Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002340.1 Hibiscus syriacus cultivar Beakdansim tig00004777_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: 583550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:289 original size:17 final size:18
Alignment explanation
Indices: 267--300 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
257 ATTTAAGTAG
267 TTTATTTAGTA-AACTAT
1 TTTATTTAGTATAACTAT
284 TTTATTTAGTATAACTA
1 TTTATTTAGTATAACTA
301 CAAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTATTTAGTATAACTAT
Found at i:343 original size:27 final size:27
Alignment explanation
Indices: 291--343 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
281 TATTTTATTT
** *
291 AGTATAACTACAAAAATTTATTATTAG
1 AGTATAACTACAAAAATAAATAATTAG
318 AGTA-AACTACAATAAATAAATAATTA
1 AGTATAACTACAA-AAATAAATAATTA
344 TACTATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.32
Consensus pattern (27 bp):
AGTATAACTACAAAAATAAATAATTAG
Found at i:13958 original size:23 final size:23
Alignment explanation
Indices: 13932--14002 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
13922 GAAAGTGTAC
13932 CGATGCATCCCTTGAATATGCAT
1 CGATGCATCCCTTGAATATGCAT
* *
13955 CGAT--A-CACTATGAAGATGCA-
1 CGATGCATCCCT-TGAATATGCAT
* *
13975 CTGATGCATGCCTTGAATGTGCAT
1 C-GATGCATCCCTTGAATATGCAT
13999 CGAT
1 CGAT
14003 ACACTCGTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 4 0.11
21 13 0.36
23 16 0.44
24 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
CGATGCATCCCTTGAATATGCAT
Found at i:13981 original size:44 final size:44
Alignment explanation
Indices: 13906--14007 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 44
13896 TTGTGCACTG
* *
13906 TGCATTGATACACTATGAAAGTGTACCGATGCATCCCTTGAATA
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATA
* * *
13950 TGCATCGATACACTATG-AAGATGCACTGATGCATGCCTTGAATG
1 TGCATCGATACACTATGAAAG-TGCACCGATGCATCCCTTGAATA
13994 TGCATCGATACACT
1 TGCATCGATACACT
14008 CGTTGGGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
43 3 0.06
44 49 0.94
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATA
Found at i:16123 original size:13 final size:13
Alignment explanation
Indices: 16101--16134 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
16091 AGGAGGAGTA
*
16101 ATTTTCAAAATTG
1 ATTTTCAAAAATG
16114 A-TTTCAAAAATG
1 ATTTTCAAAAATG
16126 ATTTTCAAA
1 ATTTTCAAA
16135 GAAATCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:18524 original size:19 final size:19
Alignment explanation
Indices: 18497--18549 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
18487 ACTTTGCACT
*
18497 ATGGTATCGATACCCTTGC
1 ATGGCATCGATACCCTTGC
18516 ATGGCATCGATACCCTTGC
1 ATGGCATCGATACCCTTGC
*
18535 ATGGCATCGGTACCC
1 ATGGCATCGATACCC
18550 ATTTTGCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGGCATCGATACCCTTGC
Found at i:22662 original size:19 final size:19
Alignment explanation
Indices: 22640--22690 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
22630 AATTAAAATT
**
22640 TTATTTTATTTTAATAAAC
1 TTATTTTAAGTTAATAAAC
22659 TTATTTTAAGTTAATAAAAAAC
1 TTATTTTAAGTTAAT---AAAC
22681 TTATTTTAAG
1 TTATTTTAAG
22691 ATCAGATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 13 0.48
22 14 0.52
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
TTATTTTAAGTTAATAAAC
Found at i:24060 original size:2 final size:2
Alignment explanation
Indices: 24053--24081 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24043 TCCATATCAT
24053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24082 TGAATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24262 original size:29 final size:29
Alignment explanation
Indices: 24220--24275 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
24210 CCATAATTGA
24220 CTGGTGATAACATCCGCTACTCGATTTGC
1 CTGGTGATAACATCCGCTACTCGATTTGC
24249 CTGGTGATAACATCCGCTACTCGATTT
1 CTGGTGATAACATCCGCTACTCGATTT
24276 ACCTCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (29 bp):
CTGGTGATAACATCCGCTACTCGATTTGC
Found at i:32200 original size:2 final size:2
Alignment explanation
Indices: 32193--32242 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
32183 AAATATCTTG
32193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32235 AT AT AT AT
1 AT AT AT AT
32243 TAATAATATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37305 original size:15 final size:15
Alignment explanation
Indices: 37261--37306 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
37251 TGGAAATAAA
37261 AGATTACTGAGAAATG
1 AGATTACTGAG-AATG
* *
37277 GGATTACTGGGAATG
1 AGATTACTGAGAATG
*
37292 AGATTATTGAGAATG
1 AGATTACTGAGAATG
37307 TTATATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.28
Consensus pattern (15 bp):
AGATTACTGAGAATG
Found at i:37793 original size:20 final size:20
Alignment explanation
Indices: 37768--38062 Score: 423
Period size: 20 Copynumber: 14.7 Consensus size: 20
37758 AATTGGGAAA
37768 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37788 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37808 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37828 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37848 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37868 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37888 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37908 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
37928 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
37948 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
37968 ATCGCAATACGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
37989 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
38009 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * * *
38029 TTCTCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
38049 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
38063 TTTCAAAGCG
Statistics
Matches: 252, Mismatches: 18, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
19 4 0.02
20 224 0.89
21 22 0.09
22 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:38258 original size:22 final size:22
Alignment explanation
Indices: 38230--38273 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38220 CACTCTCTCA
38230 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
38252 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
38274 TATCTCCATC
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:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:38588 original size:20 final size:20
Alignment explanation
Indices: 38534--38592 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
38524 GCGATTCTCT
**
38534 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
38554 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
38574 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
38593 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:38783 original size:25 final size:24
Alignment explanation
Indices: 38729--38783 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
38719 TGTTTATTAT
* *
38729 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
38753 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
38779 TGTTT
1 TGTTT
38784 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:39932 original size:18 final size:18
Alignment explanation
Indices: 39911--39955 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
39901 TCCACTTCGG
*
39911 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
39929 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
39947 GAGCCATCA
1 GAGCCATCA
39956 TCTGATCGAC
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:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:40487 original size:20 final size:20
Alignment explanation
Indices: 40437--40502 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
40427 TAGTTTACTT
*
40437 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
40457 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
40477 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
40496 TCGCAAC
1 TCGCAAC
40503 CACAAATCGC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 12 0.31
20 27 0.69
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:40531 original size:31 final size:32
Alignment explanation
Indices: 40476--40564 Score: 153
Period size: 31 Copynumber: 2.8 Consensus size: 32
40466 GAAAATGGCT
40476 ATCGCAATGCGAAATGAAAATCGCAACCACAA
1 ATCGCAATGCGAAATGAAAATCGCAACCACAA
*
40508 ATCGCAATGCGAAATG-AAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACCACAA
*
40539 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
40565 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 29 0.54
32 25 0.46
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACCACAA
Found at i:40659 original size:20 final size:20
Alignment explanation
Indices: 40607--40650 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40597 TTGCGATTTT
*
40607 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
40626 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
40646 CATTT
1 CATTT
40651 TCGTGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:42542 original size:14 final size:14
Alignment explanation
Indices: 42523--42558 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
42513 ATTGTTTAAT
42523 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
42537 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
42551 TGATTTGT
1 TGATTTGT
42559 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:42666 original size:20 final size:20
Alignment explanation
Indices: 42641--42679 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42631 ATGTTGAAGG
42641 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
42661 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
42680 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:42691 original size:14 final size:14
Alignment explanation
Indices: 42672--42725 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
42662 AAAACTGACT
*
42672 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
42686 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
42705 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
42719 ATCGCAA
1 ATCGCAA
42726 TGCGATTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:42709 original size:19 final size:17
Alignment explanation
Indices: 42685--42730 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
