGTC-GGAA
1 ATCACAACAGAATTCAAGTCAGGAA
8626339 ATCA
1 ATCA
8626343 GATAAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
23 1 0.02
24 36 0.88
25 4 0.10
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (25 bp):
ATCACAACAGAATTCAAGTCAGGAA
Found at i:8632461 original size:2 final size:2
Alignment explanation
Indices: 8632454--8632480 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8632444 TTCTTCTTCT
8632454 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
8632481 TATGATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8635049 original size:24 final size:20
Alignment explanation
Indices: 8634992--8635069 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
8634982 TTTCCCTTGA
*
8634992 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
8635012 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
8635035 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
8635056 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
8635070 TAATTGTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:8635974 original size:22 final size:21
Alignment explanation
Indices: 8635921--8635990 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
8635911 CACCACAGCT
*
8635921 CATATAATTGCACCGAAGTGC
1 CATAGAATTGCACCGAAGTGC
*
8635942 CACGTAGAATTGCACCGGAGTGC
1 CA--TAGAATTGCACCGAAGTGC
*
8635965 GCATAGAATTGCACCGTAGTGC
1 -CATAGAATTGCACCGAAGTGC
8635987 CATA
1 CATA
8635991 TAATAATGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
21 6 0.14
22 18 0.42
23 17 0.40
24 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
CATAGAATTGCACCGAAGTGC
Found at i:8637057 original size:19 final size:19
Alignment explanation
Indices: 8637033--8637083 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
8637023 TATTACTGGG
8637033 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
8637052 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
8637071 ATGCATCGATGCA
1 ATGCATCGATGCA
8637084 CTAATTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:8637109 original size:83 final size:83
Alignment explanation
Indices: 8636968--8637148 Score: 217
Period size: 83 Copynumber: 2.2 Consensus size: 83
8636958 TTAATGAAGG
* * * *
8636968 TATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGTATTATTACTGGG
1 TATGCATCGATGCACTACTGATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAATGGA
*
8637033 ATGCATCGATGCA-TGCCT
66 ATGCATCGATGCACT-ACT
* * * *
8637051 TATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCCTTATTAAT
1 TATGCATCGATGCACT-ACTGATGCATCGATGCA-TAAAATGCATTCGATGTTGT-ATTATTAAT
8637113 GGAATGCATCGATGCACTACT
63 GGAATGCATCGATGCACTACT
8637134 TATGCATCGATGCAC
1 TATGCATCGATGCAC
8637149 AAATTGCATT
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
82 2 0.02
83 80 0.95
84 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (83 bp):
TATGCATCGATGCACTACTGATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAATGGA
ATGCATCGATGCACTACT
Found at i:8637120 original size:64 final size:64
Alignment explanation
Indices: 8637052--8637212 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 64
8637042 TGCATGCCTT
* * **
8637052 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGT-TTCCTTATTAATGG
1 ATGCATCGATGCACT-CCTTATGCATCGATGCACAAATTGCATTCGATGTATTCATT-TTAAAAG
8637115 A
64 A
* *
8637116 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATTTTAAAAGA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACAAATTGCATTCGATGTATTCATTTTAAAAGA
* *
8637180 GTGCATCGATGCACTACC-AATGCATCGATGCAC
1 ATGCATCGATGCACT-CCTTATGCATCGATGCAC
