Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002268.1 Hibiscus syriacus cultivar Beakdansim tig00004613_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: 128637
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3466 original size:30 final size:31
Alignment explanation
Indices: 3414--3476 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
3404 TCACAGCCTG
*
3414 CAAAAGTCGAGTCAATTAGAAATTCTGCATT
1 CAAAAGTCGAGTCAATTAGAAATTCGGCATT
3445 CAAAAGTCGAGTCAA-TAGAAATTCGGCATT
1 CAAAAGTCGAGTCAATTAGAAATTCGGCATT
3475 CA
1 CA
3477 CAAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (31 bp):
CAAAAGTCGAGTCAATTAGAAATTCGGCATT
Found at i:4697 original size:28 final size:28
Alignment explanation
Indices: 4638--4691 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4628 TCAGTGACCT
* * *
4638 AAAA-ACTAATTTATTAAGTTTAGTGAA
1 AAAATACTAATGTATAAAGTTCAGTGAA
4665 AAAATACTAATGTATAAAGTTCAGTGA
1 AAAATACTAATGTATAAAGTTCAGTGA
4692 GGAAATTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (28 bp):
AAAATACTAATGTATAAAGTTCAGTGAA
Found at i:5110 original size:21 final size:21
Alignment explanation
Indices: 5095--5149 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5085 AATTTTATAA
5095 TATAAAAATAAAATTTAAAAG
1 TATAAAAATAAAATTTAAAAG
* *
5116 TATAAAAATATAAAATT-AAAT
1 TATAAAAATA-AAATTTAAAAG
*
5137 TATAAAATTAAAA
1 TATAAAAATAAAA
5150 CTAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.10
21 22 0.73
22 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TATAAAAATAAAATTTAAAAG
Found at i:5142 original size:13 final size:13
Alignment explanation
Indices: 5124--5148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5114 AGTATAAAAA
5124 TATAAAATTAAAT
1 TATAAAATTAAAT
5137 TATAAAATTAAA
1 TATAAAATTAAA
5149 ACTAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TATAAAATTAAAT
Found at i:5154 original size:19 final size:19
Alignment explanation
Indices: 5120--5163 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
5110 TAAAAGTATA
*
5120 AAAATATAAAATTAAATTAT
1 AAAATATAAAACTAAATT-T
5140 AAAAT-TAAAACTAAATTT
1 AAAATATAAAACTAAATTT
5158 AAAATA
1 AAAATA
5164 ATTTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATATAAAACTAAATTT
Found at i:9561 original size:63 final size:66
Alignment explanation
Indices: 9494--9643 Score: 159
Period size: 69 Copynumber: 2.2 Consensus size: 66
9484 TATATGTATA
9494 TATTTAATTTTTTTTTCTTATTTA-ACGTA-CT-ATAGCTTATAATTATATGTATATAT-TT-TT
1 TATTT-ATTTTTTTTTCTTATTTATAC-TATCTAATAGCTTATAATTATATGTATATATATTCTT
9554 TTC
64 TTC
* * *
9557 TATTT-TTTTATTTCATTGTTTTTTTATTACTATTCTAATATCTTATAATTATATGTATATATAT
1 TATTTATTTT-TTT--TT-CTTATTTA-TACTA-TCTAATAGCTTATAATTATATGTATATATAT
9621 TCTTTTC
60 TCTTTTC
9628 TATTTATTTTTTTTTC
1 TATTTATTTTTTTTTC
9644 GATTTTTACC
Statistics
Matches: 71, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
61 4 0.06
62 3 0.04
63 5 0.07
64 2 0.03
65 6 0.08
66 2 0.03
67 2 0.03
68 2 0.03
69 26 0.37
70 2 0.03
71 13 0.18
72 4 0.06
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (66 bp):
TATTTATTTTTTTTTCTTATTTATACTATCTAATAGCTTATAATTATATGTATATATATTCTTTT
C
Found at i:9687 original size:3 final size:3
Alignment explanation
Indices: 9681--9726 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
9671 ACTCTTGTGT
9681 TTA TTA TTA TTA TT- TATA TTA TTA TTA TTA -TA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
9726 T
1 T
9727 ATATATTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.08
3 32 0.82
4 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9702 original size:15 final size:15
Alignment explanation
Indices: 9685--9734 Score: 84
Period size: 15 Copynumber: 3.3 Consensus size: 15
9675 TTGTGTTTAT
9685 TATTATTATT-TATA
1 TATTATTATTATATA
9699 TTATTATTATTATATA
1 -TATTATTATTATATA
9715 TATTATTATTATATA
1 TATTATTATTATATA
9730 TATTA
1 TATTA
9735 CTAACCAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTATTATATA
Found at i:9704 original size:18 final size:18
Alignment explanation
Indices: 9681--9732 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
9671 ACTCTTGTGT
*
9681 TTATTATTATTATTTATA
1 TTATTATTATTATATATA
9699 TTATTATTATTATATATA
1 TTATTATTATTATATATA
9717 TTATTATTA-TATATAT
1 TTATTATTATTATATAT
9733 TACTAACCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATTATTATATATA
Found at i:10155 original size:24 final size:24
Alignment explanation
Indices: 10111--10156 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10101 CTTTGTTTCA
* *
10111 TCTTTATTTTTATTTTGTTTATCT
1 TCTTTATTCTTATTTTATTTATCT
10135 TCTTTA-TCTTATTTTCATTTAT
1 TCTTTATTCTTATTTT-ATTTAT
10157 TTTTATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (24 bp):
TCTTTATTCTTATTTTATTTATCT
Found at i:10229 original size:10 final size:10
Alignment explanation
Indices: 10209--10242 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10199 TTTATCTCCG
10209 TTTTA-TTTT
1 TTTTATTTTT
10218 TTTTATTTTT
1 TTTTATTTTT
10228 TTTTATTTTT
1 TTTTATTTTT
10238 ATTTT
1 -TTTT
10243 CTCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.22
10 14 0.61
11 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:11449 original size:21 final size:22
Alignment explanation
Indices: 11425--11468 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
11415 TTTTATTGAA
11425 TTTATT-CACTTTTTATT-ATTT
1 TTTATTGCA-TTTTTATTGATTT
*
11446 TTTATTGTATTTTTATTGATTT
1 TTTATTGCATTTTTATTGATTT
11468 T
1 T
11469 AAAAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTATTGCATTTTTATTGATTT
Found at i:11546 original size:22 final size:22
Alignment explanation
Indices: 11528--11574 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
11518 ATAAAAATAT
11528 AATAAAAAAAGAATTAAAAGTC
1 AATAAAAAAAGAATTAAAAGTC
*
11550 AATACAAAAAGAA-TATAAAGTC
1 AATAAAAAAAGAATTA-AAAGTC
11572 AAT
1 AAT
11575 TTTTTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (22 bp):
AATAAAAAAAGAATTAAAAGTC
Found at i:12654 original size:20 final size:21
Alignment explanation
Indices: 12629--12721 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
12619 TTTTCCCAAT
*
12629 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
12649 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
12670 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
12690 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
12711 TCGCAATGCGA
1 TCGCAATGCGA
12722 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:12674 original size:41 final size:41
Alignment explanation
Indices: 12629--12721 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
12619 TTTTCCCAAT
12629 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
12670 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
12711 TCGCAATGCGA
1 TCGCAATGCGA
12722 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:12734 original size:41 final size:41
Alignment explanation
Indices: 12648--12782 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
12638 GAATAAGTAA
* *
12648 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
12689 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
12730 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
12771 TTCGCAACGCGA
1 ATCGCAACGCGA
12783 TACTTACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:12735 original size:20 final size:20
Alignment explanation
Indices: 12710--12823 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
12700 AATTGGGAAA
*