42675 GCAACGAGAG
42685 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
42704 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
42718 AATCGCAATGCGA
1 AATCGCAATGCGA
42731 TTTTGTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:42761 original size:19 final size:20
Alignment explanation
Indices: 42737--42786 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
42727 GCGATTTTGT
42737 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
42756 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
42776 CGTTGCGATAG
1 CGTTGCGATAG
42787 TCAAATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:46332 original size:33 final size:33
Alignment explanation
Indices: 46290--46416 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
46280 GGAAATTACT
46290 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
46323 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
46355 TTTTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
46389 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
46417 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:46399 original size:66 final size:66
Alignment explanation
Indices: 46293--46423 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
46283 AATTACTATC
*
46293 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
46358 T
66 T
*
46359 GCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
46424 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:46598 original size:14 final size:14
Alignment explanation
Indices: 46579--46615 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
46569 CATCAATTAA
46579 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
46593 ACAAATCACCTTTT
1 ACAAATCAACTTTT
46607 ACAAATCAA
1 ACAAATCAA
46616 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:48029 original size:42 final size:41
Alignment explanation
Indices: 47970--48173 Score: 162
Period size: 42 Copynumber: 4.9 Consensus size: 41
47960 GTGAATCGGG
* *
47970 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
48012 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
48054 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
48096 CTCTTGAACGGTGGG-GGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
48136 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
48174 GCGAGTCGGG
Statistics
Matches: 124, Mismatches: 30, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
39 3 0.02
40 27 0.22
41 7 0.06
42 77 0.62
43 10 0.08
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:48036 original size:21 final size:21
Alignment explanation
Indices: 47970--48036 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
47960 GTGAATCGGG
*
47970 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
47990 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
48012 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
48033 CTCT
1 CTCT
48037 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:48142 original size:82 final size:84
Alignment explanation
Indices: 48000--48173 Score: 325
Period size: 82 Copynumber: 2.1 Consensus size: 84
47990 CCTCTTCAAC
*
48000 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
48065 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
48084 GATGACAGTGGCCTCTTGAACGGT-GG-GGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
48147 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
48166 GATGACAG
1 GATGACAG
48174 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 63 0.71
83 2 0.02
84 24 0.27
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:48499 original size:92 final size:90
Alignment explanation
Indices: 48390--48574 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
48380 ATATTTCAAA
*
48390 ACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAAATTCACAGTGTTAAAGAATACACAGTTT
1 ACTTCAACCAAAAGACAAAACAAAAGACAAATACTAAATTCACAGTGTT----AATAAACAGTTT
48454 AGCA-AATTGGCAGCAACCGAATAAATTT
62 AGCAGAATTGGCAGCAACCGAATAAATTT
*
48482 ACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCA
1 ACTTCAACCAAAAGACAAAACAAAAGACAAATACTAAATTCACAGTGTTAATAAACAGTTTAGCA
*
48547 GTATTGGCAGCAACCGAATAAATTT
66 GAATTGGCAGCAACCGAATAAATTT
48572 ACT
1 ACT
48575 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
89 15 0.17
90 26 0.30
92 21 0.24
93 26 0.30
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAAGACAAATACTAAATTCACAGTGTTAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:48777 original size:63 final size:63
Alignment explanation
Indices: 48718--48859 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 63
48708 CTTAGAGCGT
* * *
48718 CAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* * * *** *
48781 CGATCTCCTCACGCAAGGCATTGACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* *
48844 CGATCTCCTCACGCAA
1 CAACCTCCTCACGCAA
48860 GGCATTGACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
62 1 0.01
63 69 0.99
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.19
Consensus pattern (63 bp):
CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
Found at i:48860 original size:63 final size:63
Alignment explanation
Indices: 48741--48871 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
48731 TAAAGTAGAC
48741 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
48804 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
48867 ACCTC
1 ACCTC
48872 ATCACGTAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
Found at i:50358 original size:39 final size:38
Alignment explanation
Indices: 50315--50426 Score: 126
Period size: 33 Copynumber: 3.1 Consensus size: 38
50305 TCTTTTGGTT
*
50315 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGC
*
50354 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
* * * *
50390 G--A-GAGAATCGCAACGCGAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
50425 GA
1 GA
50427 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
33 28 0.42
34 1 0.02
35 2 0.03
36 2 0.03
38 13 0.20
39 20 0.30
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGC
Found at i:50365 original size:19 final size:19
Alignment explanation
Indices: 50315--50426 Score: 135
Period size: 19 Copynumber: 6.1 Consensus size: 19
50305 TCTTTTGGTT
*
50315 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
50334 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
50354 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
50373 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
50390 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
50406 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
50425 GA
1 GA
50427 TTTTGGTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 47 0.59
20 17 0.21
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:50444 original size:19 final size:18
Alignment explanation
Indices: 50422--50488 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
50412 AAAATCGCAA
*
50422 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
*
50441 TGCGTTTTTTATTTCGCGT
1 TGCG-ATTTTATTTCGCGT
*
50460 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
50480 TGCGATTTT
1 TGCGATTTT
50489 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 24 0.60
20 15 0.38
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.49
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:51030 original size:20 final size:20
Alignment explanation
Indices: 51005--51057 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
50995 GCGCTATGTA
51005 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
51025 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
51045 TATCTCGTTGCGA
1 AATCGCGTTGCGA
51058 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:51091 original size:20 final size:20
Alignment explanation
Indices: 51066--51119 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
51056 GATTTTGTAT
*
51066 TATCGCATTACGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
51086 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
51106 TATCGCATTGCGAT
1 TATCGCATTGCGAT
51120 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:51230 original size:21 final size:21
Alignment explanation
Indices: 51190--51230 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51180 ACTGTAGATC
**
51190 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
51211 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
51231 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:55425 original size:21 final size:21
Alignment explanation
Indices: 55379--55425 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
55369 ACATCATCAT
*
55379 ATATTGTATACTGCTACAACA
1 ATATTGTAAACTGCTACAACA
* *
55400 GTATTGTAAACTGGC-ACACCA
1 ATATTGTAAACT-GCTACAACA
55421 ATATT
1 ATATT
55426 ATAGATTGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (21 bp):
ATATTGTAAACTGCTACAACA
Found at i:63693 original size:75 final size:72
Alignment explanation
Indices: 63500--63720 Score: 286
Period size: 72 Copynumber: 3.0 Consensus size: 72
63490 AGCATATATA
* * *
63500 GATGGTGATCAGAATGATTGTGGCATGCTTGATGCCAAGGTTTTAAGAAGCAGAAAGCATCCTAT
1 GATGGTGATCAAAATGA-TGTAGCATGCTTGATG-CAAGGTTTTAAGAAGCGGAAAGCATCCTAT
63565 TAGGAAGGT
64 TAGGAAGGT
* *
63574 -A-GATGATCAAAATGATAGTAGCATGCTTGATATCAAGGTTTTAAGAAGCGGAAAGCATCCTAT
1 GATGGTGATCAAAATGAT-GTAGCATGCTTGAT-GCAAGGTTTTAAGAAGCGGAAAGCATCCTAT
63637 TA-GAGAGGT
64 TAGGA-AGGT
*
63646 GGATGGTGATCAAAATGACTGTAGCATGCATGATGCAAAGGTTTTAAGAAGCGGAAAGCATCCTA
1 -GATGGTGATCAAAATGA-TGTAGCATGCTTGATGC-AAGGTTTTAAGAAGCGGAAAGCATCCTA
*
63711 TTCGGAAGGT
63 TTAGGAAGGT
63721 TGTTCCTAGA
Statistics
Matches: 129, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
71 3 0.02
72 60 0.47
73 1 0.01
74 2 0.02
75 60 0.47
76 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (72 bp):
GATGGTGATCAAAATGATGTAGCATGCTTGATGCAAGGTTTTAAGAAGCGGAAAGCATCCTATTA
GGAAGGT
Found at i:65378 original size:2 final size:2
Alignment explanation
Indices: 65371--65420 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
65361 CTTCACACCC
65371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65413 AT AT AT AT
1 AT AT AT AT
65421 TTTATTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73416 original size:18 final size:18
Alignment explanation
Indices: 73390--73425 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73380 AAGATTTTTT
73390 TTTTATAAAGTAAGAATG