8637213 CTTCAAATAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 79 0.93
65 6 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACAAATTGCATTCGATGTATTCATTTTAAAAGA
Found at i:8641696 original size:23 final size:23
Alignment explanation
Indices: 8641670--8641733 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
8641660 CAGCTCATAT
8641670 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
8641693 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
8641716 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
8641734 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:8641926 original size:103 final size:103
Alignment explanation
Indices: 8641744--8641966 Score: 419
Period size: 103 Copynumber: 2.2 Consensus size: 103
8641734 TATAATAATG
*
8641744 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCGTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
8641809 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
* *
8641847 TCTCGAAGGACCATATATCACTCCGTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCGTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
8641912 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
8641950 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
8641967 GACCCTCGAC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCGTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:8642824 original size:64 final size:64
Alignment explanation
Indices: 8642716--8642940 Score: 233
Period size: 64 Copynumber: 3.5 Consensus size: 64
8642706 TAATGAAGGT
* ** * * * *
8642716 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCAATGCACAAATTGCATTCGATGTT-TCATTATTAATGGG
* * *
8642780 ATGCATCGATGCA-TGCCTTATGCATCAATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCAATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
* * **
8642844 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCAATGCACAAATTGCATTCGATGT-TTCATTATTAATGGG
** *
8642907 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCAATGCAC
8642941 CTTCAAACAA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 4 0.03
64 128 0.93
65 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCAATGCACAAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:8662467 original size:18 final size:19
Alignment explanation
Indices: 8662444--8662482 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8662434 TTCATAGGGA
8662444 TTTTGGT-CCGGAGGGGGG
1 TTTTGGTCCCGGAGGGGGG
8662462 TTTTGGTCGCCGGAGGGGGG
1 TTTTGGTC-CCGGAGGGGGG
8662482 T
1 T
8662483 GAGGTCGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.05, C:0.13, G:0.54, T:0.28
Consensus pattern (19 bp):
TTTTGGTCCCGGAGGGGGG
Found at i:8662488 original size:19 final size:20
Alignment explanation
Indices: 8662451--8662489 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8662441 GGATTTTGGT
**
8662451 CCGGAGGGGGGTTTTGGTCG
1 CCGGAGGGGGGTTGAGGTCG
8662471 CCGGAGGGGGG-TGAGGTCG
1 CCGGAGGGGGGTTGAGGTCG
8662490 GGTGGAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.15, G:0.59, T:0.18
Consensus pattern (20 bp):
CCGGAGGGGGGTTGAGGTCG
Found at i:8670028 original size:8 final size:8
Alignment explanation
Indices: 8670005--8670039 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8669995 GAGTTGATAC
*
8670005 ATACATAC
1 ATACATAT
8670013 ATACATAT
1 ATACATAT
8670021 ATACATAT
1 ATACATAT
*
8670029 ATATATAT
1 ATACATAT
8670037 ATA
1 ATA
8670040 GACAAGATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
ATACATAT
Found at i:8670032 original size:12 final size:12
Alignment explanation