12710 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
12730 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
12751 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
12771 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
12791 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
12811 TTCGCAACGCGAT
1 ATCGCAACGCGAT
12824 TTACATAGCG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 66 0.82
21 14 0.17
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:12812 original size:40 final size:41
Alignment explanation
Indices: 12707--12823 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 41
12697 GCGAATTGGG
* * *
12707 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
12748 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
***
12788 ACTTTCGCAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGAT
12824 TTACATAGCG
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 31 0.48
41 33 0.52
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:13421 original size:19 final size:19
Alignment explanation
Indices: 13399--13544 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
13389 GAAACCAAAA
*
13399 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
13418 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
13437 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
13453 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
13470 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
13484 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
13503 TCAGCGTTGCGATTCTCATT
1 TC-GCGTTGCGATTTTCATT
*
13523 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
13543 TC
1 TC
13545 AACCAAAAGA
Statistics
Matches: 102, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
14 20 0.20
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 43 0.42
20 29 0.28
21 2 0.02
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:13469 original size:33 final size:33
Alignment explanation
Indices: 13432--13519 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
13422 GTTGCGATTT
* *
13432 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
13465 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
13498 TCATTTCAGCGTTGCGATTCTC
1 TCATTTC-GCGTTGCGATTCTC
13520 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.12, C:0.24, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:13521 original size:20 final size:20
Alignment explanation
Indices: 13487--13545 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
13477 GCGATTCTCT
**
13487 CGTTGCGATAGTCATTTCAG
1 CGTTGCGATTCTCATTTCAG
*
13507 CGTTGCGATTCTCATTATC-T
1 CGTTGCGATTCTCATT-TCAG
*
13527 CGTTGCGATTTTCATTTCA
1 CGTTGCGATTCTCATTTCA
13546 ACCAAAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCAG
Found at i:15603 original size:42 final size:42
Alignment explanation
Indices: 15543--15665 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
15533 GCCCGACTCG
* * *
15543 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
15585 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
15627 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
15666 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:15623 original size:21 final size:21
Alignment explanation
Indices: 15599--15665 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
15589 TCATTCCTCG
15599 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
15620 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
15641 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
15662 AGAG
1 AGAG
15666 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:17032 original size:14 final size:14
Alignment explanation
Indices: 17013--17048 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
17003 ATTGTTTAAT
17013 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
17027 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
17041 TGATTTGT
1 TGATTTGT
17049 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:17217 original size:19 final size:19
Alignment explanation
Indices: 17155--17208 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
17145 AAAAAGTACT
* *
17155 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATAAAA
17174 ATCGCAACGCGAAAATAAAA
1 ATCGCAACGCG-AAATAAAA
17194 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
17209 CAAATTCGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATAAAA
Found at i:17283 original size:20 final size:19
Alignment explanation
Indices: 17213--17363 Score: 116
Period size: 19 Copynumber: 8.7 Consensus size: 19
17203 CGAAATCAAA
*
17213 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
17232 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
17248 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
17265 TTCGCATTGCGATTTTTCAT
1 TTCGCATTGCGA-TTTTCAT
* *
17285 TTCGCATCGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
17299 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
17318 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
17334 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
17351 TTCGCATTGCGAT
1 TTCGCATTGCGAT
17364 AGTAATTTCC
Statistics
Matches: 101, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
14 22 0.22
16 13 0.13
17 13 0.13
19 35 0.35
20 18 0.18
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:17320 original size:33 final size:34
Alignment explanation
Indices: 17271--17362 Score: 125
Period size: 33 Copynumber: 2.7 Consensus size: 34
17261 TCATTTCGCA
*
17271 TTGCGATTTTTCATTTCGCATCGCGAAAT-TAGCG
1 TTGCGA-TTTTCATTTCGCATTGCGAAATCTAGCG
* **
17305 TTGCGATTTTCATTTCGCATTGCG-ATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGAAATCTAGCG
17338 TTGCGATTTTCATTTCGCATTGCGA
1 TTGCGATTTTCATTTCGCATTGCGA
17363 TAGTAATTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
32 2 0.04
33 44 0.85
34 6 0.12
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (34 bp):
TTGCGATTTTCATTTCGCATTGCGAAATCTAGCG
Found at i:19674 original size:12 final size:12
Alignment explanation
Indices: 19657--19681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19647 TCTTCGGGGA
19657 CTTTTTCTTCTT
1 CTTTTTCTTCTT
19669 CTTTTTCTTCTT
1 CTTTTTCTTCTT
19681 C
1 C
19682 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:20995 original size:20 final size:20
Alignment explanation
Indices: 20970--21027 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
20960 ATTCATTTGA
20970 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
20990 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
21010 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
21028 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:21070 original size:14 final size:14
Alignment explanation
Indices: 21051--21104 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
21041 GAAAATCGCA
21051 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
21065 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
21082 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
21098 TTGCGAT
1 TTGCGAT
21105 AACCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:21070 original size:33 final size:33
Alignment explanation
Indices: 21033--21103 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
21023 AAAATCGCAA
21033 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
21066 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