1 TTTTATAAAGTAAGAATG
* *
73408 TTTTCTAAAGTTAGAATG
1 TTTTATAAAGTAAGAATG
73426 AATCTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (18 bp):
TTTTATAAAGTAAGAATG
Found at i:77485 original size:38 final size:38
Alignment explanation
Indices: 77430--77519 Score: 164
Period size: 38 Copynumber: 2.4 Consensus size: 38
77420 AAACAATTGA
*
77430 TTCCTT-AATCTTATGCATTTATATTAGAATATTTAAT
1 TTCCTTAAATCTTTTGCATTTATATTAGAATATTTAAT
77467 TTCCTTAAATCTTTTGCATTTATATTAGAATATTTAAT
1 TTCCTTAAATCTTTTGCATTTATATTAGAATATTTAAT
77505 TTCCTTAAATCTTTT
1 TTCCTTAAATCTTTT
77520 CTATTTCATT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 6 0.12
38 45 0.88
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.53
Consensus pattern (38 bp):
TTCCTTAAATCTTTTGCATTTATATTAGAATATTTAAT
Found at i:79066 original size:18 final size:17
Alignment explanation
Indices: 79039--79087 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
79029 GAGTTAGTGT
*
79039 AGAAATCAGACTATAGAA
1 AGAAAACAGACTATAG-A
*
79057 AGAAAACAGACTGTATAGT
1 AGAAAACAGAC--TATAGA
79076 AGAAAACAGACT
1 AGAAAACAGACT
79088 GTAGGAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 11 0.41
20 5 0.19
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.16
Consensus pattern (17 bp):
AGAAAACAGACTATAGA
Found at i:79186 original size:15 final size:15
Alignment explanation
Indices: 79166--79195 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79156 CAAATAATGC
79166 CTCTAAATTAGGAAA
1 CTCTAAATTAGGAAA
*
79181 CTCTAAGTTAGGAAA
1 CTCTAAATTAGGAAA
79196 GATACTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (15 bp):
CTCTAAATTAGGAAA
Found at i:85192 original size:57 final size:57
Alignment explanation
Indices: 85102--85217 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
85092 GATGGAACCA
85102 CCAGCACCTCTGCAGCAAAACCAAGAATATGATCCTAGTCCAAGATCTTGTGAAGAT
1 CCAGCACCTCTGCAGCAAAACCAAGAATATGATCCTAGTCCAAGATCTTGTGAAGAT
* *
85159 CCAGCATCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
1 CCAGCACCTCTGCAGCAAAACCAAGAATATGATCCTAGTCCAAGATCTTGTGAAGAT
85216 CC
1 CC
85218 TTCAGGTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (57 bp):
CCAGCACCTCTGCAGCAAAACCAAGAATATGATCCTAGTCCAAGATCTTGTGAAGAT
Found at i:93719 original size:790 final size:790
Alignment explanation
Indices: 92198--93777 Score: 3142
Period size: 790 Copynumber: 2.0 Consensus size: 790
92188 CAGGGAGTTG
92198 CTGAATTTTGTTACTACTCAAACCGCATCAGTTTGCATTGGGGGCGATTTTAATGTGTACCTCGA
1 CTGAATTTTGTTACTACTCAAACCGCATCAGTTTGCATTGGGGGCGATTTTAATGTGTACCTCGA
92263 TCCGGTAGAGAAGTTGGGAAAGTCTCAGAACTGGTTATCTATAAATATTCTAAGAAATTTTCTGA
66 TCCGGTAGAGAAGTTGGGAAAGTCTCAGAACTGGTTATCTATAAATATTCTAAGAAATTTTCTGA
92328 ATCAATCTAACTTAATCGATCTGCCTATGGTCGGGGGAAGGTTTACCTGGTGTAATAATATAGAA
131 ATCAATCTAACTTAATCGATCTGCCTATGGTCGGGGGAAGGTTTACCTGGTGTAATAATATAGAA
*
92393 GCCTTTACTTGGGTCAGATTGGATAGGTTTTTAATTTCTGGGAATTTTCTGATTAGTTTTCCTAA
196 GCCTCTACTTGGGTCAGATTGGATAGGTTTTTAATTTCTGGGAATTTTCTGATTAGTTTTCCTAA
92458 TGTTGTGCAAAAACTATTACCCAGATCATTATCTGACCACAATCCCGTATCTTTGGAGGATAAAC
261 TGTTGTGCAAAAACTATTACCCAGATCATTATCTGACCACAATCCCGTATCTTTGGAGGATAAAC
92523 CTGTAGACTGGGGTCCCAAACCATTCAGGTTTTTCAATTATCTCCTAGAGGAAGAGGGCTTCGAG
326 CTGTAGACTGGGGTCCCAAACCATTCAGGTTTTTCAATTATCTCCTAGAGGAAGAGGGCTTCGAG
92588 GAATTGGTTAAATCATCCTTGGAGAATTTGAGGGGGAGTAGAGAGAGAAGGGGATTATTCAGTTT
391 GAATTGGTTAAATCATCCTTGGAGAATTTGAGGGGGAGTAGAGAGAGAAGGGGATTATTCAGTTT
92653 TCTGCAAGGCACAAAAAAATCGATCAAAACCAGGTCAGGCAGTAAATTTAAAGGGATTTCTGGGT
456 TCTGCAAGGCACAAAAAAATCGATCAAAACCAGGTCAGGCAGTAAATTTAAAGGGATTTCTGGGT
92718 CTATTGCTGACTTGGAATTGAAGATTAATGATCTTGAATTTAAGGCTCAAGCTGATGATATTTCC
521 CTATTGCTGACTTGGAATTGAAGATTAATGATCTTGAATTTAAGGCTCAAGCTGATGATATTTCC
92783 TAATAGGACTGGGAGCAGTTACTGCAGTTAAGATCGAATCTTTGGAAGCTATATAGGATTGAAGC
586 TAATAGGACTGGGAGCAGTTACTGCAGTTAAGATCGAATCTTTGGAAGCTATATAGGATTGAAGC
92848 ATCTGGTTTCAGAAATCTAGGGTGAGATGGATTAAAGATGGGGACAGAAATACAAGATTCTTTCA
651 ATCTGGTTTCAGAAATCTAGGGTGAGATGGATTAAAGATGGGGACAGAAATACAAGATTCTTTCA
92913 TCTGTCGGCACTGAACAGAAGTAGGAGGAATGAAATTTCTAGCTTGAAGATTAATGGCTCTGAAG
716 TCTGTCGGCACTGAACAGAAGTAGGAGGAATGAAATTTCTAGCTTGAAGATTAATGGCTCTGAAG
92978 TATCAGATCC
781 TATCAGATCC
92988 CTGAATTTTGTTACTACTCAAACCGCATCAGTTTGCATTGGGGGCGATTTTAATGTGTACCTCGA
1 CTGAATTTTGTTACTACTCAAACCGCATCAGTTTGCATTGGGGGCGATTTTAATGTGTACCTCGA
93053 TCCGGTAGAGAAGTTGGGAAAGTCTCAGAACTGGTTATCTATAAATATTCTAAGAAATTTTCTGA
66 TCCGGTAGAGAAGTTGGGAAAGTCTCAGAACTGGTTATCTATAAATATTCTAAGAAATTTTCTGA
93118 ATCAATCTAACTTAATCGATCTGCCTATGGTCGGGGGAAGGTTTACCTGGTGTAATAATATAGAA
131 ATCAATCTAACTTAATCGATCTGCCTATGGTCGGGGGAAGGTTTACCTGGTGTAATAATATAGAA
93183 GCCTCTACTTGGGTCAGATTGGATAGGTTTTTAATTTCTGGGAATTTTCTGATTAGTTTTCCTAA
196 GCCTCTACTTGGGTCAGATTGGATAGGTTTTTAATTTCTGGGAATTTTCTGATTAGTTTTCCTAA
*
93248 TGTTGTGCAAAAACTATTACCCAGATCATTATCTGACCACAATCCCGTATTTTTGGAGGATAAAC
261 TGTTGTGCAAAAACTATTACCCAGATCATTATCTGACCACAATCCCGTATCTTTGGAGGATAAAC
93313 CTGTAGACTGGGGTCCCAAACCATTCAGGTTTTTCAATTATCTCCTAGAGGAAGAGGGCTTCGAG
326 CTGTAGACTGGGGTCCCAAACCATTCAGGTTTTTCAATTATCTCCTAGAGGAAGAGGGCTTCGAG
93378 GAATTGGTTAAATCATCCTTGGAGAATTTGAGGGGGAGTAGAGAGAGAAGGGGATTATTCAGTTT
391 GAATTGGTTAAATCATCCTTGGAGAATTTGAGGGGGAGTAGAGAGAGAAGGGGATTATTCAGTTT
93443 TCTGCAAGGCACAAAAAAATCGATCAAAACCAGGTCAGGCAGTAAATTTAAAGGGATTTCTGGGT
456 TCTGCAAGGCACAAAAAAATCGATCAAAACCAGGTCAGGCAGTAAATTTAAAGGGATTTCTGGGT
93508 CTATTGCTGACTTGGAATTGAAGATTAATGATCTTGAATTTAAGGCTCAAGCTGATGATATTTCC
521 CTATTGCTGACTTGGAATTGAAGATTAATGATCTTGAATTTAAGGCTCAAGCTGATGATATTTCC
93573 TAATAGGACTGGGAGCAGTTACTGCAGTTAAGATCGAATCTTTGGAAGCTATATAGGATTGAAGC
586 TAATAGGACTGGGAGCAGTTACTGCAGTTAAGATCGAATCTTTGGAAGCTATATAGGATTGAAGC
93638 ATCTGGTTTCAGAAATCTAGGGTGAGATGGATTAAAGATGGGGACAGAAATACAAGATTCTTTCA
651 ATCTGGTTTCAGAAATCTAGGGTGAGATGGATTAAAGATGGGGACAGAAATACAAGATTCTTTCA
93703 TCTGTCGGCACTGAACAGAAGTAGGAGGAATGAAATTTCTAGCTTGAAGATTAATGGCTCTGAAG
716 TCTGTCGGCACTGAACAGAAGTAGGAGGAATGAAATTTCTAGCTTGAAGATTAATGGCTCTGAAG
93768 TATCAGATCC
781 TATCAGATCC
93778 GCAATCAATT
Statistics
Matches: 788, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
790 788 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (790 bp):
CTGAATTTTGTTACTACTCAAACCGCATCAGTTTGCATTGGGGGCGATTTTAATGTGTACCTCGA
TCCGGTAGAGAAGTTGGGAAAGTCTCAGAACTGGTTATCTATAAATATTCTAAGAAATTTTCTGA
ATCAATCTAACTTAATCGATCTGCCTATGGTCGGGGGAAGGTTTACCTGGTGTAATAATATAGAA
GCCTCTACTTGGGTCAGATTGGATAGGTTTTTAATTTCTGGGAATTTTCTGATTAGTTTTCCTAA
TGTTGTGCAAAAACTATTACCCAGATCATTATCTGACCACAATCCCGTATCTTTGGAGGATAAAC
CTGTAGACTGGGGTCCCAAACCATTCAGGTTTTTCAATTATCTCCTAGAGGAAGAGGGCTTCGAG
GAATTGGTTAAATCATCCTTGGAGAATTTGAGGGGGAGTAGAGAGAGAAGGGGATTATTCAGTTT
TCTGCAAGGCACAAAAAAATCGATCAAAACCAGGTCAGGCAGTAAATTTAAAGGGATTTCTGGGT
CTATTGCTGACTTGGAATTGAAGATTAATGATCTTGAATTTAAGGCTCAAGCTGATGATATTTCC
TAATAGGACTGGGAGCAGTTACTGCAGTTAAGATCGAATCTTTGGAAGCTATATAGGATTGAAGC
ATCTGGTTTCAGAAATCTAGGGTGAGATGGATTAAAGATGGGGACAGAAATACAAGATTCTTTCA
TCTGTCGGCACTGAACAGAAGTAGGAGGAATGAAATTTCTAGCTTGAAGATTAATGGCTCTGAAG
TATCAGATCC
Found at i:102104 original size:12 final size:12
Alignment explanation
Indices: 102087--102117 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102077 ATGATAGATG
102087 GAACAATTAATA
1 GAACAATTAATA
*
102099 GAACAAATAATA
1 GAACAATTAATA
102111 GAACAAT
1 GAACAAT
102118 AGATATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.19
Consensus pattern (12 bp):
GAACAATTAATA
Found at i:133417 original size:31 final size:34
Alignment explanation
Indices: 133359--133421 Score: 96
Period size: 31 Copynumber: 1.9 Consensus size: 34
133349 GTTTATTAAT
133359 TTTTTTTAAAAAAAGATCTTGTATTAATGATGAGA
1 TTTTTTTAAAAAAAGATC-TGTATTAATGATGAGA
133394 TTTTTTT-AAAAAA-ATC-GTATTAATGATG
1 TTTTTTTAAAAAAAGATCTGTATTAATGATG
133422 GAATTATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 12 0.43
33 3 0.11
34 6 0.21
35 7 0.25
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.44
Consensus pattern (34 bp):
TTTTTTTAAAAAAAGATCTGTATTAATGATGAGA
Found at i:134160 original size:37 final size:37
Alignment explanation
Indices: 134087--134161 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
134077 GTTGGAAAAT
*
134087 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
134124 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
134161 A
1 A
134162 AGGTTTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:144981 original size:16 final size:16
Alignment explanation
Indices: 144960--144991 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
144950 GTTCAACCAG
144960 TCGAATCGGTTCGACC
1 TCGAATCGGTTCGACC
144976 TCGAATCGGTTCGACC
1 TCGAATCGGTTCGACC
144992 GGTCGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (16 bp):
TCGAATCGGTTCGACC
Found at i:145580 original size:623 final size:623
Alignment explanation
Indices: 144394--145598 Score: 2383
Period size: 623 Copynumber: 1.9 Consensus size: 623
144384 GAAAATTGGC
144394 TTGCAGATACCAGTTAGAGACGATCTTAGCCAAGACCTTTCTTCCGTTGGAATATAAACTTCCAA
1 TTGCAGATACCAGTTAGAGACGATCTTAGCCAAGACCTTTCTTCCGTTGGAATATAAACTTCCAA
144459 AGGCTTCTTAACCTCCCTCTTATCTCAATAGCTACTCACTTGCTGAACCTCAACGTTAATCGTTC
66 AGGCTTCTTAACCTCCCTCTTATCTCAATAGCTACTCACTTGCTGAACCTCAACGTTAATCGTTC
144524 CCACTACCGTATCCTTATAAGACCTACCATCATGAAACTTATTCAGCAACTCCCTTTTCCCCACA
131 CCACTACCGTATCCTTATAAGACCTACCATCATGAAACTTATTCAGCAACTCCCTTTTCCCCACA
*
144589 TCAACTTGGGATATTGATCTCTTCCCACTCGGCTCCTCTACTCTAGCACCTCCAGACCCCGCTAC
196 TCAACTTGGGATATTGATCTCTTCCCACTCGGCTCCTCTACACTAGCACCTCCAGACCCCGCTAC
144654 AGTAAATTGCTCTCGGTTCCGCGAAATACTTCTCTTCTGGTATTTCGCAATCGACAATGATCTTC
261 AGTAAATTGCTCTCGGTTCCGCGAAATACTTCTCTTCTGGTATTTCGCAATCGACAATGATCTTC
144719 TCCTCCCATCGACCAAAATTAAATTAGCATGGGAAACACAATCCTGGAAGTGTATGGAATAATCC
326 TCCTCCCATCGACCAAAATTAAATTAGCATGGGAAACACAATCCTGGAAGTGTATGGAATAATCC
144784 TGCTTGTGAGGCTTCCAAATGACAAAATGGACAGAGAGCATAATTCTACAGCTTCTATACTTACA
391 TGCTTGTGAGGCTTCCAAATGACAAAATGGACAGAGAGCATAATTCTACAGCTTCTATACTTACA
144849 GCACTAAGTTCTTTCACTGCATCAAAAAAATAAACACCAATACTAATCATGGTTTTCAGAACCGG
456 GCACTAAGTTCTTTCACTGCATCAAAAAAATAAACACCAATACTAATCATGGTTTTCAGAACCGG
144914 ACCGGTTAGCGAACTGGCCATGATATCGGTTCACTGGTTCAACCAGTCGAATCGGTTCGACCTCG
521 ACCGGTTAGCGAACTGGCCATGATATCGGTTCACTGGTTCAACCAGTCGAATCGGTTCGACCTCG
144979 AATCGGTTCGACCGGTCGGAAGAACCGATTCGACTGGT
586 AATCGGTTCGACCGGTCGGAAGAACCGATTCGACTGGT
145017 TTGCAGATACCAGTTAGAGACGATCTTAGCCAAGACCTTTCTTCCGTTGGAATATAAACTTCCAA
1 TTGCAGATACCAGTTAGAGACGATCTTAGCCAAGACCTTTCTTCCGTTGGAATATAAACTTCCAA