Indices: 8670001--8670035 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8669991 GCTAGAGTTG
*
8670001 ATACATACATAC
1 ATACATATATAC
8670013 ATACATATATAC
1 ATACATATATAC
*
8670025 ATATATATATA
1 ATACATATATA
8670036 TATAGACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (12 bp):
ATACATATATAC
Found at i:8672997 original size:33 final size:33
Alignment explanation
Indices: 8672955--8673077 Score: 210
Period size: 33 Copynumber: 3.7 Consensus size: 33
8672945 CAGGCATCAT
* * *
8672955 CACAAGCATGTATGAGGAGACATTTCCCATCGC
1 CACAAGCATGTATGAGGAAACATTACCCATCTC
8672988 CACAAGCATGTATGAGGAAACATTACCCATCTC
1 CACAAGCATGTATGAGGAAACATTACCCATCTC
8673021 CACAAGCATGTATGAGGAAACATTACCCATCTC
1 CACAAGCATGTATGAGGAAACATTACCCATCTC
*
8673054 CACAAGCATGTATGAAGAAACATT
1 CACAAGCATGTATGAGGAAACATT
8673078 GCCAATTGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (33 bp):
CACAAGCATGTATGAGGAAACATTACCCATCTC
Found at i:8673506 original size:60 final size:60
Alignment explanation
Indices: 8673413--8673871 Score: 361
Period size: 60 Copynumber: 7.6 Consensus size: 60
8673403 AATCCTGTGA
* ** * *
8673413 CCTTGACAGAAGAAATTCCTAGTATTCCGAGAACCTCAGGTGAAGAAACTCCAGCTATTC
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAGGTGAAGAAACTCCAGCCATTC
* * * * *
8673473 CCTTGGCCGAAGAAACCCCTAGTTTTCCCAGAACCTTAGGTGAAGAAACTCTAGCCA-AC
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAGGTGAAGAAACTCCAGCCATTC
* ** * * * * *
8673532 CCTGTGGCAGAGGAAACTTCTAGTGTTGTTCCCACAACCTTAGGTGAAGAAACTCCAGCTATTT
1 CCT-TGGCAGAAGAAACCCCTA--G-TATTCCCAGAACCTCAGGTGAAGAAACTCCAGCCATTC
* * * * * * ** * * ****
8673596 CCTTGGCGGAGGAAACCACTTGTATTCCCAGAAACT-TGACCGATGAAACGCCAAATGTTC
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAG-GTGAAGAAACTCCAGCCATTC
* ** * * * *
8673656 CTCTT-GCCGAAGCTACCTCTAGTATTTCAAGAACCTC-GTGTGAAGAAACACCAGCCATTC
1 C-CTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAG-GTGAAGAAACTCCAGCCATTC
* * ** **
8673716 CCCTGGCAGAAGAACCCCCTAGTATTCCCAGAACCTTGGGTGAAGAAACTCTTGCCATTC
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAGGTGAAGAAACTCCAGCCATTC
* * * *
8673776 CCTTGGCAGAAGAAACCCCTAATATTCCCAGAACC-CTGAGTGAAGAACCACCAGCCATTC
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAG-GTGAAGAAACTCCAGCCATTC
*
8673836 TCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCT
1 CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCT
8673872 TGAGCGCAGA
Statistics
Matches: 310, Mismatches: 77, Indels: 23
0.76 0.19 0.06
Matches are distributed among these distances:
59 8 0.03
60 248 0.80
61 5 0.02
62 1 0.00
63 45 0.15
64 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (60 bp):
CCTTGGCAGAAGAAACCCCTAGTATTCCCAGAACCTCAGGTGAAGAAACTCCAGCCATTC
Found at i:8673881 original size:36 final size:36
Alignment explanation
Indices: 8673841--8673980 Score: 235
Period size: 36 Copynumber: 3.9 Consensus size: 36
8673831 CATTCTCTTG
*
8673841 GCAGAAGAAACCCCTAGTATTCCCAGAACCTTGAGC
1 GCAGAAGAAACCCCTAGTATTCCCAGAACCTTGAGT
*
8673877 GCAGAAGAAACCCCTAGTGTTCCCAGAACCTTGAGT
1 GCAGAAGAAACCCCTAGTATTCCCAGAACCTTGAGT
* **
8673913 GCAGAAGAAACCCCTAGTGTTTGCAGAACCTTGAGT
1 GCAGAAGAAACCCCTAGTATTCCCAGAACCTTGAGT
8673949 GCAGAAGAAACCCCTAGTATTCCCAGAACCTT
1 GCAGAAGAAACCCCTAGTATTCCCAGAACCTT
8673981 AGGCGAAGAC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (36 bp):
GCAGAAGAAACCCCTAGTATTCCCAGAACCTTGAGT
Found at i:8674364 original size:33 final size:32
Alignment explanation
Indices: 8674259--8674364 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 32
8674249 ACTCCAACTA
* * * * *
8674259 CCACAATCTTGGGTGATGAAACTGCAACCAGTC