21099 TGCGA
1 TGCGA
21104 TAACCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:21104 original size:33 final size:33
Alignment explanation
Indices: 21046--21123 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
21036 GAAATGAAAA
***
21046 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
21079 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATT
*
21112 TCGCGTTGCGAT
1 TCGCATTGCGAT
21124 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAACCATT
Found at i:23137 original size:20 final size:20
Alignment explanation
Indices: 23095--23160 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
23085 TAGTTTACTT
* * **
23095 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
23115 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
23135 TCGCAACACGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
23155 TCGCAA
1 TCGCAA
23161 TGCGAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:23176 original size:19 final size:18
Alignment explanation
Indices: 23154--23211 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 18
23144 GGAAATGGCT
23154 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
23173 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
23187 ATCGCAACGCGAAATG-AA
1 ATCGCAA-GCGAAATGAAA
23205 ATCGCAA
1 ATCGCAA
23212 CGACAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 10 0.31
19 7 0.22
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:23189 original size:14 final size:14
Alignment explanation
Indices: 23170--23227 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
23160 ATGCGAAATG
23170 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
23184 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
23200 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
23216 AAAATCGCAACG
1 AAAATCGCAACG
23228 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:23212 original size:32 final size:33
Alignment explanation
Indices: 23154--23232 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
23144 GGAAATGGCT
*
23154 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
23187 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
23219 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
23233 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:23280 original size:14 final size:14
Alignment explanation
Indices: 23261--23318 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
23251 TTTCATTTCG
23261 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
23275 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
23291 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
23307 CGTTGCGATTTT
1 CGTTGCGATTTT
23319 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:23325 original size:33 final size:33
Alignment explanation
Indices: 23244--23334 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
23234 ACAAATCGCA
* *
23244 TTGCTATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
23277 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
23309 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
23335 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:23353 original size:20 final size:19
Alignment explanation
Indices: 23319--23373 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
23309 TTGCGATTTT
*
23319 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
23338 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
23358 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
23374 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:23881 original size:18 final size:18
Alignment explanation
Indices: 23855--23899 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
23845 GTCGATCAGA
*
23855 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
23873 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
23891 TGATGGCTC
1 TGATGGCTC
23900 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:25246 original size:20 final size:20
Alignment explanation
Indices: 25221--25258 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25211 AATAGTTTCT
25221 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
25241 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
25259 GAGAGAATCG
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:25547 original size:22 final size:22
Alignment explanation
Indices: 25522--25565 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25512 GATTTAGATA
25522 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
25544 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
25566 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:25778 original size:20 final size:20
Alignment explanation
Indices: 25753--25846 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
25743 GATTATGTAT
25753 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
25773 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
25793 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
25814 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
25834 TATCGCATTGCGA
1 TATCGCGTTGCGA
25847 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:25818 original size:41 final size:41
Alignment explanation
Indices: 25773--25850 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
25763 CGAAAGTCAG
* * *
25773 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
25814 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
25851 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:25847 original size:20 final size:20
Alignment explanation
Indices: 25733--25847 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
25723 CGCTTTGAAA
*
25733 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
25754 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
25774 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
25794 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
25815 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
25835 ATCGCATTGCGAT
1 ATCGCATTGCGAT
25848 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:25869 original size:21 final size:21
Alignment explanation
Indices: 25836--25928 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 21
25826 ATAGTCAGTA
25836 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
25857 TCGCGTTGTGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
25877 TCGCATTGCGGTTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
25898 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
25918 TCGCATTGCGA
1 TCGCATTGCGA
25929 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
20 30 0.56
21 24 0.44
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:25881 original size:41 final size:41
Alignment explanation
Indices: 25836--25928 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
25826 ATAGTCAGTA
*
25836 TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
25877 TCGCATTGCGGTTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
25918 TCGCATTGCGA
1 TCGCATTGCGA
25929 ATTGGGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:28223 original size:91 final size:92
Alignment explanation
Indices: 28043--28223 Score: 233
Period size: 91 Copynumber: 1.9 Consensus size: 92
28033 CTTGTTATTC
* * *
28043 TTCTTCTTCTTCTTCTTCTTAACTTTAAAAAATTCTCATTCTTGAATCTAAGTAACTTAAATGTT
1 TTCTTCTTCATATTCTTCTTAACTTT-AAAAA-T-TCATTCTTGAATCTAAGTAACTCAAATGTT