145082 AGGCTTCTTAACCTCCCTCTTATCTCAATAGCTACTCACTTGCTGAACCTCAACGTTAATCGTTC
66 AGGCTTCTTAACCTCCCTCTTATCTCAATAGCTACTCACTTGCTGAACCTCAACGTTAATCGTTC
145147 CCACTACCGTATCCTTATAAGACCTACCATCATGAAACTTATTCAGCAACTCCCTTTTCCCCACA
131 CCACTACCGTATCCTTATAAGACCTACCATCATGAAACTTATTCAGCAACTCCCTTTTCCCCACA
145212 TCAACTTGGGATATTGATCTCTTCCCACTCGGCTCCTCTACACTAGCACCTCCAGACCCCGCTAC
196 TCAACTTGGGATATTGATCTCTTCCCACTCGGCTCCTCTACACTAGCACCTCCAGACCCCGCTAC
145277 AGTAAATTGCTCTCGGTTCCGCGAAATACTTCTCTTCTGGTATTTCGCAATCGACAATGATCTTC
261 AGTAAATTGCTCTCGGTTCCGCGAAATACTTCTCTTCTGGTATTTCGCAATCGACAATGATCTTC
*
145342 TTCTCCCATCGACCAAAATTAAATTAGCATGGGAAACACAATCCTGGAAGTGTATGGAATAATCC
326 TCCTCCCATCGACCAAAATTAAATTAGCATGGGAAACACAATCCTGGAAGTGTATGGAATAATCC
*
145407 TGCTTGTGAGGCTTCCAAATGACAAACTGGACAGAGAGCATAATTCTACAGCTTCTATACTTACA
391 TGCTTGTGAGGCTTCCAAATGACAAAATGGACAGAGAGCATAATTCTACAGCTTCTATACTTACA
145472 GCACTAAGTTCTTTCACTGCATCAAAAAAATAAACACCAATACTAATCATGGTTTTCAGAACCGG
456 GCACTAAGTTCTTTCACTGCATCAAAAAAATAAACACCAATACTAATCATGGTTTTCAGAACCGG
145537 ACCGGTTAGCGAACTGGCCATGATATCGGTTCACTGGTTCAACCAGTCGAATCGGTTCGACC
521 ACCGGTTAGCGAACTGGCCATGATATCGGTTCACTGGTTCAACCAGTCGAATCGGTTCGACC
145599 GGTCGGAAGA
Statistics
Matches: 579, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
623 579 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (623 bp):
TTGCAGATACCAGTTAGAGACGATCTTAGCCAAGACCTTTCTTCCGTTGGAATATAAACTTCCAA
AGGCTTCTTAACCTCCCTCTTATCTCAATAGCTACTCACTTGCTGAACCTCAACGTTAATCGTTC
CCACTACCGTATCCTTATAAGACCTACCATCATGAAACTTATTCAGCAACTCCCTTTTCCCCACA
TCAACTTGGGATATTGATCTCTTCCCACTCGGCTCCTCTACACTAGCACCTCCAGACCCCGCTAC
AGTAAATTGCTCTCGGTTCCGCGAAATACTTCTCTTCTGGTATTTCGCAATCGACAATGATCTTC
TCCTCCCATCGACCAAAATTAAATTAGCATGGGAAACACAATCCTGGAAGTGTATGGAATAATCC
TGCTTGTGAGGCTTCCAAATGACAAAATGGACAGAGAGCATAATTCTACAGCTTCTATACTTACA
GCACTAAGTTCTTTCACTGCATCAAAAAAATAAACACCAATACTAATCATGGTTTTCAGAACCGG
ACCGGTTAGCGAACTGGCCATGATATCGGTTCACTGGTTCAACCAGTCGAATCGGTTCGACCTCG
AATCGGTTCGACCGGTCGGAAGAACCGATTCGACTGGT
Found at i:146050 original size:24 final size:25
Alignment explanation
Indices: 146018--146064 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
146008 CTATTCTTTC
146018 ACTTCAATCAAGC-TCGAATTTTAG
1 ACTTCAATCAAGCTTCGAATTTTAG
* *
146042 ACTTCAATCGAGCTTCTAATTTT
1 ACTTCAATCAAGCTTCGAATTTT
146065 TTTTTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (25 bp):
ACTTCAATCAAGCTTCGAATTTTAG
Found at i:151300 original size:21 final size:20
Alignment explanation
Indices: 151276--151320 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
151266 AAGTTCTCCC
151276 ATGAACAAAAAATATAAAACA
1 ATGAA-AAAAAATATAAAACA
**
151297 ATG-AAGTAAATATAAAACA
1 ATGAAAAAAAATATAAAACA
151316 ATGAA
1 ATGAA
151321 GATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 16 0.76
20 2 0.10
21 3 0.14
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.18
Consensus pattern (20 bp):
ATGAAAAAAAATATAAAACA
Found at i:151327 original size:19 final size:19
Alignment explanation
Indices: 151285--151321 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
151275 CATGAACAAA
151285 AAATATAAAACAATGAAGT
1 AAATATAAAACAATGAAGT
151304 AAATATAAAACAATGAAG
1 AAATATAAAACAATGAAG
151322 ATAATAATAA
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:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (19 bp):
AAATATAAAACAATGAAGT
Found at i:151809 original size:2 final size:2
Alignment explanation
Indices: 151802--151831 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
151792 TTGATGCAAA
151802 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
151832 CACTAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:155001 original size:14 final size:15
Alignment explanation
Indices: 154982--155018 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
154972 TTTTCAAGTG
154982 TTTAAATATA-ATTT
1 TTTAAATATATATTT
154996 TTTAAATATATATTT
1 TTTAAATATATATTT
*
155011 ATTAAATA
1 TTTAAATA
155019 ATTGAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAAATATATATTT
Found at i:158282 original size:41 final size:42
Alignment explanation
Indices: 158207--158292 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
158197 AATAATACAA
* *
158207 TTATAATTATTTATTATATTTAAATTATTAAAATAATATATT
1 TTATAATAATTTATTATATTTAAATAATTAAAATAATATATT
158249 TTATAATAATTTATTATATTTTAAA-AATT-AAATAATATATT
1 TTATAATAATTTATTATA-TTTAAATAATTAAAATAATATATT
158290 TTA
1 TTA
158293 ACATTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
41 15 0.37
42 20 0.49
43 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (42 bp):
TTATAATAATTTATTATATTTAAATAATTAAAATAATATATT
Found at i:158289 original size:21 final size:22
Alignment explanation
Indices: 158221--158293 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
158211 AATTATTTAT
*
158221 TATA-TTTAAATTATTAAAATAA
1 TATATTTTAAATAATT-AAATAA
*
158243 TATATTTTATAATAATT---TAT
1 TATATTTTA-AATAATTAAATAA
158263 TATATTTTAAA-AATTAAATAA
1 TATATTTTAAATAATTAAATAA
158284 TATATTTTAA
1 TATATTTTAA
158294 CATTAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
18 4 0.09
19 2 0.05
20 11 0.26
21 12 0.28
22 4 0.09
23 4 0.09
24 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTTTAAATAATTAAATAA
Found at i:158300 original size:20 final size:19
Alignment explanation
Indices: 158237--158300 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
158227 TAAATTATTA
158237 AAATAATATATTTTATAA-T
1 AAATAATATATTTTA-AATT
* *
158256 AATTTATTATATTTTAAAAATT
1 AA-ATAATATATTTT--AAATT
158278 AAATAATATATTTTAACATT
1 AAATAATATATTTTAA-ATT
158298 AAA
1 AAA
158301 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 4 0.11
20 16 0.44
21 12 0.33
22 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATATATTTTAAATT
Found at i:158757 original size:12 final size:12
Alignment explanation
Indices: 158740--158767 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
158730 AATACAACAA
158740 AAGTGATAATTT
1 AAGTGATAATTT
158752 AAGTGATAATTT
1 AAGTGATAATTT
158764 AAGT
1 AAGT
158768 ATTAAACGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (12 bp):
AAGTGATAATTT
Found at i:158900 original size:10 final size:10
Alignment explanation
Indices: 158885--158930 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
158875 AATAAATAAT
158885 ATATTTTTTC
1 ATATTTTTTC
*
158895 ATA-TTTTTA
1 ATATTTTTTC
*
158904 ATATTTTTTG
1 ATATTTTTTC
*
158914 A-AGTTTTTC
1 ATATTTTTTC
158923 ATATTTTT
1 ATATTTTT
158931 ATAGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (10 bp):
ATATTTTTTC
Found at i:158909 original size:19 final size:19
Alignment explanation
Indices: 158885--158930 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
158875 AATAAATAAT
158885 ATATTTTTTCATA-TTTTTA
1 ATATTTTTTCA-AGTTTTTA
* *
158904 ATATTTTTTGAAGTTTTTC
1 ATATTTTTTCAAGTTTTTA
158923 ATATTTTT
1 ATATTTTT
158931 ATAGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
ATATTTTTTCAAGTTTTTA
Found at i:161728 original size:26 final size:26
Alignment explanation
Indices: 161675--161729 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
161665 GACAGTCAAT
*
161675 CTAGATAAAAAAAAAAATGTGATTGA
1 CTAGATAAAAAAAAAAATGTGATGGA
*
161701 CTAGAT-AAAAAACAAATGTGAGTGGA
1 CTAGATAAAAAAAAAAATGTGA-TGGA
161727 CTA
1 CTA
161730 TAAAGCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.22
Consensus pattern (26 bp):
CTAGATAAAAAAAAAAATGTGATGGA
Found at i:161909 original size:44 final size:43
Alignment explanation
Indices: 161860--162001 Score: 203
Period size: 44 Copynumber: 3.2 Consensus size: 43
161850 CGTCGGAGAC
* *
161860 AAATTCTTTACTTGTTCTAACGATCAACTTGCTTTCTTCTCAAG
1 AAATTCTTTACTTGTT-TAACAATCAACTTTCTTTCTTCTCAAG
* *
161904 AAATTCTTTACTTGTTTTAACAATCAGCTTTCTTTCTTCTCAAT
1 AAATTCTTTACTTG-TTTAACAATCAACTTTCTTTCTTCTCAAG
* *
161948 AAATTCTTTACTTGTTTGAACTACCAACTTTCTTTCTTCTCAAG
1 AAATTCTTTACTTGTTT-AACAATCAACTTTCTTTCTTCTCAAG
161992 AAATTCTTTA
1 AAATTCTTTA
162002 TTTCGTTTGA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.03
44 83 0.94
45 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.46
Consensus pattern (43 bp):
AAATTCTTTACTTGTTTAACAATCAACTTTCTTTCTTCTCAAG
Found at i:165472 original size:42 final size:42
Alignment explanation
Indices: 165399--165496 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
165389 TAAGTAAAGA
* * *
165399 AGACGGAGAACATGGATCAAATGGAAACAACAATAGAGGCTG
1 AGACAGAGATCATAGATCAAATGGAAACAACAATAGAGGCTG
165441 AGACAGAGATCATAGATCAAATGGAAACAACAATAGAGGCTG
1 AGACAGAGATCATAGATCAAATGGAAACAACAATAGAGGCTG
165483 AGACAGAGATCATA
1 AGACAGAGATCATA
165497 ATAGAGGTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.13
Consensus pattern (42 bp):
AGACAGAGATCATAGATCAAATGGAAACAACAATAGAGGCTG
Found at i:166500 original size:21 final size:20
Alignment explanation
Indices: 166414--166571 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
166404 AAATGACCAA
**
166414 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
166433 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
166453 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
166473 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
166494 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
166515 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
166535 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
166556 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
166572 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:166600 original size:20 final size:20
Alignment explanation
Indices: 166539--166767 Score: 237
Period size: 20 Copynumber: 11.4 Consensus size: 20
166529 GATTTTCAAG
* ** *
166539 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
166559 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
166579 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
166599 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
166619 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
166639 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
166659 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
166679 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
166699 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
166719 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
166739 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
166759 AATCACAAC
1 AATCGCAAC
166768 ACTGAAATTT
Statistics
Matches: 181, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.01