1 CCACAACCTTGGGTGAAGAAGCTTCAACTA-TC
* *
8674292 CCACAACCTTTGGTGAAGAATCTTCAACTATC
1 CCACAACCTTGGGTGAAGAAGCTTCAACTATC
* * * *
8674324 CTGACAACCTTGGGTGAGGAAGCTTCATCTGTTC
1 C-CACAACCTTGGGTGAAGAAGCTTCAACT-ATC
8674358 CCACAAC
1 CCACAAC
8674365 TAATGGCGAG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
32 3 0.05
33 52 0.90
34 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (32 bp):
CCACAACCTTGGGTGAAGAAGCTTCAACTATC
Found at i:8676100 original size:2 final size:2
Alignment explanation
Indices: 8676095--8676143 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
8676085 GAGGTTGTTT
* * *
8676095 TA TA TA TA TA TA TA TA TA TG T- TG T- TT 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
8676135 TA TA TA TA T
1 TA TA TA TA T
8676144 GTTAAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:8676117 original size:26 final size:26
Alignment explanation
Indices: 8676088--8676139 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8676078 ATGAAGAGAG
8676088 GTTGTTTTATATATATATATATATAT
1 GTTGTTTTATATATATATATATATAT
8676114 GTTGTTTTATATATATATATATATAT
1 GTTGTTTTATATATATATATATATAT
8676140 ATATGTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (26 bp):
GTTGTTTTATATATATATATATATAT
Found at i:8678821 original size:31 final size:31
Alignment explanation
Indices: 8678783--8678843 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
8678773 CAAACGGCCA
8678783 GGGACCATATTACAAACAGACTAAATGTTGG
1 GGGACCATATTACAAACAGACTAAATGTTGG
* **
8678814 GGGACCATATTGCAAATGGACTAAATGTTG
1 GGGACCATATTACAAACAGACTAAATGTTG
8678844 AGGATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (31 bp):
GGGACCATATTACAAACAGACTAAATGTTGG
Found at i:8706740 original size:21 final size:20
Alignment explanation
Indices: 8706714--8706812 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
8706704 ATCAGTTTCC
8706714 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
8706735 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
8706754 ACAAATTCGCATTGCGATTTTCCA
1 A-AAA-TCGCAACGCGATTTT--G
* *
8706778 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
8706798 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
8706813 ACACATAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.31
21 27 0.44
22 11 0.18
23 3 0.05
24 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:8706822 original size:20 final size:20
Alignment explanation
Indices: 8706778--8706828 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
8706768 CGATTTTCCA
* *
8706778 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAACATC
8706798 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAACATC
8706817 ATAAATCGCAAC
1 A-AAATCGCAAC
8706829 TCGTATCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAACATC
Found at i:8706843 original size:40 final size:39
Alignment explanation
Indices: 8706779--8707005 Score: 196
Period size: 40 Copynumber: 5.7 Consensus size: 39
8706769 GATTTTCCAA
* * *
8706779 AAATCGCAACGCGAATAT-GAAAATCGCAACGCG-AACACAT
1 AAATCGCAACGCG--TATCGTAAATCGCAACGCGTATC-CGT
* *
8706819 AAATCGCAACTCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAT-CGTAAATCGCAACGCGTATCCGT
* *
8706859 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAT-CGTAAATCGCAACGCGTATCCGT
* *
8706899 ATATCGCAACGCGTATCGTAAATCGC-ACG-ATAATCCGT
1 AAATCGCAACGCGTATCGTAAATCGCAACGCGT-ATCCGT
** *
8706937 AAATCGCAACG-AAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATC-GTAAATCGCAACGCGT-ATCCGT
* * *
8706976 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGTATC-GTAAATCGCAAC
8707006 ACTGAAATTT