** *
28108 CATATGTTGGCTAACTCGTACATTTGCGCA
63 CATATGCGGGCTAACTCATACATTTGCGCA
28138 TTCTTCTTCATATTCTTCTTAACTTT-AAAA-T-ATTCTTGAATCTAAGTGTAACTCAAATGTTC
1 TTCTTCTTCATATTCTTCTTAACTTTAAAAATTCATTCTTGAATCTAA--GTAACTCAAATGTTC
*
28200 ATATGCGGGCTAACTCATTCATTT
64 ATATGCGGGCTAACTCATACATTT
28224 ATGCATATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
89 14 0.18
90 1 0.01
91 34 0.44
93 4 0.05
95 24 0.31
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.44
Consensus pattern (92 bp):
TTCTTCTTCATATTCTTCTTAACTTTAAAAATTCATTCTTGAATCTAAGTAACTCAAATGTTCAT
ATGCGGGCTAACTCATACATTTGCGCA
Found at i:30680 original size:21 final size:20
Alignment explanation
Indices: 30656--30694 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
30646 TTCTCCTGGT
30656 TCAGCATCTCTGCTTTCTTCC
1 TCAGCATCTC-GCTTTCTTCC
* *
30677 TCAGCTTCTCGTTTTCTT
1 TCAGCATCTCGCTTTCTT
30695 TCATTATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.08, C:0.33, G:0.10, T:0.49
Consensus pattern (20 bp):
TCAGCATCTCGCTTTCTTCC
Found at i:33622 original size:24 final size:24
Alignment explanation
Indices: 33612--33726 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
33602 CATAATTCAC
* *
33612 GTCAAGTATCATATCAAAATCCA-
1 GTCAAGTATCAGATCAGAATCCAT
* *
33635 GCTCAAGTATCAGATTAGAATCCAA
1 G-TCAAGTATCAGATCAGAATCCAT
*
33660 GTCAAGTATCAGATTAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
33684 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
33708 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
33727 ATCAAATCGA
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
23 3 0.04
24 77 0.93
25 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:33743 original size:48 final size:48
Alignment explanation
Indices: 33588--33743 Score: 120
Period size: 48 Copynumber: 3.2 Consensus size: 48
33578 AAACGGATAT
* * * * * * * *
33588 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAG
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * * * *
33636 CTCA-AGTATCAGATTAGAATCCAAGTCAAGTATCAGATTAGAATCCAT
1 ATCAGA-AATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * *
33684 GTCAGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAAT-CAA
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAG-AATCCAA
33732 ATC-GAAAATCAG
1 ATCAG-AAATCAG
33744 GTAAAATATT
Statistics
Matches: 86, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.02
48 80 0.93
49 4 0.05
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAA
Found at i:42339 original size:21 final size:21
Alignment explanation
Indices: 42313--42352 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42303 CCCCCTTTGA
*
42313 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
42334 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
42353 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:45835 original size:13 final size:13
Alignment explanation
Indices: 45817--45852 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
45807 AACGGTCAAC
45817 GGTCAACGGGCCG
1 GGTCAACGGGCCG
45830 GGTCAACGGGCCG
1 GGTCAACGGGCCG
45843 GGTCAACGGG
1 GGTCAACGGG
45853 TCAAGTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.47, T:0.08
Consensus pattern (13 bp):
GGTCAACGGGCCG
Found at i:45864 original size:10 final size:8
Alignment explanation
Indices: 45793--45856 Score: 54
Period size: 7 Copynumber: 8.8 Consensus size: 8
45783 TCAACACTTT
45793 GGTCAACAG
1 GGTCAAC-G
45802 TGGTCAAC-
1 -GGTCAACG
45810 GGTCAAC-
1 GGTCAACG
45817 GGTCAACG
1 GGTCAACG
45825 GG-C--CG
1 GGTCAACG
45830 GGTCAACG
1 GGTCAACG
45838 GG-C--CG
1 GGTCAACG
45843 GGTCAACG
1 GGTCAACG
45851 GGTCAA
1 GGTCAA
45857 GTCGGGTCGG
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
5 8 0.17
6 2 0.04
7 16 0.34
8 14 0.30
10 7 0.15
ACGTcount: A:0.23, C:0.27, G:0.38, T:0.12
Consensus pattern (8 bp):
GGTCAACG
Found at i:65737 original size:71 final size:72
Alignment explanation
Indices: 65650--65801 Score: 175
Period size: 72 Copynumber: 2.1 Consensus size: 72
65640 GGACAACACA
* *
65650 CTAGCCTACCTTGAATACGTGATAA-TCTCAGGTAAGAAC-CGAAATTTTACATGCATC-GAAAA
1 CTAGCCTATCTTGAATACGTGAGAATTCTCAGGTAAGAACACG-AATTTTACATGCATCAG-AAA
65712 CTTACATCC
64 CTTACATCC
* * * * **
65721 CTAGCCTATCTTGAATACTTGAGAATTTTGAGGTAAGAACATGAATTTTATGTGCATCAGAAACT
1 CTAGCCTATCTTGAATACGTGAGAATTCTCAGGTAAGAACACGAATTTTACATGCATCAGAAACT
*
65786 TACATTC
66 TACATCC
*
65793 GTAGCCTAT
1 CTAGCCTAT
65802 ATGTAGGCTC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
71 22 0.32
72 44 0.65
73 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
CTAGCCTATCTTGAATACGTGAGAATTCTCAGGTAAGAACACGAATTTTACATGCATCAGAAACT
TACATCC
Found at i:67680 original size:23 final size:23
Alignment explanation
Indices: 67654--67731 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
67644 CACCACAGCT
67654 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
67677 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
67700 CGTATAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
67723 TATAATAAT
1 CAT-ATAAT
67732 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 42 0.89
24 5 0.11
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:67909 original size:103 final size:103
Alignment explanation
Indices: 67738--67955 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
67728 TAATGTCCAT
* *
67738 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
67803 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
67841 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
**
67906 GACTTCACACATGTTCCAAAGAATACATATATGTCTTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
67944 AAGGACCACATA
1 AAGGACCACATA
67956 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:68634 original size:19 final size:19
Alignment explanation
Indices: 68568--68641 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
68558 AATGAAGGTA
*
68568 TGCATCGATGCACTGCACTG
1 TGCATCGATGCACTAC-CTG
* * *
68588 TGTATCGATGCATTCCCTATCGG
1 TGCATCGATGCA----CTACCTG
68611 TGCATCGATGCACTACCTG
1 TGCATCGATGCACTACCTG
*
68630 TGCATCGGTGCA
1 TGCATCGATGCA
68642 TAAAATACAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
19 16 0.38
20 11 0.26
23 13 0.31
24 2 0.05
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.28
Consensus pattern (19 bp):
TGCATCGATGCACTACCTG
Found at i:68681 original size:63 final size:64
Alignment explanation
Indices: 68610--68766 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 64
68600 TTCCCTATCG
* * * ***
68610 GTGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTTT-ATTACTGGA
1 GTGCATCGATGCACTACCTATGCATCGATGCACAAAATACATTCGATGTTT-TTTAATTAAAAGA
* * *
68674 -TGCATCGATGCA-TACCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTTAAATTAAAAG
1 GTGCATCGATGCACTACC-TATGCATCGATGCACAAAATACATTCGATGTTTTTT-AATTAAAAG
68737 A
64 A
68738 GTGCATCGATGCACTACCTATGCATCGAT
1 GTGCATCGATGCACTACCTATGCATCGAT
68767 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
62 7 0.09
63 39 0.49
64 6 0.08
65 23 0.29
66 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTATGCATCGATGCACAAAATACATTCGATGTTTTTTAATTAAAAGA
Found at i:70933 original size:2 final size:2
Alignment explanation
Indices: 70926--70953 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70916 TACAAATCTA
70926 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
70954 TTGTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71805 original size:27 final size:27