20 177 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:167487 original size:24 final size:24
Alignment explanation
Indices: 167460--167506 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
167450 AAATTTGGTC
167460 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
167484 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
167507 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:167698 original size:12 final size:12
Alignment explanation
Indices: 167681--167705 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
167671 ATATAATCCT
167681 GAAGAAGAAAAA
1 GAAGAAGAAAAA
167693 GAAGAAGAAAAA
1 GAAGAAGAAAAA
167705 G
1 G
167706 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:170071 original size:19 final size:19
Alignment explanation
Indices: 170030--170263 Score: 291
Period size: 19 Copynumber: 12.9 Consensus size: 19
170020 AAATCCCAAC
170030 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
170050 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
170069 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
170088 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
170103 A-GAGAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
170122 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
170141 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
170156 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
170174 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
170193 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
* *
170208 A-GAGAATCGCAATACAGAA
1 ATGAAAATCGCAATGC-GAA
170227 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
170246 ATGAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
170264 TTCTCTCGTT
Statistics
Matches: 189, Mismatches: 8, Indels: 35
0.81 0.03 0.15
Matches are distributed among these distances:
14 30 0.16
15 3 0.02
16 4 0.02
17 8 0.04
18 1 0.01
19 102 0.54
20 41 0.22
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:170111 original size:72 final size:71
Alignment explanation
Indices: 170008--170239 Score: 266
Period size: 72 Copynumber: 3.3 Consensus size: 71
169998 AGAGAATCAA
*
170008 AATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATG
1 AATGCGAAATGAAAATCGCAACGA-G-AAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATG
170072 AAAATCGC
64 AAAATCGC
170080 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGA
1 AATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGA
170145 AAATCGC
65 AAATCGC
* * * * *
170152 AACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGC-GAAATGAAAATCGCAA--CG--A-
1 AATGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAAT
*
170209 GAGAATCGC
63 GAAAATCGC
*
170218 AATACAGAAATGAAAATCGCAA
1 AATGC-GAAATGAAAATCGCAA
170240 TGCGAAATGA
Statistics
Matches: 141, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
65 5 0.04
66 16 0.11
67 3 0.02
69 2 0.01
71 17 0.12
72 83 0.59
73 8 0.06
74 7 0.05
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (71 bp):
AATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
AATCGC
Found at i:170118 original size:105 final size:102
Alignment explanation
Indices: 169988--170257 Score: 348
Period size: 105 Copynumber: 2.6 Consensus size: 102
169978 CGGAAATTAC
**
169988 AATCGCAACGAGAGAATCAAAATGC-GAAATGAAAATCCCAA-C-ATGAAAATCGCAATGCGGAA
1 AATCGCAACGAGAGAATCGCAATGCAGAAATGAAAATCCCAAGCAATGAAAATCGCAA--C-G--
170050 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61 A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
170093 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCAGAAATGAAAATCCCAA-GC--AATGAAAATCGCAACGAG
*
170158 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
170198 AATCGCAACGAGAGAATCGCAATACAGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCAGAAATGAAAATCCCAA-GC--AATGAAAATCGCA
170258 TTGCGATTCT
Statistics
Matches: 153, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
105 121 0.79
106 16 0.10
108 2 0.01
109 1 0.01
111 13 0.08
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (102 bp):
AATCGCAACGAGAGAATCGCAATGCAGAAATGAAAATCCCAAGCAATGAAAATCGCAACGAGAAA
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:170123 original size:53 final size:52
Alignment explanation
Indices: 169988--170257 Score: 388
Period size: 53 Copynumber: 5.1 Consensus size: 52
169978 CGGAAATTAC
** *
169988 AATCGCAACGAGAGAATCAAAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
170035 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
170093 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
170146 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
170198 AATCGCAACGAGAGAATCGCAATACAGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
170251 AATCGCA
1 AATCGCA
170258 TTGCGATTCT
Statistics
Matches: 204, Mismatches: 6, Indels: 20
0.89 0.03 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 65 0.32
53 113 0.55
55 2 0.01
56 1 0.00
58 13 0.06
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:170263 original size:72 final size:68
Alignment explanation
Indices: 169969--170262 Score: 240
Period size: 72 Copynumber: 4.2 Consensus size: 68
169959 GCATTTGACT
** * * ** * *
169969 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCAAAATGCGAAATGAAAATCCCAAC-ATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGATG
170033 AAA
66 AAA
* *
170036 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATACGAAATGAAAATCGCAA
*
170101 CGA-GAGA
61 CGATGAAA
* * * * *
170108 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-G-AAAATCGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATA-CGAAATGA-A-AATCGCAA--
170170 CGAAATGAAA
61 CG--ATGAAA
170180 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATACAGAAATGAAAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATAC-GAAATGAAAATCGCAA--CG
170244 AAATGAAA
63 --ATGAAA
*
170252 ATCGCATTGCG
1 ATCGCAATGCG
170263 ATTCTCTCGT
Statistics
Matches: 186, Mismatches: 22, Indels: 32
0.77 0.09 0.13
Matches are distributed among these distances:
64 2 0.01
65 7 0.04
66 4 0.02
67 33 0.18
69 4 0.02
70 1 0.01
71 21 0.11
72 102 0.55
73 4 0.02
74 8 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (68 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGATG
AAA
Found at i:170277 original size:105 final size:105
Alignment explanation
Indices: 170055--170257 Score: 388
Period size: 105 Copynumber: 1.9 Consensus size: 105
170045 CGGAAATGAA
* *
170055 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACAG
170120 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
66 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
170160 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACAG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACAG
170225 AAATGAAAATCGCAATGCGAAATGAAAATCGCA
66 AAATGAAAATCGCAATGCGAAATGAAAATCGCA
170258 TTGCGATTCT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (105 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACAG
AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:170297 original size:53 final size:52
Alignment explanation
Indices: 170234--170349 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
170224 GAAATGAAAA
*
170234 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
170286 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
170339 TCGCATTGCGA
1 TCGCATTGCGA
170350 TTTTCATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:170312 original size:19 final size:19
Alignment explanation
Indices: 170272--170369 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
170262 GATTCTCTCG
170272 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
170292 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
170311 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
170325 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
170344 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
170363 TTGCGAT
1 TTGCGAT
170370 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.50
20 15 0.21
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:170375 original size:19 final size:19
Alignment explanation
Indices: 170334--170378 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
170324 GTTGCGATTT
* **
170334 TCATTTCGCATTGCGATTT
1 TCATTTTGCATTGCGATAG
170353 TCATTTTGCATTGCGATAG
1 TCATTTTGCATTGCGATAG
170372 TCATTTT
1 TCATTTT
170379 TGCCTTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (19 bp):
TCATTTTGCATTGCGATAG
Found at i:170495 original size:14 final size:14
Alignment explanation
Indices: 170476--170512 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
170466 CATCAATTAC
170476 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
170490 ACAAATCATCTTTT
1 ACAAATCAACTTTT
170504 ACAAATCAA
1 ACAAATCAA
170513 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:172477 original size:19 final size:19
Alignment explanation
Indices: 172435--172607 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
172425 TAGTTTACTT
* *
172435 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
172455 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
172474 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
172493 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
172512 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
172531 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
172545 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
172564 TCACAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
172578 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
172597 TCGCAATGCGA
1 TCGCAACGCGA
172608 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:172556 original size:33 final size:33
Alignment explanation
Indices: 172510--172602 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
172500 GCGAAACCAA
172510 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* * *
172543 AATCGCAATGCGAAATGAAAATCACAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
172576 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
172603 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:172638 original size:14 final size:14
Alignment explanation
Indices: 172619--172677 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
172609 TTTGGTTTCG
172619 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
172633 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