Statistics
Matches: 161, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
37 4 0.02
38 30 0.19
39 32 0.20
40 93 0.58
41 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (39 bp):
AAATCGCAACGCGTATCGTAAATCGCAACGCGTATCCGT
Found at i:8706863 original size:60 final size:58
Alignment explanation
Indices: 8706799--8707000 Score: 187
Period size: 60 Copynumber: 3.4 Consensus size: 58
8706789 GCGAATATGA
*
8706799 AAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAAC-CGTAAATCGCAA-TCGTATCCGTAAATCGCAACGTGTATCCGT
*** * *
8706859 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTAT-CGT
1 AAATCGCAACGCG-AACCGTAAATCGCAAT-CGTATCCGTAAATCGCAACGTGTATCCGT
** * * *
8706918 AAATCGC-ACGATAATCCGTAAATCGCAA-CGAAATCTGTAAATCGCAACGAT-AATCCGT
1 AAATCGCAACGCGAA-CCGTAAATCGCAATCG-TATCCGTAAATCGCAACG-TGTATCCGT
* *
8706976 AAATCGCAACGAGAATCTGTAAATC
1 AAATCGCAACGCGAA-CCGTAAATC
8707001 ACAACACTGA
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
56 2 0.02
57 18 0.15
58 24 0.21
59 26 0.22
60 46 0.39
61 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (58 bp):
AAATCGCAACGCGAACCGTAAATCGCAATCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:8706986 original size:20 final size:20
Alignment explanation
Indices: 8706833--8707005 Score: 155
Period size: 20 Copynumber: 8.8 Consensus size: 20
8706823 CGCAACTCGT
*
8706833 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
8706853 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
**
8706873 ATGGGTAAATCGCAATGCG-T-
1 ATCCGTAAATCGCAA--CGATA
* *
8706893 ATCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
8706913 AT-CGTAAATCGC-ACGATA
1 ATCCGTAAATCGCAACGATA
8706931 ATCCGTAAATCGCAACGA-A
1 ATCCGTAAATCGCAACGATA
*
8706950 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
8706970 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
8706990 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
8707006 ACTGAAATTT
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
17 1 0.01
18 7 0.05
19 37 0.28
20 83 0.63
22 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:8709359 original size:118 final size:118
Alignment explanation
Indices: 8709227--8709454 Score: 447
Period size: 118 Copynumber: 1.9 Consensus size: 118
8709217 ACGGATAGCG
8709227 GAATTGGATTGGGAACGTCGAAAAATGTAAGGATAGGCATACTCGGTCAAAGTCAAAGGTCGTTT
1 GAATTGGATTGGGAACGTCGAAAAATGTAAGGATAGGCATACTCGGTCAAAGTCAAAGGTCGTTT
*
8709292 AATGCCCAGTCAAAGCCAGTCAAAGTTTTGGTCAACAGTGGTCAACGCGGATA
66 AATGCCCAGTCAAAGCCAGTCAAAGTTTTAGTCAACAGTGGTCAACGCGGATA
8709345 GAATTGGATTGGGAACGTCGAAAAATGTAAGGATAGGCATACTCGGTCAAAGTCAAAGGTCGTTT
1 GAATTGGATTGGGAACGTCGAAAAATGTAAGGATAGGCATACTCGGTCAAAGTCAAAGGTCGTTT
8709410 AATGCCCAGTCAAAGCCAGTCAAAGTTTTAGTCAACAGTGGTCAA
66 AATGCCCAGTCAAAGCCAGTCAAAGTTTTAGTCAACAGTGGTCAA
8709455 AACGCCGGTC
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (118 bp):
GAATTGGATTGGGAACGTCGAAAAATGTAAGGATAGGCATACTCGGTCAAAGTCAAAGGTCGTTT
AATGCCCAGTCAAAGCCAGTCAAAGTTTTAGTCAACAGTGGTCAACGCGGATA
Found at i:8709488 original size:18 final size:18
Alignment explanation
Indices: 8709478--8709513 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8709468 GTCAACGAGT
8709478 CGAGTCGGGTCGGGTCAA
1 CGAGTCGGGTCGGGTCAA
*
8709496 CGGGTCGGGTCGGGTCAA
1 CGAGTCGGGTCGGGTCAA
8709514 GTTATGACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.22, G:0.47, T:0.17
Consensus pattern (18 bp):
CGAGTCGGGTCGGGTCAA
Found at i:8709493 original size:23 final size:23
Alignment explanation
Indices: 8709467--8709511 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8709457 CGCCGGTCAC