Alignment explanation
Indices: 71735--71830 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 27
71725 AAATACTTAA
* * *
71735 ATTAATAATATTTTATATATATCAAGTT
1 ATTAAAAATATTTTAT-TATATTAACTT
*
71763 A--AAAAATA-TTTCTTATATTAACTT
1 ATTAAAAATATTTTATTATATTAACTT
*
71787 ATTAAATATATTTTA-T-TATTAACTT
1 ATTAAAAATATTTTATTATATTAACTT
71812 AATTTAAAAATATTTTATT
1 -A-TTAAAAATATTTTATT
71831 TTTATTTTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
24 10 0.18
25 13 0.24
26 14 0.25
27 16 0.29
28 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (27 bp):
ATTAAAAATATTTTATTATATTAACTT
Found at i:75027 original size:26 final size:30
Alignment explanation
Indices: 74978--75032 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 30
74968 AAAAATTGAG
74978 TTATTTAAATATTATTTTATAAATCAAATC
1 TTATTTAAATATTATTTTATAAATCAAATC
75008 TTATTT-AAT-TT-TTTT-TAAATCAAAT
1 TTATTTAAATATTATTTTATAAATCAAAT
75033 TGAATTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.40
27 4 0.16
28 2 0.08
29 3 0.12
30 6 0.24
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (30 bp):
TTATTTAAATATTATTTTATAAATCAAATC
Found at i:79818 original size:21 final size:21
Alignment explanation
Indices: 79794--79838 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
79784 AGTAATGTAA
* *
79794 ATTTTTAATTCATATAAAAAT
1 ATTTTCAAGTCATATAAAAAT
* *
79815 ATTTTCAAGTCATTTTAAAAT
1 ATTTTCAAGTCATATAAAAAT
79836 ATT
1 ATT
79839 AAATTACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTTCAAGTCATATAAAAAT
Found at i:86140 original size:76 final size:76
Alignment explanation
Indices: 86052--86198 Score: 224
Period size: 76 Copynumber: 1.9 Consensus size: 76
86042 TTCCATGTCA
* * * *
86052 TTTTTTTTAAATTTGTTAAAAATTTCTACAAGTTTCATATTATTTTTAACTTCGAAATTTTTA-A
1 TTTTTTTTAAATTTATTAAAAATTTCTAAAAGTTTCATATTATTTTTAACTTCAAAATTTTAATA
86116 ATTTTTAAATT
66 ATTTTTAAATT
* *
86127 TTTTTTTTCAAATTTATTAAAAATTTCTAAAATTTTCATATTTTTTTTAACTTCAAAATTTTAAT
1 TTTTTTTT-AAATTTATTAAAAATTTCTAAAAGTTTCATATTATTTTTAACTTCAAAATTTTAAT
86192 AATTTTT
65 AATTTTT
86199 TCAAAATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 8 0.12
76 49 0.77
77 7 0.11
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (76 bp):
TTTTTTTTAAATTTATTAAAAATTTCTAAAAGTTTCATATTATTTTTAACTTCAAAATTTTAATA
ATTTTTAAATT
Found at i:89628 original size:20 final size:20
Alignment explanation
Indices: 89605--89671 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
89595 GTTTCCAATT
89605 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
89625 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
89645 TCGCAACGTGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
89665 TCGCAAC
1 TCGCAAC
89672 ACAAAAGTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:89706 original size:20 final size:20
Alignment explanation
Indices: 89692--89864 Score: 226
Period size: 20 Copynumber: 8.7 Consensus size: 20
89682 AATTCATAAT
89692 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
89712 GCAATAGTCAAATTCGCAAT
1 GCGATAGTCAAATTCGCAAC
*
89732 GCAATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
89752 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
89772 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
89792 ACAATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
89812 TCGAATTTGT-AAA-TCGCAAC
1 GCG-A-TAGTCAAATTCGCAAC
*
89832 ACAGA-AGTCAAATTCGCAAC
1 GC-GATAGTCAAATTCGCAAC
89852 GCGATAGTCAAAT
1 GCGATAGTCAAAT
89865 GTTTTTACGC
Statistics
Matches: 135, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.01
19 5 0.04
20 120 0.89
21 5 0.04
22 3 0.02
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:89709 original size:40 final size:40
Alignment explanation
Indices: 89665--89864 Score: 237
Period size: 40 Copynumber: 5.0 Consensus size: 40
89655 AATCTGTAAA
* * **
89665 TCGCAACACAAAAGTTAAATTCATAATGCGATAGTCAAAT
1 TCGCAACACAATAGTCAAATTCGCAATGCGATAGTCAAAT
* *
89705 TCGCAACGCAATAGTCAAATTCGCAATGCAATAGTCAAAT
1 TCGCAACACAATAGTCAAATTCGCAATGCGATAGTCAAAT
* * *
89745 TCGCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAATAGTCAAATTCGCAATGCGATAGTCAAAT
*
89785 TCGCAACACAATAGTCAAATTCGCAACT-CGAATTTGT-AAA-
1 TCGCAACACAATAGTCAAATTCGCAA-TGCG-A-TAGTCAAAT
*
89825 TCGCAACACAGA-AGTCAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACA-ATAGTCAAATTCGCAATGCGATAGTCAAAT
89865 GTTTTTACGC
Statistics
Matches: 138, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.02
39 4 0.03
40 123 0.89
41 5 0.04
42 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (40 bp):
TCGCAACACAATAGTCAAATTCGCAATGCGATAGTCAAAT
Found at i:89709 original size:60 final size:60
Alignment explanation
Indices: 89665--89864 Score: 201
Period size: 60 Copynumber: 3.3 Consensus size: 60
89655 AATCTGTAAA
* * * * *
89665 TCGCAACACAAAAGTTAAATTCATAATGCGATAGTCAAATTCGCAACGCAATAGTCAAAT
1 TCGCAACACAATAGTCAAATTCACAACGCGATAGTCAAATTCGCAACGGAATAGTCAAAT
** *
89725 TCGCAATGCAATAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACGCG-ATAGTCAAAT
1 TCGCAACACAATAGTCAAATTCACAACGCGATAGTCAAATTCGCAACG-GAATAGTCAAAT
* * * **
89785 TCGCAACACAATAGTCAAATTCGCAACTCGAATTTGT-AAA-TCGCAACACAGA-AGTCAAAT
1 TCGCAACACAATAGTCAAATTCACAACGCG-A-TAGTCAAATTCGCAACGGA-ATAGTCAAAT
* *
89845 TCGCAACGCGATAGTCAAAT
1 TCGCAACACAATAGTCAAAT
89865 GTTTTTACGC
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
60 111 0.93
61 5 0.04
62 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (60 bp):
TCGCAACACAATAGTCAAATTCACAACGCGATAGTCAAATTCGCAACGGAATAGTCAAAT
Found at i:90399 original size:20 final size:19
Alignment explanation
Indices: 90360--90413 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
90350 AAATCACAAC
90360 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
90379 GCGATTTTCATTTTCGTGTT
1 GCGATTTT-AGTTTCGCGTT
*
90399 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
90414 AGAAACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:92585 original size:21 final size:21
Alignment explanation
Indices: 92559--92650 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
92549 CCTATCATCA
*
92559 TTCAAGAGGCGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
92580 TTCAAGAGGCCCCT-CTCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * * *
92600 ATCGAAGAAGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCTATCG
92622 TTCAAGAGGCCCCTACC-ATCG
1 TTCAAGAGGCCCCT-CCTATCG
92643 TTCAAGAG
1 TTCAAGAG
92651 ATCCTGTCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.07
21 49 0.84
22 5 0.09
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:92600 original size:42 final size:43
Alignment explanation
Indices: 92549--92650 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
92539 GCCCGATGCA
* * *
92549 CCTA-TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCC
1 CCTACTCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
*
92591 CCT-CTCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCC
1 CCTACTCATCATTC-AAGAGGCCCCTCCCACCGTTCAAGAGGCC
*
92633 CCTAC-CATCGTTCAAGAG
1 CCTACTCATCATTCAAGAG
92651 ATCCTGTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
41 2 0.04
42 45 0.90
43 3 0.06
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.21
Consensus pattern (43 bp):
CCTACTCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:94128 original size:61 final size:62
Alignment explanation
Indices: 94028--94167 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 62