172650 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
172666 CGTTGCGATTTT
1 CGTTGCGATTTT
172678 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:172645 original size:33 final size:33
Alignment explanation
Indices: 172603--172726 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
172593 AAAATCGCAA
*
172603 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
172636 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
172669 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
172702 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
172727 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:172657 original size:19 final size:18
Alignment explanation
Indices: 172603--172694 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
172593 AAAATCGCAA
172603 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
172622 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
172636 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
172655 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
172669 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
172688 TGCGATT
1 TGCGATT
172695 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:172704 original size:14 final size:14
Alignment explanation
Indices: 172652--172708 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
172642 TTTGGTTTCG
*
172652 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
172666 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
172685 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
172699 CGTTGCGATT
1 CGTTGCGATT
172709 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:172983 original size:93 final size:93
Alignment explanation
Indices: 172824--173139 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
172814 TCAGGGTATT
172824 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
172889 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
172917 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
172982 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
173010 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
173075 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
173103 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
173140 AAGCAATCTA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:174817 original size:20 final size:20
Alignment explanation
Indices: 174786--174882 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
174776 TTTTGGTTGA
174786 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
174806 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
174826 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
174845 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
174860 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
174880 AAT
1 AAT
174883 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:174838 original size:21 final size:21
Alignment explanation
Indices: 174784--174848 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
174774 TCTTTTGGTT
174784 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
174805 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
174825 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
174846 GAA
1 GAA
174849 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:174852 original size:14 final size:14
Alignment explanation
Indices: 174833--174889 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
174823 GAGAAATGAA
174833 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
174847 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
174866 AATCGCAACGAGAG
1 AATCGCAACGAGAG
174880 AATCGCAACG
1 AATCGCAACG
174890 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:174865 original size:33 final size:33
Alignment explanation
Indices: 174784--174906 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
174774 TCTTTTGGTT
*
174784 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
174825 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
174858 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
174891 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
174907 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:174942 original size:14 final size:14
Alignment explanation
Indices: 174923--174979 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
174913 TTTGGTTTCG
174923 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
174937 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
174956 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
174970 CGTTGCGATT
1 CGTTGCGATT
174980 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:174955 original size:33 final size:33
Alignment explanation
Indices: 174907--174986 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
174897 AAAATCGCAA
**
174907 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
174940 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
174973 TGCGATTTTCATTT
1 TGCGATTTTCATTT
174987 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:174992 original size:21 final size:21
Alignment explanation
Indices: 174967--175040 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
174957 GTTGCGATTC
174967 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
174988 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
175009 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
175030 TCTCGTTGCGA
1 TCTCGTTGCGA
175041 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:175162 original size:33 final size:33
Alignment explanation
Indices: 175120--175190 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
175110 AATACTAACT
175120 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
175153 TGAAAATCGCAACGAGAGAATTGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
175186 TGAAA
1 TGAAA
175191 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:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:175595 original size:20 final size:20
Alignment explanation
Indices: 175570--175762 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
175560 CTTTAAAAAT
175570 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
175590 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
175610 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
175631 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
175651 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
175671 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
175691 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
175711 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
175731 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
175751 CGCGTTGCGATT
1 CGCGTTGCGATT
175763 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:178503 original size:433 final size:433
Alignment explanation
Indices: 177695--178520 Score: 993
Period size: 433 Copynumber: 1.9 Consensus size: 433
177685 ATGTTGTAGC
* * * *
177695 ATATACTAAGTCACACGAAGTGACGTGACATATGTCACGTTACTCAAAGTGATGATATAAAATAT
1 ATATACTAAGTCACACGAAATAACGTGACATATGTCACGTTACTCAAAGTGATAATATAAAATAC
* * ** * * *
177760 AATATATTACCTAAAGTAATGATGTGATATATATCATGTCACTCAAAGAGATGACACGTCACATG
66 AATACATCACCTAAAGTAATGATGCAAAATATATCATATCACTCAAAGAGATAACACGTCACATG
* * * *
177825 TCACATCATTAATTAAATACATGTGAAAATATTACATCAATAATATATGTTAATGATTTTCATCT
131 TCACATCATCAATTAAACACATGTGAAAATATTACATCAACAACATATGTTAATGATTTTCATCT
* * * * * * * *
177890 AAAAAGAGATATTTTGACCAAAAATTAAATTGGTAAGGGTTAAAATCGCACAAGAAAAAAAAATA
196 AAAAAGAGATATTTTAACCAAAAATTAAAATAGTAAGAGTTAAAATCACAAAAAAAAAAAAAAAA
* * * * * *
177955 GAGGGCAAAGTACTATTTGTGTAAATGTTGGGAACTCATTTTGTCATTATGTCTCTTTTTAGTAG
261 GAGGGCAAAGTAATATTTCTATAAATGTTGGGAACTCATTTTATAATTATGTCTCTTTTTAATAG
* * *
178020 TTTGAGACAATTACAAGATAATATATGTTCACAATTTTTCTTAGTATATAAATAATGCACACACT
326 TTTGAGACAATTACAAGATAATATATGTTCACAATCTTTCTTAATATATAAATAACGCACACACT
178085 TTACAAACACTACTACTTAAATTCGAATCCTCTAAAAAATAGT
391 TTACAAACACTACTACTTAAATTCGAATCCTCTAAAAAATAGT
* * * * *
178128 ATATACTAAGTCAC-CGAAAATAACGTGATATATGTCATGTTACTCAAAGTGATAATGTGACATA
1 ATATACTAAGTCACACG-AAATAACGTGACATATGTCACGTTACTCAAAGTGATAATATAAAATA
* * ** * *
178192 CAATACATCA-CTCAAAGTGATGATGCAAAATATGTCATATCA-TACAAATCGATAACATGTTAC
65 CAATACATCACCT-AAAGTAATGATGCAAAATATATCATATCACT-CAAAGAGATAACACGTCAC
* * *
178255 ATGTCACATTATCAATTAAACACATGTGAAAATATTACATCAACAACATGTTTTAATGATTTTCA
128 ATGTCACATCATCAATTAAACACATGTGAAAATATTACATCAACAACATATGTTAATGATTTTCA
* * *
178320 TCTAATAAGAGATATTTTAATCAAAAATTAAAATATTAAGAGTTAAAATTTCTACAAAAAAAAAA
193 TCTAAAAAGAGATATTTTAACCAAAAATTAAAATAGTAAGAGTTAAAA--TC-ACAAAAAAAAAA
* * * *
178385 AAAAAATAGGGCAAAGTAATATTTCTATAGATGTTGGGTAC-CAATTTTATAATTATG-GT-TTT
255 AAAAAAGAGGGCAAAGTAATATTTCTATAAATGTTGGGAACTC-ATTTTATAATTATGTCTCTTT
* * * * *
178447 TTAATAGTTTGATATAATTACAA-AGTAATATATTTTTATAATCTTT-TTAATATATAAATAACG
319 TTAATAGTTTGAGACAATTACAAGA-TAATATATGTTCACAATCTTTCTTAATATATAAATAACG
*
178510 CACACATTTTA
383 CACACACTTTA
178521 TAATCATTGT
Statistics
Matches: 326, Mismatches: 59, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
432 5 0.02
433 222 0.68
434 40 0.12
435 4 0.01
436 55 0.17
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (433 bp):
ATATACTAAGTCACACGAAATAACGTGACATATGTCACGTTACTCAAAGTGATAATATAAAATAC
AATACATCACCTAAAGTAATGATGCAAAATATATCATATCACTCAAAGAGATAACACGTCACATG
TCACATCATCAATTAAACACATGTGAAAATATTACATCAACAACATATGTTAATGATTTTCATCT
AAAAAGAGATATTTTAACCAAAAATTAAAATAGTAAGAGTTAAAATCACAAAAAAAAAAAAAAAA
GAGGGCAAAGTAATATTTCTATAAATGTTGGGAACTCATTTTATAATTATGTCTCTTTTTAATAG
TTTGAGACAATTACAAGATAATATATGTTCACAATCTTTCTTAATATATAAATAACGCACACACT
TTACAAACACTACTACTTAAATTCGAATCCTCTAAAAAATAGT
Found at i:181078 original size:225 final size:226
Alignment explanation
Indices: 180637--181244 Score: 925
Period size: 225 Copynumber: 2.7 Consensus size: 226
180627 ACATAACCGA
* * *
180637 TTAATTACTGGAAAAATTATCAATCATAATAACAT-AC-AGATAGCGCTTATGTAACGTAATAGG
1 TTAATTACTGGAAAAATTATCAACCATAATAACATAACAAG-TAGCGCTTATTTAATGTAATAGG
* * * * **
180700 TAACTCCTTTTTAAAGCTGACGGGGCATTAGAAATCCAACGATAACAAAATAGGTTAATTACTTG
65 TAGCTCCTGTTTAAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTG
* *
180765 ATTTGTTATTCAATATTATCAACATATTAGGTAGCGCCTAAAGTGTTACCGAAGTTTAAGTTGAT
130 ATTTGTTA-TCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCGAAGTTTAAGCTGAT
180830 GGAGCCTTAGAAATCCGACGATAACAAAATAGG