8709467 GGTCAACGAGTCGAGTCGGGTCG
1 GGTCAACGAGTCGAGTCGGGTCG
* *
8709490 GGTCAACGGGTCGGGTCGGGTC
1 GGTCAACGAGTCGAGTCGGGTC
8709512 AAGTTATGAC
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:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (23 bp):
GGTCAACGAGTCGAGTCGGGTCG
Found at i:8722114 original size:31 final size:31
Alignment explanation
Indices: 8722076--8722184 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
8722066 GAACCTCAAT
* * *
8722076 AACTGTCCATAGGTCCCGTAGAACCTAGGTA
1 AACTGTCCATATGTCCCGTAGAACATAGATA
* *
8722107 AACTGTCCATATGTTCCTTAGAACATAGATA
1 AACTGTCCATATGTCCCGTAGAACATAGATA
* * *
8722138 TACTGTCCATATGTCCCG-AAAGACATAGGTA
1 AACTGTCCATATGTCCCGTAGA-ACATAGATA
*
8722169 ATTCTGTCCATATGTC
1 A-ACTGTCCATATGTC
8722185 TCGAAAGACA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 2 0.03
31 49 0.77
32 13 0.20
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGTAGAACATAGATA
Found at i:8722233 original size:32 final size:32
Alignment explanation
Indices: 8722140--8722215 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
8722130 CATAGATATA
8722140 CTGTCCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATT
*
8722172 CTGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCGAAAGACATAGGTAATT
*
8722204 TTGTCCATATGT
1 CTGTCCATATGT
8722216 TCTTTAGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (32 bp):
CTGTCCATATGTCCCGAAAGACATAGGTAATT
Found at i:8723977 original size:23 final size:23
Alignment explanation
Indices: 8723951--8724000 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
8723941 TTTGTTTCCT
8723951 TTAAAATTTTATAAA-TTCATCTC
1 TTAAAATTTTA-AAAGTTCATCTC
*
8723974 TTAAAATTTTAAAAGTTCGTCTC
1 TTAAAATTTTAAAAGTTCATCTC
8723997 TTAA
1 TTAA
8724001 TATAAGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (23 bp):
TTAAAATTTTAAAAGTTCATCTC
Found at i:8730268 original size:23 final size:21
Alignment explanation
Indices: 8730237--8730315 Score: 56
Period size: 23 Copynumber: 3.6 Consensus size: 21
8730227 TATAATTTAA
*
8730237 TTTATATGACTATGATAGTTGTT
1 TTTAGATGA-TAT-ATAGTTGTT
*
8730260 TTTAGATGATATA-A-TT-TAA
1 TTTAGATGATATATAGTTGT-T
*
8730279 TTTATATGATTATTATAGTTGTT
1 TTTAGATGA-TA-TATAGTTGTT
8730302 TTTAGATGCATATA
1 TTTAGATG-ATATA
8730316 CATTACGAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
18 1 0.02
19 10 0.23
20 3 0.07
21 3 0.07
22 6 0.14
23 19 0.43
24 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTAGATGATATATAGTTGTT
Found at i:8730283 original size:42 final size:42
Alignment explanation
Indices: 8730224--8730315 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
8730214 ATTTAACTAC
8730224 TGATATAATTTAATTTATATGACTATGATAGTTGTTTTTAGA
1 TGATATAATTTAATTTATATGACTATGATAGTTGTTTTTAGA
* *
8730266 TGATATAATTTAATTTATATGATTATTATAGTTGTTTTTAGA
1 TGATATAATTTAATTTATATGACTATGATAGTTGTTTTTAGA
8730308 TGCATATA
1 TG-ATATA
8730316 CATTACGAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 42 0.89
43 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (42 bp):
TGATATAATTTAATTTATATGACTATGATAGTTGTTTTTAGA
Found at i:8730287 original size:19 final size:19
Alignment explanation
Indices: 8730224--8730288 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
8730214 ATTTAACTAC
8730224 TGATATAATTTAATTTATA
1 TGATATAATTTAATTTATA
* *
8730243 TGACTATGATAGTTGT-TTTTAGA
1 TGA-TAT-A-A-TT-TAATTTATA
8730266 TGATATAATTTAATTTATA
1 TGATATAATTTAATTTATA
8730285 TGAT
1 TGAT
8730289 TATTATAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 1 0.03
19 14 0.39
20 4 0.11
21 2 0.06
22 4 0.11