94018 TTTTACATTG
*
94028 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
* * *
94088 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
94153 A
62 A
94154 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
94168 GTTTCTAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
60 17 0.24
61 18 0.26
64 4 0.06
66 31 0.44
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:94251 original size:20 final size:20
Alignment explanation
Indices: 94226--94263 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
94216 GTTGAAGGTA
*
94226 CAAATTTGCAACTCGAAAGT
1 CAAATTTGCAACGCGAAAGT
94246 CAAATTTGCAACGCGAAA
1 CAAATTTGCAACGCGAAA
94264 TAAGCGTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (20 bp):
CAAATTTGCAACGCGAAAGT
Found at i:94342 original size:20 final size:20
Alignment explanation
Indices: 94304--94342 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94294 GATTTTCAGT
*
94304 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTGTCGCG
*
94324 TTGCGAATTTGGCTGTCGC
1 TTGCGAATTTGACTGTCGC
94343 AACGCTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (20 bp):
TTGCGAATTTGACTGTCGCG
Found at i:94610 original size:39 final size:39
Alignment explanation
Indices: 94556--94642 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
94546 TCAAGTTGTA
* *
94556 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
* *
94595 GATTTTGATTTCCTTTTGCTTGACACCATATGGGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
94634 GATTTTGAT
1 GATTTTGAT
94643 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:94975 original size:18 final size:18
Alignment explanation
Indices: 94952--94988 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
94942 CGAAATTTAT
94952 ATTGAAATTTAAACTCAA
1 ATTGAAATTTAAACTCAA
*
94970 ATTGAAATTTAAATTCAA
1 ATTGAAATTTAAACTCAA
94988 A
1 A
94989 CTCCAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (18 bp):
ATTGAAATTTAAACTCAA
Found at i:95491 original size:20 final size:20
Alignment explanation
Indices: 95443--95483 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
95433 CGCGAAATAA
*
95443 GCATTGCGATAGTCAAATTC
1 GCATTGCGAAAGTCAAATTC
*
95463 GCAATGCGAAAGTCAAATTC
1 GCATTGCGAAAGTCAAATTC
95483 G
1 G
95484 GTTTGCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GCATTGCGAAAGTCAAATTC
Found at i:98274 original size:12 final size:12
Alignment explanation
Indices: 98253--98286 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
98243 GGTTGTGGGT
*
98253 TTTGAGATTGTG
1 TTTGATATTGTG
98265 TTTGATATTGTG
1 TTTGATATTGTG
*
98277 TTTGGTATTG
1 TTTGATATTG
98287 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:99073 original size:20 final size:20
Alignment explanation
Indices: 99045--99123 Score: 113
Period size: 20 Copynumber: 4.0 Consensus size: 20
99035 GAAATTAAAT
*
99045 TCGCGTTGCGAATTTGACTA
1 TCGCATTGCGAATTTGACTA
* *
99065 TCACGTTGCGAATTTGACTA
1 TCGCATTGCGAATTTGACTA
*
99085 TCGCATTGCGAATTTGAGTA
1 TCGCATTGCGAATTTGACTA
*
99105 TCGCATTTCGAATTTGACT
1 TCGCATTGCGAATTTGACT
99124 TCTGTGTTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGAATTTGACTA
Found at i:99154 original size:20 final size:20
Alignment explanation
Indices: 99129--99175 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
99119 TGACTTCTGT
99129 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCAC
* * *
99149 GTTGCGATTTATAGATTCGC
1 GTTGCGATTTACAAATTCAC
99169 GTTGCGA
1 GTTGCGA
99176 ATTTGGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:99189 original size:21 final size:21
Alignment explanation
Indices: 99172--99238 Score: 125
Period size: 21 Copynumber: 3.2 Consensus size: 21
99162 GATTCGCGTT
99172 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
99193 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
99214 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
99235 GCGA
1 GCGA
99239 TTTACATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.19
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:103491 original size:6 final size:6
Alignment explanation
Indices: 103480--103519 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
103470 GCCCTGTATA
103480 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGA
103520 TCTGAACAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:104341 original size:181 final size:180
Alignment explanation
Indices: 104118--104699 Score: 812
Period size: 190 Copynumber: 3.2 Consensus size: 180
104108 AGCCCTACAT
* * * * *
104118 GATATATTGAACGTGTCGATACTTTAATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCA
1 GATATATTGAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
* * * * *
104183 TTTTTAACGCCTATAAAGTATCGATAGTTTATAAAAATGTATCGGTCCACAACGATATAACAGGT
66 GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGT
104248 AAAAATATATCAAACCGGTATCAAAATGATAAAACTGGTAAAGTACTACCA
131 AAAAATATAT-AAACCGGTATCAAAATGATAAAACTGGTAAAGTACTACCA
*
104299 GATATATTTAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
1 GATATATTGAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
104364 GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAC-AC--TATAACAGGT
66 GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGT
104426 AAAAATGATA-AAACCGGTATCAAATGATAAAACCGGTATGATAAAACTGGTAAAGTACTACCA
131 AAAAAT-ATATAAACCGGTATC--------AAA-----ATGATAAAACTGGTAAAGTACTACCA
*
104489 GATATATTTAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
1 GATATATTGAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
104554 GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGT
66 GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGT
* ** *
104619 AAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTAAAGCGCTACCG
131 AAAAATAT-AT-AAACCGGTATCAAAATGATAAAACTGGTAAAGTACTACCA
** *
104671 GATATATTGAAAGTGTTGCTACTTTAATA
1 GATATATTGAAAGTGCCGGTACTTTAATA
104700 AGTACGTGTA
Statistics
Matches: 362, Mismatches: 19, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
177 11 0.03
178 16 0.04
179 3 0.01
180 2 0.01
181 104 0.29
182 47 0.13
185 3 0.01
187 3 0.01
190 141 0.39
191 2 0.01
192 2 0.01
193 17 0.05
195 11 0.03
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (180 bp):
GATATATTGAAAGTGCCGGTACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAATCA
GTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGT
AAAAATATATAAACCGGTATCAAAATGATAAAACTGGTAAAGTACTACCA
Found at i:104452 original size:19 final size:19
Alignment explanation
Indices: 104428--104464 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
104418 TAACAGGTAA
104428 AAATGATAAAACCGGTATC
1 AAATGATAAAACCGGTATC
104447 AAATGATAAAACCGGTAT
1 AAATGATAAAACCGGTAT
104465 GATAAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATGATAAAACCGGTATC
Found at i:104639 original size:20 final size:19
Alignment explanation
Indices: 104616--104661 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
104606 CGATATAACA
104616 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
104636 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
104656 GGTAAA
1 GGTAAA
104662 GCGCTACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.52, C:0.11, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:106906 original size:21 final size:21
Alignment explanation
Indices: 106882--106925 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
106872 AAGACAATCA
106882 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