194 GGAGCCTTAGAAATCCGACGATAACAAAATAGG
* *
180863 TTAATTACTGGAAATATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATATGT
1 TTAATTACTGGAAAAATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
* *
180928 TGCTCCTGTTTAAAGCTGATGGGGCCTTAGAAATCTGACG-TAACAAAATATGTTAATTACTTGA
66 AGCTCCTGTTTAAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGA
* *
180992 TTTGTTATCATTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCTAAGTTTAAGCTGATGG
131 TTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCGAAGTTTAAGCTGATGG
* *
181057 AGCCTTGGAAATCTGACGATAACAAAATAGG
196 AGCCTTAGAAATCCGACGATAACAAAATAGG
* * *
181088 TTAATTACTGGATACATTATCAACCATAATAACATAACAAGTAGCGTTTATTTAATGTAATAGGT
1 TTAATTACTGGAAAAATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
* * * * * *
181153 AGCGCATGTTAAAAGCTGATGGGGCCTTATAAATCTGATGATAACAAAATAGGTTAATTAATTGA
66 AGCTCCTGTTTAAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGA
181218 TTTGTTATCAATATTATCAACATATTA
131 TTTGTTATCAATATTATCAACATATTA
181245 CCGTGTAAAT
Statistics
Matches: 347, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
225 178 0.51
226 111 0.32
227 56 0.16
228 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (226 bp):
TTAATTACTGGAAAAATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
AGCTCCTGTTTAAAGCTGATGGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGA
TTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCGAAGTTTAAGCTGATGG
AGCCTTAGAAATCCGACGATAACAAAATAGG
Found at i:181132 original size:108 final size:109
Alignment explanation
Indices: 180935--181133 Score: 251
Period size: 108 Copynumber: 1.8 Consensus size: 109
180925 TGTTGCTCCT
* * * * *
180935 GTTTAAAGCTGATGGGGCCTTAGAAATCTGACG-TAACAAAATATGTTAATTACTTGATTTGTTA
1 GTTT-AAGCTGATGGAGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTGGATATATTA
** * ** *
180999 TC-ATTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCTAA
65 TCAACCATAATCAACATAACAAGTAGCGCCTAAAATGTTACCTAA
* *
181043 GTTTAAGCTGATGGAGCCTTGGAAATCTGACGATAACAAAATAGGTTAATTACTGGATACATTAT
1 GTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTGGATATATTAT
181108 CAACCATAAT-AACATAACAAGTAGCG
66 CAACCATAATCAACATAACAAGTAGCG
181134 TTTATTTAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 26 0.34
108 45 0.59
109 5 0.07
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (109 bp):
GTTTAAGCTGATGGAGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTGGATATATTAT
CAACCATAATCAACATAACAAGTAGCGCCTAAAATGTTACCTAA
Found at i:182237 original size:12 final size:12
Alignment explanation
Indices: 182191--182239 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
182181 CCCCCTACCA
182191 CATTCTCTT-TT
1 CATTCTCTTCTT
*
182202 ACCTTCTCTTCTT
1 -CATTCTCTTCTT
* *
182215 CATTATTTTCTT
1 CATTCTCTTCTT
182227 CATTCTCTTCTT
1 CATTCTCTTCTT
182239 C
1 C
182240 CTTAACTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 28 0.93
13 2 0.07
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (12 bp):
CATTCTCTTCTT
Found at i:185266 original size:138 final size:137
Alignment explanation
Indices: 185009--185259 Score: 398
Period size: 138 Copynumber: 1.8 Consensus size: 137
184999 AAATTGTATC
*
185009 TAAAAGTTATCGATCGATTTTTTTAATGCATAATGGTGCATTTTCATATCAGTACAATGTGTACT
1 TAAAAGTTATCGATCGATTTTTTTAATGCATAATGGTGCATTTTCATATCAGTACAATATGTACT
* *
185074 TTCGACACTAGATGTGCAATCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGATATACAA
66 TTCGACACGAGATGTGCAATCATGGAATTCATAATGAGTTTGTGAATTACCATTTCGATATACAA
185139 TTATGTA
131 TTATGTA
* * *
185146 TAAAAGTTATCGATCGATTTTGTTTAATGCATAATGGTGTATTTTCGTATCAGTACTATATGTAC
1 TAAAAGTTATCGATCGATTTT-TTTAATGCATAATGGTGCATTTTCATATCAGTACAATATGTAC
*
185211 TTTCGGCACGATG-TGTGC-ATCCATGGAATTCATAATGAGTTTGTGAATT
65 TTTCGACACGA-GATGTGCAAT-CATGGAATTCATAATGAGTTTGTGAATT
185260 TTCATTTTGG
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
137 23 0.22
138 80 0.77
139 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (137 bp):
TAAAAGTTATCGATCGATTTTTTTAATGCATAATGGTGCATTTTCATATCAGTACAATATGTACT
TTCGACACGAGATGTGCAATCATGGAATTCATAATGAGTTTGTGAATTACCATTTCGATATACAA
TTATGTA
Found at i:188200 original size:21 final size:21
Alignment explanation
Indices: 188163--188223 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
188153 TACCACATAC
* *
188163 CCGAAGGACAACATAGATGTCT
1 CCGAAGGACCACGTAGAT-TCT
188185 -CGAAGGACCACGTAGAATTCT
1 CCGAAGGACCACGTAG-ATTCT
*
188206 CCCGAAGGACCTCGTAGA
1 -CCGAAGGACCACGTAGA
188224 ACTCTCGACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 16 0.48
22 3 0.09
23 14 0.42
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (21 bp):
CCGAAGGACCACGTAGATTCT
Found at i:188215 original size:23 final size:23
Alignment explanation
Indices: 188185--188229 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
188175 ATAGATGTCT
*
188185 CGAAGGACCACGTAGAATTCTCC
1 CGAAGGACCACGTAGAACTCTCC
*
188208 CGAAGGACCTCGTAGAACTCTC
1 CGAAGGACCACGTAGAACTCTC
188230 GACTCTTGGC
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:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (23 bp):
CGAAGGACCACGTAGAACTCTCC
Found at i:193173 original size:17 final size:17
Alignment explanation
Indices: 193151--193193 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
193141 TAAAATTCAA
193151 GGAAGAATTTTCTTAAG
1 GGAAGAATTTTCTTAAG
193168 GGAAGAATTTTCTTAAG
1 GGAAGAATTTTCTTAAG
*
193185 GGGAGAATT
1 GGAAGAATT
193194 GTAATACCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (17 bp):
GGAAGAATTTTCTTAAG
Found at i:197256 original size:23 final size:25
Alignment explanation
Indices: 197209--197257 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
197199 TAATTATGAA
*
197209 AAAATATTTATATACATTTATAAAT
1 AAAATATTTATATACATTTAGAAAT
*
197234 AAAATATTTAT-T-TATTTAGAAAT
1 AAAATATTTATATACATTTAGAAAT
197257 A
1 A
197258 TCAGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATTTATATACATTTAGAAAT
Found at i:198855 original size:3 final size:3
Alignment explanation
Indices: 198847--198918 Score: 101
Period size: 3 Copynumber: 24.0 Consensus size: 3
198837 AATTATTTTT
*
198847 TAA TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
198892 TTA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
198919 AATGGGTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.92
4 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:199275 original size:124 final size:117
Alignment explanation
Indices: 199067--199338 Score: 348
Period size: 124 Copynumber: 2.3 Consensus size: 117
199057 TCTTCTCTTT
* * * *
199067 CTTCAGATGAGTTCCTCTCATTATGAACTTTTCGCTGGGGATGATGTTGACCTATTTCCTTCTGT
1 CTTCAGATGAGTTCTTCTCATTATGAAC-TTTCGCTGGGGATGATGCTAACCTATCTCCTTCTGT
*
199132 GATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTTCTC
65 GATAGAATCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAA---CTT-TTTCTC
* * * *
199189 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGG---GGATGATGCTAACCTATCTCCTTCT
* * *
199254 GTGATAGAATTATGT-AAAAGGTTGAATAAGCTCTTCTCATTGTGAACTTTTTCTT
63 GTGATAGAATCAT-TCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
199309 CTTCAGATGAGTTCTTCTCATTATGAACTT
1 CTTCAGATGAGTTCTTCTCATTATGAACTT
199339 CTTCTTCTTC
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
120 35 0.26
121 11 0.08
122 27 0.20
124 60 0.45
125 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (117 bp):
CTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGGGGATGATGCTAACCTATCTCCTTCTGTG
ATAGAATCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTC
Found at i:199325 original size:36 final size:36
Alignment explanation
Indices: 199285--199376 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
199275 TTGAATAAGC
* *
199285 TCTTCTCATTGTGAACTTTTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
*
199321 TCTTCTCATTATGAACTTCTTCTTCTTCGGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
199357 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
199377 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:199342 original size:17 final size:17
Alignment explanation
Indices: 199320--199376 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
199310 TTCAGATGAG
199320 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
199337 TTCTTCTTC-TTCGGATG-AG
1 TTCTTC-TCATT---ATGAAC
199356 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
199373 TTCT
1 TTCT
199377 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.09
17 13 0.41
18 4 0.12
19 9 0.28
20 3 0.09
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:199449 original size:108 final size:108
Alignment explanation
Indices: 199320--200375 Score: 1339
Period size: 108 Copynumber: 9.5 Consensus size: 108
199310 TTCAGATGAG
* *
199320 TTCTTCTCATTATGAACTTCTTCTTCTTCGGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
* *
199385 GCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
66 GCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
199428 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
* *
199493 GCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
66 GCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
199536 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTTCTCTGGA
1 TTCTTCTCATTATGAATTTCTTCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTCTCTGGA
* *
199601 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
63 AAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
199647 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
* *
199712 GCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
66 GCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
199755 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCT--CTG
* * * * * * *
199819 GCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
61 GAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
* *
199867 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TCAAACT
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCT
* * * * *
199931 GGTAATGCTGATCCATTGAA-TGATGAATTAAAGCAAAAAGTTGAACAAG
60 GGAAAAGCTGATCCA-TCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
* *
199980 TTCTTCTCATTATGAACTTTTTCTGCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCT
1 TTCTTCTCATTATGAA---TTTCT-TCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TTCTCT
* * * *
200045 GGAAAAGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