23 10 0.28
24 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (19 bp):
TGATATAATTTAATTTATA
Found at i:8742461 original size:36 final size:36
Alignment explanation
Indices: 8742409--8742478 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
8742399 TAGGTTCATA
*
8742409 AGGAATTACCAGCTTGATCGGTGCTGAACCTGTATT
1 AGGAATTACCAGCTTGATCGGAGCTGAACCTGTATT
*
8742445 AGGAATTACCATCTTGATCGGAGCTGAACCTGTA
1 AGGAATTACCAGCTTGATCGGAGCTGAACCTGTA
8742479 GAGACTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATCGGAGCTGAACCTGTATT
Found at i:8743092 original size:12 final size:13
Alignment explanation
Indices: 8743062--8743094 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8743052 AATTAGATGC
*
8743062 ACTTAATTAAATA
1 ACTTAAATAAATA
8743075 ACTTAAATAAAT-
1 ACTTAAATAAATA
8743087 ACTTAAAT
1 ACTTAAAT
8743095 TTTATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTAAATAAATA
Found at i:8743555 original size:22 final size:21
Alignment explanation
Indices: 8743530--8743571 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
8743520 CTTCAACTAA
8743530 CCAAAATT-AATCCACAAACAAC
1 CCAAAATTCAA-CCA-AAACAAC
*
8743552 CCAATATTCAACCAAAACAA
1 CCAAAATTCAACCAAAACAA
8743572 TTTAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (21 bp):
CCAAAATTCAACCAAAACAAC
Found at i:8750043 original size:12 final size:12
Alignment explanation
Indices: 8750028--8750072 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
8750018 CAAATTTCTT
*
8750028 TATTTATATATT
1 TATTTATATATA
8750040 TATTTATATATA
1 TATTTATATATA
*
8750052 TATTTATTTATA
1 TATTTATATATA
*
8750064 TATATATAT
1 TATTTATAT
8750073 TGCTTCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTATATATA
Found at i:8750045 original size:16 final size:16
Alignment explanation
Indices: 8750021--8750070 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
8750011 CCTATAGCAA
* *
8750021 ATTTCTTTATTTATAT
1 ATTTATTTATATATAT
8750037 ATTTATTTATATATAT
1 ATTTATTTATATATAT
8750053 ATTTATTTATATATAT
1 ATTTATTTATATATAT
8750069 AT
1 AT
8750071 ATTGCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTATTTATATATAT
Found at i:8750316 original size:6 final size:6
Alignment explanation
Indices: 8750307--8750332 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8750297 AGTCAAATCA
8750307 TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TT
8750333 TCCTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATAT
Found at i:8751537 original size:28 final size:30
Alignment explanation
Indices: 8751497--8751558 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
8751487 AATTTAGTTA
8751497 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
8751525 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
8751555 ATTA
1 ATTA
8751559 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:8752016 original size:17 final size:17
Alignment explanation
Indices: 8751994--8752054 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
8751984 GATAATTTCC
8751994 GTTTAAAAAAATATTGT
1 GTTTAAAAAAATATTGT
* *
8752011 GTTTAAAAATATTTAGTGTT
1 GTTTAAAAA-A-ATATTG-T
*
8752031 GTTTTAAAAAAATATTTT
1 G-TTTAAAAAAATATTGT
8752049 GTTTAA
1 GTTTAA
8752055 TTTATATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 14 0.40
18 3 0.09
19 7 0.20
20 3 0.09
21 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
GTTTAAAAAAATATTGT
Found at i:8752058 original size:22 final size:23
Alignment explanation
Indices: 8752015--8752058 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8752005 TATTGTGTTT
**
8752015 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