106903 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
106924 AG
1 AG
106926 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:106996 original size:33 final size:33
Alignment explanation
Indices: 106959--107024 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
106949 AAATAGATGG
* *
106959 AGTGGTGAAAGAAGTAGAGGTGTAGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTAAACGGGTGA
*
106992 AGTGGTGAAAGAAGTTGAGGTGTAAACGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTAAACGGGTGA
107025 TCTTAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.45, T:0.20
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTAAACGGGTGA
Found at i:108229 original size:4 final size:4
Alignment explanation
Indices: 108220--108788 Score: 1129
Period size: 4 Copynumber: 142.2 Consensus size: 4
108210 TAAGAGATTG
108220 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108268 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108316 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108364 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108412 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108460 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108508 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108556 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108604 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108652 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108700 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
108748 GTAT GTAT GTAT GTAT ATAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
108789 AAAGGACATT
Statistics
Matches: 563, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 563 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:109978 original size:200 final size:200
Alignment explanation
Indices: 109635--110596 Score: 1405
Period size: 200 Copynumber: 4.8 Consensus size: 200
109625 GTAAGCATAT
* * * * * *
109635 GTGTCGATTCATATATAAAAATTATCGATCTCAGAAACATCGAAACCAATAAGTATAATGTAATT
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * * * *
109700 GGTAATTTTTCAATATAACCGGTACAAATATACCGGTTTTAT-GAGAGAATAAGTCTACAACATG
66 GGTAATTTTTCAATGTAACCAGTATAAATTTACCGGTTTT-TCGAGAGAATAGGTCTACAACATG
* * *
109764 TATCGACACTTTTTAATTTTGTCTCGATACTTTTGGTCTAGAATGAATGCCAAAAATGGGAAAAC
130 TATCGACACTTTTTAATTTTGTCTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGGACAAC
109829 CATAAA
195 CATAAA
*
109835 GTGTCGATCCATTTATAAAAAGTATCGATCACAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
109900 GGTACA-TTTTCAATGTAACCAGTATAAATATACCGATTTTTCGAGAGAATAGGTCTACAACATA
66 GGTA-ATTTTTCAATGTAACCAGTATAAATTTACCGGTTTTTCGAGAGAATAGGTCTACAACATG
* *
109964 TATCGACACTTTTTAATTTTTGTTTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGGGGCA
130 TATCGACACTTTTTAA-TTTTGTCTCGATACTTTTGGTCCAGAATGAATGCCAAAAA-GGGGACA
110029 ACCATAAA
193 ACCATAAA
* * ** *
110037 ATATCGATATATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
110102 TGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
66 GGTAATTTTTCAATGTAACCAGTATAAATTTACCGGTTTTTCGAGAGAATAGGTCTACAACATGT
* * *
110167 ATCGACACTTTTTAATTTTCTCTCGATACTTTTGGTCCAGGATGAATGCCAAAAAGGGGGCAACC
131 ATCGACACTTTTTAATTTTGTCTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGGACAACC
110232 ATAAA
196 ATAAA
* * *
110237 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCTATAAGTATAATGTAATT
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
*
110302 GGTAATTTTTCAATGTAA-CAGATATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATG
66 GGTAATTTTTCAATGTAACCAG-TATAAATTTACCGGTTTTTCGAGAGAATAGGTCTACAACATG
* * * * *
110366 TATCGACACTTTTTAATTTTGTGTCAATATTTTTGGTTCAGAATGAATGCCAAAAAGGATG-CAA
130 TATCGACACTTTTTAATTTTGTCTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGG-GGACAA
110430 CCATAAA
194 CCATAAA
*
110437 GTGTCGATCCATTTATAAAATGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* **
110502 GGTAATTTTTCAATGTAATC-GATATAAATTTACCGGTTTTAT-GAGAGAATAAATCTACAACAT
66 GGTAATTTTTCAATGTAACCAG-TATAAATTTACCGGTTTT-TCGAGAGAATAGGTCTACAACAT
*
110565 GTATCGACACTTTTTAATTTTGTGTCGATACT
129 GTATCGACACTTTTTAATTTTGTCTCGATACT
110597 AATTTAAATA
Statistics
Matches: 695, Mismatches: 58, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
199 3 0.00
200 470 0.68
201 79 0.11
202 143 0.21
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
GGTAATTTTTCAATGTAACCAGTATAAATTTACCGGTTTTTCGAGAGAATAGGTCTACAACATGT
ATCGACACTTTTTAATTTTGTCTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGGACAACC
ATAAA
Found at i:113934 original size:198 final size:201
Alignment explanation
Indices: 113572--113940 Score: 519
Period size: 198 Copynumber: 1.9 Consensus size: 201
113562 AAAGAGTTGC
* * * * *
113572 ACGCATAAAGTTTCGATACATTTATTAAAAATGTCGATCCTAAAAACATCGAAACCCCATAATTA
1 ACGCACAAAGTGTCAATACATTTATCAAAAATGTCGATCCTAAAAACATCGAAACCACATAATTA
* * * *
113637 TAATATAATAGGTAATTTTGTAATATAATCGGTGTAGATATACCGGTTTTATGAGAGAACAGGTC
66 TAATATAATAGGTAATTTTGTAATATAAGCGGTATAAATATACCGGTTTTATAAGAGAACAGGTC
* * *
113702 TACAACATGTATCGACACTTTTTAATAGTGTGTCGATACTTTATATCCATAATGGGTGCCAAAAA
131 TACAACATGCAGCAACACTTTTTAATAGTGTGTCGATACTTTATATCCATAATGGGTGCCAAAAA
113767 GGGTGA
196 GGGTGA
*
113773 ACGCACAAAGTGTCAATACATTT-TCAAAAGTGTCGATCCTAAAAACATCGAAA-CACATAATTA
1 ACGCACAAAGTGTCAATACATTTATCAAAAATGTCGATCCTAAAAACATCGAAACCACATAATTA
* * * * *
113836 TAATGTAATAGGTAATTTTTTAATTTAAGCGGTATAAATATATC-GTTTTATAAGAGAATAGGTC
66 TAATATAATAGGTAATTTTGTAATATAAGCGGTATAAATATACCGGTTTTATAAGAGAACAGGTC
* * **
113900 TACAACATGCAGCAACTCTTTTTTATTTTGTGTCGATACTT
131 TACAACATGCAGCAACACTTTTTAATAGTGTGTCGATACTT
113941 ACGATATATG
Statistics
Matches: 146, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
198 52 0.36
199 46 0.32
200 28 0.19
201 20 0.14
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (201 bp):
ACGCACAAAGTGTCAATACATTTATCAAAAATGTCGATCCTAAAAACATCGAAACCACATAATTA
TAATATAATAGGTAATTTTGTAATATAAGCGGTATAAATATACCGGTTTTATAAGAGAACAGGTC
TACAACATGCAGCAACACTTTTTAATAGTGTGTCGATACTTTATATCCATAATGGGTGCCAAAAA
GGGTGA
Found at i:116662 original size:200 final size:197
Alignment explanation
Indices: 116307--117015 Score: 721
Period size: 200 Copynumber: 3.5 Consensus size: 197
116297 ACCTAAATAT
* * *
116307 GTGTCGATACATTT-TCTACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC--AAAACATCGAAACCGATAATTATAATGTAA
* * * * * * *
116370 TATGTAAATTAACAATGTAACCGGTGTAAATATACCGG-TTAATTAGAAAACATATCAACATAAT
63 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTC-ACATAAT
* * * * *
116434 GTATCGACACTTGTGGAATTTATGTCGATACTTATTGTCTAGGATGAATGTACAAACGAGGTGCA
127 GTATCGACACTTGT-AAATTTGTGTCGATACTT-TTGTCCAGAATGAATGTCCAAACGAGGTGCA
*
116499 TGCATAAA
190 AGCATAAA
* *
116507 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAATATCGAAACCGATAATTATAATGTATTAG
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
116572 GCAAATTTACAATGTAACTGATATAAATATATCGGTTTTATGATAAAATATGTCAGCATTAA-GT
66 GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCA-CA-TAATGT
* * * *
116636 ATCGACACTTGCTAAATTTGTGTCGATACTTTTGGTCCATAATGAATG-CCAAAAGGGGTGCAAC
129 ATCGACACTTG-TAAATTTGTGTCGATACTTTT-GTCCAGAATGAATGTCCAAACGAGGTGCAAG
116700 CATAAA
192 CATAAA
* ** * *
116706 GTGTCGATACATTTATAAAAAGTATCGATCTCGTAATCATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATC-CCAAAACATCGAAACCGATAATTATAATGTAATA
* ** * * * *