60 GGAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
* * * * *
200094 TTCTTCTCATTATGAACTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAAC-TCGAACTGGT
1 TTCTTCTCATTATGAATTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCTGGA
* * * *
200158 AATGCTGATCCATTGAA-TGATGAATTTAAGTAAAAAGTTGAACAAG
63 AAAGCTGATCCA-TCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
* * *
200204 TTCTTCTCATTATGAACTTTTTCTGCCTTCTTCAGATGAGTTCTTCTCATTCTGAACTTTTCGCT
1 TTCTTCTCATTATGAA---TTTCT-TCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TTCTCT
* * *
200269 GGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
60 GGAAAAGCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
* *
200318 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACT
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACT
200376 CGAACTGGTA
Statistics
Matches: 849, Mismatches: 64, Indels: 66
0.87 0.07 0.07
Matches are distributed among these distances:
108 248 0.29
109 1 0.00
110 59 0.07
111 163 0.19
112 59 0.07
113 150 0.18
114 149 0.18
115 5 0.01
116 15 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (108 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
GCTGATCCATCAAGTGATGAATTTAAGCAAAAAGTTGAACAAA
Found at i:200173 original size:224 final size:219
Alignment explanation
Indices: 199318--200413 Score: 1460
Period size: 224 Copynumber: 4.9 Consensus size: 219
199308 TCTTCAGATG
* *
199318 AGTTCTTCTCATTATGAAC-TTCTTCTTCTTCGGATGAGTTCTTCTCATTATGAAC-TTCTCTGG
1 AGTTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGG
* * * * * *
199381 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAATT
66 AAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* * * * *
199446 TCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TCTGGAAAAGCTGATCCA-TCAAGT
131 TCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TCAACTGGTAATGCTGATCCATTGAA-T
* *
199508 GATGGATTTGAGCAAAAAGTTGAACA
194 GATGAATTTAAGCAAAAAGTTGAACA
* *
199534 AATTCTTCTCATTATGAA-TTTCTTCTTCTTCAGATGATGAGTTCTTCTCATTATGAAC-TTCTC
1 AGTTCTTCTCATTATGAACTTTCTTCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTTCGC
* * * * *
199597 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
63 TGGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGA
* * * * * *
199662 ATTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TCTGGAAAAGCTGATCCA-TCA
128 ACTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TCAACTGGTAATGCTGATCCATTGA
* *
199724 AGTGATGGATTTGAGCAAAAAGTTGAACA
192 A-TGATGAATTTAAGCAAAAAGTTGAACA
* *
199753 AATTCTTCTCATTATGAA-TTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-
1 AGTTCTTCTCATTATGAACTTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCG
* * * *
199816 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
62 CTGGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
199881 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCAAACTGGTAATGCTGATCCA
127 AA---CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTC-AACTGGTAATGCTGATCCA
*
199946 TTGAATGATGAATTAAAGCAAAAAGTTGAACA
188 TTGAATGATGAATTTAAGCAAAAAGTTGAACA
*
199978 AGTTCTTCTCATTATGAACTTTTTCTGCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCG
1 AGTTCTTCTCATTATGAAC--TTTCT-TCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCG
*
200043 CTGGAAAAGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
62 CTGGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
200108 AACTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTCGAACTGGTAATGCTGATCCATTG
127 AACTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTC-AACTGGTAATGCTGATCCATTG
*
200173 AATGATGAATTTAAGTAAAAAGTTGAACA
191 AATGATGAATTTAAGCAAAAAGTTGAACA
* *
200202 AGTTCTTCTCATTATGAACTTTTTCTGCCTTCTTCAGATGAGTTCTTCTCATTCTGAACTTTTCG
1 AGTTCTTCTCATTATGAAC--TTTCT-TCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCG
200267 CTGGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
62 CTGGAAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
200332 AACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTTATTATGAACTCGAACTGGTAATGCTGATCCA
127 AA---CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTC-AACTGGTAATGCTGATCCA
200397 TTGAATGATGAATTTAA
188 TTGAATGATGAATTTAA
200414 ATCTTTGCTA
Statistics
Matches: 822, Mismatches: 33, Indels: 39
0.92 0.04 0.04
Matches are distributed among these distances:
216 32 0.04
217 1 0.00
219 235 0.29
220 58 0.07
221 2 0.00
223 7 0.01
224 248 0.30
225 56 0.07
226 25 0.03
227 142 0.17
228 5 0.01
229 11 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (219 bp):
AGTTCTTCTCATTATGAACTTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGG
AAAAGCTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCAACTGGTAATGCTGATCCATTGAATGA
TGAATTTAAGCAAAAAGTTGAACA
Found at i:201293 original size:115 final size:115
Alignment explanation
Indices: 201116--201575 Score: 798
Period size: 115 Copynumber: 4.0 Consensus size: 115
201106 GATCATGCAG
* * * * * ** *
201116 TTCATCTTTTAATTCCAATGATTGG-TTCTGTGGTTCCTACTGAACCAGATTAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
201180 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
201230 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
201295 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
201345 TTTATCTTTCAAATCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA-
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
201409 AACCACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AA-CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
*
201460 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
201525 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
201575 T
1 T
201576 GGCACTTGCT
Statistics
Matches: 330, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
114 25 0.08
115 303 0.92
116 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:202793 original size:13 final size:12
Alignment explanation
Indices: 202774--202833 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
202764 TCTTGACCCC
*
202774 CTTTTTTCTTTT
1 CTTTTTTTTTTT
202786 CTTTTTTTTTCTT
1 CTTTTTTTTT-TT
*
202799 CTTTTTCATTCTTT
1 CTTTTT--TTTTTT
*
202813 CTTTTTTTTGTT
1 CTTTTTTTTTTT
202825 CTTTTTTTT
1 CTTTTTTTT
202834 CTTCAAGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 22 0.54
13 8 0.20
14 8 0.20
15 3 0.07
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:206130 original size:42 final size:41
Alignment explanation
Indices: 206061--206147 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
206051 TCCGAGAAGG
* *
206061 CTTA-AAATGGCCCGGAGGACTTATCATC-TCACTCGAAAGA
1 CTTACAAATGACCCGAAGGACTTATCATCAT-ACTCGAAAGA
* *
206101 CTTACAAATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAAATGACCCGAAGGACTT-ATCATCATACTCGAAAGA
206143 CTTAC
1 CTTAC
206148 TGATGAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 4 0.10
41 15 0.38
42 20 0.50
43 1 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
CTTACAAATGACCCGAAGGACTTATCATCATACTCGAAAGA
Found at i:206239 original size:80 final size:80
Alignment explanation
Indices: 206111--206392 Score: 492
Period size: 80 Copynumber: 3.5 Consensus size: 80
206101 CTTACAAATG
206111 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
206176 GAAGGCTTACCAGTT
66 GAAGGCTTACCAGTT
** *
206191 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGGTTTGCTTCACTACTCTTCGGT
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
** *
206256 GAAGGCTTAAAAATT
66 GAAGGCTTACCAGTT
* *
206271 ACCCGAAGGATTTAATTACCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
206336 GAAGGCTTACCAGTT
66 GAAGGCTTACCAGTT
206351 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
206393 GCCCGAAGGA
Statistics
Matches: 186, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 186 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (80 bp):
ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACTACTCTTCCGT
GAAGGCTTACCAGTT
Found at i:206375 original size:160 final size:160
Alignment explanation
Indices: 206101--206393 Score: 550
Period size: 160 Copynumber: 1.8 Consensus size: 160
206091 ACTCGAAAGA
* *
206101 CTTACAAATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGAATTTGCTTCACT
1 CTTAAAAATGACCCGAAGGATTTAATCACCATGCTCGAAAGACTTACTGATGAATTTGCTTCACT
206166 ACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
66 ACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
206231 TGGGTTTGCTTCACTACTCTTCGGTGAAGG
131 TGGGTTTGCTTCACTACTCTTCGGTGAAGG
* *
206261 CTTAAAAATTACCCGAAGGATTTAATTACCATGCTCGAAAGACTTACTGATGAATTTGCTTCACT
1 CTTAAAAATGACCCGAAGGATTTAATCACCATGCTCGAAAGACTTACTGATGAATTTGCTTCACT
206326 ACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
66 ACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
206391 TGG
131 TGG
206394 CCCGAAGGAC
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 129 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (160 bp):
CTTAAAAATGACCCGAAGGATTTAATCACCATGCTCGAAAGACTTACTGATGAATTTGCTTCACT
ACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
TGGGTTTGCTTCACTACTCTTCGGTGAAGG
Found at i:206783 original size:41 final size:41
Alignment explanation
Indices: 206733--206834 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 41
206723 AGGTTTTATG
* *
206733 GATGGCCCGAAGGACTTATCATCTTGCTCT-AAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCT-TGAAAGACTTACA
* * * *
206774 GATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTTGAAAGACTTACA
206816 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
206835 AAATTGTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
41 17 0.34
42 33 0.66
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTTGAAAGACTTACA
Found at i:223825 original size:15 final size:15
Alignment explanation
Indices: 223802--223833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
223792 TGAAATGAAT
223802 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
223817 AATGTATGTATGCAA
1 AATGAATGTATGCAA
223832 AA
1 AA
223834 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:227720 original size:23 final size:25
Alignment explanation
Indices: 227673--227721 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
227663 TAATTATGAA
*
227673 AAAATATTTATATACATTTATAAAT
1 AAAATATTTATATACATTTAGAAAT
*
227698 AAAATATTTAT-T-TATTTAGAAAT
1 AAAATATTTATATACATTTAGAAAT
227721 A
1 A
227722 TCAGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATTTATATACATTTAGAAAT
Done.