8752038 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
8752059 TATTATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:8752478 original size:243 final size:243
Alignment explanation
Indices: 8752050--8752537 Score: 958
Period size: 243 Copynumber: 2.0 Consensus size: 243
8752040 AAATATTTTG
8752050 TTTAATTTATATTATATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCC
1 TTTAATTTATATTATATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCC
*
8752115 AACGCATTATCTAGTGAAATAATTATTTTGAGAACATTATCTCGACAGTTTTGCCTAATAAATTT
66 AACGCATTATCTAGTGAAATAATTATTTCGAGAACATTATCTCGACAGTTTTGCCTAATAAATTT
8752180 GTTTGATATTTTTAAAAATAAAAAATATTATCAAACTAATCATTTTTATTAGTAATCATTACTAA
131 GTTTGATATTTTTAAAAATAAAAAATATTATCAAACTAATCATTTTTATTAGTAATCATTACTAA
8752245 ATGATTAGTATCAAATCTAAATCATTAAATATTTATAATAAATAATTA
196 ATGATTAGTATCAAATCTAAATCATTAAATATTTATAATAAATAATTA
8752293 TTTAATTTATATTATATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCC
1 TTTAATTTATATTATATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCC
*
8752358 AACGCATTATCTCGTGAAATAATTATTTCGAGAACATTATCTCGACAGTTTTGCCTAATAAATTT
66 AACGCATTATCTAGTGAAATAATTATTTCGAGAACATTATCTCGACAGTTTTGCCTAATAAATTT
8752423 GTTTGATATTTTTAAAAATAAAAAATATTATCAAACTAATCATTTTTATTAGTAATCATTACTAA
131 GTTTGATATTTTTAAAAATAAAAAATATTATCAAACTAATCATTTTTATTAGTAATCATTACTAA
8752488 ATGATTAGTATCAAATCTAAATCATTAAATATTTATAATAAATAATTA
196 ATGATTAGTATCAAATCTAAATCATTAAATATTTATAATAAATAATTA
8752536 TT
1 TT
8752538 AATAATCATG
Statistics
Matches: 243, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 243 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (243 bp):
TTTAATTTATATTATATGTGTAAATTAGTAAGGAGTAAAAATTAATTGAATGAAATAATCCGGCC
AACGCATTATCTAGTGAAATAATTATTTCGAGAACATTATCTCGACAGTTTTGCCTAATAAATTT
GTTTGATATTTTTAAAAATAAAAAATATTATCAAACTAATCATTTTTATTAGTAATCATTACTAA
ATGATTAGTATCAAATCTAAATCATTAAATATTTATAATAAATAATTA
Found at i:8755631 original size:49 final size:49
Alignment explanation
Indices: 8755514--8755786 Score: 358
Period size: 49 Copynumber: 5.6 Consensus size: 49
8755504 TTTAATTTAG
* * * * *
8755514 TAATGATTTGCTAATCATGATT--TAATAATGAATTTA-TATTTAAAATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTA-TTAATATT
* *
8755561 ATAATAATTAT-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 -TAATGATT-TGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
8755611 TAATGATTTGATAGTAATGATTAGTAATAATAAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
8755660 TAATGATTT-AGTAGTAATGATTAGTAATAATTAAATTATTATTAATATT
1 TAATGATTTGA-TAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * *
8755709 TAATGATTTGGTAGTAATGATTAGTAATAATTAAATTATTGTTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
8755758 TAATGATTTGATAGTAATGATTTAGTAAT
1 TAATGATTTGATAGTAATGA-TTAGTAAT
8755787 TATTAGTAAT
Statistics
Matches: 204, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
48 18 0.09
49 156 0.76
50 28 0.14
51 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (49 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:8756021 original size:19 final size:18
Alignment explanation
Indices: 8755997--8756053 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
8755987 CATAAGAATA
8755997 ATTTAATAATGATTTTAAT
1 ATTT-ATAATGATTTTAAT
*
8756016 A-TT-TAATGA-TTTGAT
1 ATTTATAATGATTTTAAT
8756031 GATTTAGTAATGATTTTAAT
1 -ATTTA-TAATGATTTTAAT
8756051 ATT
1 ATT
8756054 ATGATTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 2 0.06
18 2 0.06
19 10 0.32
20 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTATAATGATTTTAAT
Done.