116771 GGTAAATTTTCAATGTAACCGGTATAAATATACCAATTTTATGAGAGACTAGGTCTAAATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTC-ACATAATGT
* * * * *
116836 ATCGACACTTTGTTAGTTTGTGTCGATACTTTTTTCCAGAATAAAATATGAATTCCCAAACCAGG
129 ATCGACAC-TTGTAAATTTGTGTCGATACTTTTGTCCAGAAT--GA-ATG---T-CCAAACGAGG
116901 TGCAAGCATAAA
186 TGCAAGCATAAA
* ** *
116913 GTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATAATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATC-CCAAAACATCGAAACCGATAATTATAATGTAAT
* *
116976 AGGTAAATTTACAATGTTACCGGTATAAGTATACCGGTTT
64 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTT
117016 ACTTCGAAAA
Statistics
Matches: 422, Mismatches: 67, Indels: 34
0.81 0.13 0.07
Matches are distributed among these distances:
199 116 0.27
200 182 0.43
201 13 0.03
202 3 0.01
205 3 0.01
206 72 0.17
207 33 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCACATAATGTAT
CGACACTTGTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGTCCAAACGAGGTGCAAGCATA
AA
Found at i:117190 original size:23 final size:23
Alignment explanation
Indices: 117117--117181 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
117107 TGCCTATTTT
* *
117117 ATTATATAAACGCTACCTATTAC
1 ATTATATAAGCTCTACCTATTAC
117140 ATTATATAAGCTCTACCTATTAC
1 ATTATATAAGCTCTACCTATTAC
117163 ATTATATAAGCTCTACCTA
1 ATTATATAAGCTCTACCTA
117182 ATATGTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTATATAAGCTCTACCTATTAC
Found at i:117282 original size:20 final size:18
Alignment explanation
Indices: 117237--117284 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
117227 TTACCGATAA
117237 AATTTTTAACCGATCACT
1 AATTTTTAACCGATCACT
*
117255 --TATTTAACCGATCACAT
1 AATTTTTAACCGATCAC-T
117272 CAATTTTTAACCG
1 -AATTTTTAACCG
117285 TTGCACAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
20 9 0.38
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (18 bp):
AATTTTTAACCGATCACT
Found at i:122301 original size:58 final size:60
Alignment explanation
Indices: 122210--122329 Score: 145
Period size: 58 Copynumber: 2.0 Consensus size: 60
122200 TAAATATTTT
* * * **
122210 AAATTCATCCCCAAACTATAATTTTCATTCTAAATCGGTTCTTAAAC-TTTGAAAATTCC
1 AAATTCATCCCCAAACTATAACTCTCATTCTAAATCGGTCCCCAAACTTTTGAAAATTCC
* * * *
122269 AAATTCAT-CCCTAACTATGACTCTCATTCTAAATTGGTCCCCAAACTTTTGAACATTCC
1 AAATTCATCCCCAAACTATAACTCTCATTCTAAATCGGTCCCCAAACTTTTGAAAATTCC
122328 AA
1 AA
122330 TATCTTCCCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 30 0.59
59 21 0.41
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (60 bp):
AAATTCATCCCCAAACTATAACTCTCATTCTAAATCGGTCCCCAAACTTTTGAAAATTCC
Found at i:126176 original size:3 final size:3
Alignment explanation
Indices: 126168--126220 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
126158 GAAATTCCCC
* *
126168 TAA TAA TAA T-A TGA TAA TAA TAA TAA AAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
126214 TAA TAA T
1 TAA TAA T
126221 TAAGGATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:126193 original size:20 final size:20
Alignment explanation
Indices: 126168--126219 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
126158 GAAATTCCCC
**
126168 TAATAATAATATGATAATAA
1 TAATAATAATAAAATAATAA
*
126188 TAATAAAAATAAAATAATAA
1 TAATAATAATAAAATAATAA
126208 TAATAATAATAA
1 TAATAATAATAA
126220 TTAAGGATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAATAATAAAATAATAA
Found at i:126207 original size:23 final size:23
Alignment explanation
Indices: 126172--126216 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
126162 TTCCCCTAAT
* *
126172 AATAATATGATAATAATAATAAA
1 AATAAAATAATAATAATAATAAA
126195 AATAAAATAATAATAATAATAA
1 AATAAAATAATAATAATAATAA
126217 TAATTAAGGA
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:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AATAAAATAATAATAATAATAAA
Found at i:127137 original size:41 final size:41
Alignment explanation
Indices: 127050--127256 Score: 183
Period size: 41 Copynumber: 5.0 Consensus size: 41
127040 TCGAACCCAC
* * *
127050 TTTTTATCTTTATAATTGAAGCCATTACTTTTTTTCAATCTC-T
1 TTTTTATATTTATAATTGAGGCC-TTA-ATTTTTT-AATCTCAT
*
127093 TTTTTATATTTATACTTGAGGCCTTAATTTTTTAATC-CTAT
1 TTTTTATATTTATAATTGAGGCCTTAATTTTTTAATCTC-AT
127134 TTTTTA-ACTTTATAATTGAGGCCTTAA--TTTTAATCTCAT
1 TTTTTATA-TTTATAATTGAGGCCTTAATTTTTTAATCTCAT
* * * * * *
127173 TTTCTATCTTTATAATCGATGCCCATAATTTTTTAATCTCAC
1 TTTTTATATTTATAATTGA-GGCCTTAATTTTTTAATCTCAT
* *
127215 TTTTTA-ATTTTATAATTGAGCCCTTATGTTTTTTCAATCTCA
1 TTTTTATA-TTTATAATTGAGGCCTTA-ATTTTTT-AATCTCA
127257 CTTTCTACCT
Statistics
Matches: 137, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
39 26 0.19
40 12 0.09
41 37 0.27
42 35 0.26
43 27 0.20
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.53
Consensus pattern (41 bp):
TTTTTATATTTATAATTGAGGCCTTAATTTTTTAATCTCAT
Found at i:127219 original size:81 final size:80
Alignment explanation
Indices: 127046--127255 Score: 208
Period size: 81 Copynumber: 2.5 Consensus size: 80
127036 TTATTCGAAC
* * * * * *
127046 CCACTTTTTATCTTTATAATTGAAGCCATTACTTTTTTTCAATCTCTTTTTTATATTTATACTTG
1 CCACTTTTTAACTTTATAATTGAGGCC-TTA--TATTTTCAATCTCTTTTCTATATTTATAATCG
* *
127111 AGGCCTTAATTTTTTAAT
63 AGCCCATAATTTTTTAAT
* *
127129 CCTATTTTTTAACTTTATAATTGAGGCCTTA-ATTTT-AATCTCATTTTCTATCTTTATAATCGA
1 CC-ACTTTTTAACTTTATAATTGAGGCCTTATATTTTCAATCTC-TTTTCTATATTTATAATCGA
127192 TGCCCATAATTTTTTAAT
64 -GCCCATAATTTTTTAAT
* * *
127210 CTCACTTTTTAATTTTATAATTGAGCCCTTATGTTTTTTCAATCTC
1 C-CACTTTTTAACTTTATAATTGAGGCCTTA--TATTTTCAATCTC
127256 ACTTTCTACC
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
79 6 0.06
80 20 0.19
81 41 0.39
82 1 0.01
83 5 0.05
84 26 0.25
85 6 0.06
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (80 bp):
CCACTTTTTAACTTTATAATTGAGGCCTTATATTTTCAATCTCTTTTCTATATTTATAATCGAGC
CCATAATTTTTTAAT
Found at i:127258 original size:43 final size:42
Alignment explanation
Indices: 127047--127344 Score: 177
Period size: 44 Copynumber: 7.0 Consensus size: 42
127037 TATTCGAACC
* *
127047 CACTTTTT-ATCTTTATAATTGAAGCCATTACTTTTTTTCAATCT
1 CACTTTTTAAT-TTTATAATTG-AGCCCTTA-GTTTTTTCAATCT
* * * *
127091 --CTTTTTTATATTTATACTTGAGGCCTTAATTTTTT-AATC-
1 CACTTTTTAAT-TTTATAATTGAGCCCTTAGTTTTTTCAATCT
* * * *
127130 CTATTTTTTAACTTTATAATTGAGGCCTTA--ATTTT-AATCT
1 C-ACTTTTTAATTTTATAATTGAGCCCTTAGTTTTTTCAATCT
* * *
127170 CA-TTTTCT-ATCTTTATAATCGATGCCCATAATTTTTT-AATCT
1 CACTTTT-TAAT-TTTATAATTGA-GCCCTTAGTTTTTTCAATCT
127212 CACTTTTTAATTTTATAATTGAGCCCTTATGTTTTTTCAATCT
1 CACTTTTTAATTTTATAATTGAGCCCTTA-GTTTTTTCAATCT
* ** * * *
127255 CACTTTCTACCTTTACAGTTGAGTCCCCTGAGTTTTTTCAATCT
1 CACTTTTTAATTTTATAATTGAG--CCCTTAGTTTTTTCAATCT
* * ** **
127299 CAATTTCTACCTTTATAATTGAGGTCCCAAAGTTTTTTCAATCT
1 CACTTTTTAATTTTATAATTGA-G-CCCTTAGTTTTTTCAATCT
127343 CA
1 CA
127345 ATTATACTGA
Statistics
Matches: 207, Mismatches: 30, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
38 5 0.02
39 20 0.10
40 10 0.05
41 29 0.14
42 46 0.22
43 40 0.19
44 51 0.25
45 6 0.03
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.50
Consensus pattern (42 bp):
CACTTTTTAATTTTATAATTGAGCCCTTAGTTTTTTCAATCT
Found at i:128325 original size:2 final size:2
Alignment explanation
Indices: 128318--128355 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
128308 GGATTGAAGG
128318 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
128356 TGACTCTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.